sbuild (Debian sbuild) 0.62.6 (07 Dec 2011) on build01.raspbian.lan ╔══════════════════════════════════════════════════════════════════════════════╗ ║ pymol 1.5.0.1-2 (armhf) 22 May 2012 12:25 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: pymol Version: 1.5.0.1-2 Source Version: 1.5.0.1-2 Distribution: testing Architecture: armhf I: NOTICE: Log filtering will replace 'build/pymol-A9KfwE/pymol-1.5.0.1' with '«PKGBUILDDIR»' I: NOTICE: Log filtering will replace 'build/pymol-A9KfwE' with '«BUILDDIR»' I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/testing-armhf-sbuild-13122d23-7986-42ec-ad66-73e846b6ca6b' with '«CHROOT»' ┌──────────────────────────────────────────────────────────────────────────────┐ │ Update chroot │ └──────────────────────────────────────────────────────────────────────────────┘ Hit http://repo.raspbian.lan testing InRelease Hit http://repo.raspbian.lan testing/main Sources Hit http://repo.raspbian.lan testing/main armhf Packages Ign http://repo.raspbian.lan testing/main TranslationIndex Ign http://repo.raspbian.lan testing/main Translation-en Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Fetch source files │ └──────────────────────────────────────────────────────────────────────────────┘ Check APT ───────── Checking available source versions... Download source files with APT ────────────────────────────── Reading package lists... Building dependency tree... Reading state information... NOTICE: 'pymol' packaging is maintained in the 'Svn' version control system at: svn://svn.debian.org/svn/debichem/unstable/pymol/ Need to get 9800 kB of source archives. Get:1 http://repo.raspbian.lan/raspbian/ testing/main pymol 1.5.0.1-2 (dsc) [1467 B] Get:2 http://repo.raspbian.lan/raspbian/ testing/main pymol 1.5.0.1-2 (tar) [9731 kB] Get:3 http://repo.raspbian.lan/raspbian/ testing/main pymol 1.5.0.1-2 (diff) [67.2 kB] Fetched 9800 kB in 0s (10.4 MB/s) Download complete and in download only mode Check arch ────────── Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-hPOQPJ/apt_archive/sbuild-build-depends-core-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install core build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-core-dummy debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 1 newly installed, 0 to remove and 16 not upgraded. Need to get 0 B/704 B of archives. After this operation, 0 B of additional disk space will be used. Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 10669 files and directories currently installed.) Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>> 7.0.50~), python, python-dev, python-numpy, freeglut3-dev, libglew1.5-dev, libpng12-0-dev, tk8.4-dev, libfreetype6-dev, python-support (>= 0.4), texlive-latex-base Filtered Build-Depends: libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>> 7.0.50~), python, python-dev, python-numpy, freeglut3-dev, libglew1.5-dev, libpng12-0-dev, tk8.4-dev, libfreetype6-dev, python-support (>= 0.4), texlive-latex-base dpkg-deb: building package `sbuild-build-depends-pymol-dummy' in `/«BUILDDIR»/resolver-1sY3hu/apt_archive/sbuild-build-depends-pymol-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install pymol build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: bsdmainutils debhelper ed file fontconfig-config freeglut3 freeglut3-dev gettext gettext-base groff-base html2text intltool-debian libblas3gf libcroco3 libdrm2 libexpat1 libexpat1-dev libffi5 libfontconfig1 libfreetype6 libfreetype6-dev libgfortran3 libgl1-mesa-dev libgl1-mesa-glx libglapi-mesa libglew-dev libglew1.7 libglib2.0-0 libglu1-mesa libglu1-mesa-dev libgraphite3 libice-dev libice6 libjpeg8 libkpathsea6 liblapack3gf liblcms1 libmagic1 libopenjpeg2 libpaper-utils libpaper1 libpcre3 libpipeline1 libpng12-0 libpng12-dev libpoppler13 libptexenc1 libpthread-stubs0 libpthread-stubs0-dev libpython2.7 libsm-dev libsm6 libsqlite3-0 libssl-dev libssl1.0.0 libunistring0 libx11-6 libx11-data libx11-dev libxau-dev libxau6 libxaw7 libxcb1 libxcb1-dev libxdamage1 libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes3 libxi6 libxml2 libxmu6 libxpm4 libxt-dev libxt6 libxxf86vm1 luatex man-db mesa-common-dev mime-support po-debconf python python-dev python-minimal python-numpy python-support python2.7 python2.7-dev python2.7-minimal tcl8.4 tcl8.4-dev tex-common texlive-base texlive-binaries texlive-common texlive-doc-base texlive-latex-base tk8.4 tk8.4-dev ttf-dejavu-core x11-common x11proto-core-dev x11proto-input-dev x11proto-kb-dev x11proto-xext-dev xorg-sgml-doctools xtrans-dev zlib1g-dev Suggested packages: wamerican wordlist whois vacation dh-make gettext-doc groff glew-utils libice-doc liblcms-utils libsm-doc libxcb-doc libxext-doc libxt-doc less www-browser libmail-box-perl python-doc python-tk python-numpy-doc python-numpy-dbg python-nose gfortran python2.7-doc binfmt-support tclreadline tcl8.4-doc perl-tk xpdf-reader pdf-viewer ghostscript gv postscript-viewer tk8.4-doc Recommended packages: curl wget lynx-cur autopoint libgl1-mesa-dri libglib2.0-data shared-mime-info poppler-data libssl-doc libx11-doc xml-core texlive-luatex libmail-sendmail-perl lmodern ruby wish texlive-latex-base-doc xterm x-terminal-emulator The following NEW packages will be installed: bsdmainutils debhelper ed file fontconfig-config freeglut3 freeglut3-dev gettext gettext-base groff-base html2text intltool-debian libblas3gf libcroco3 libdrm2 libexpat1 libexpat1-dev libffi5 libfontconfig1 libfreetype6 libfreetype6-dev libgfortran3 libgl1-mesa-dev libgl1-mesa-glx libglapi-mesa libglew-dev libglew1.7 libglib2.0-0 libglu1-mesa libglu1-mesa-dev libgraphite3 libice-dev libice6 libjpeg8 libkpathsea6 liblapack3gf liblcms1 libmagic1 libopenjpeg2 libpaper-utils libpaper1 libpcre3 libpipeline1 libpng12-0 libpng12-dev libpoppler13 libptexenc1 libpthread-stubs0 libpthread-stubs0-dev libpython2.7 libsm-dev libsm6 libsqlite3-0 libssl-dev libssl1.0.0 libunistring0 libx11-6 libx11-data libx11-dev libxau-dev libxau6 libxaw7 libxcb1 libxcb1-dev libxdamage1 libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes3 libxi6 libxml2 libxmu6 libxpm4 libxt-dev libxt6 libxxf86vm1 luatex man-db mesa-common-dev mime-support po-debconf python python-dev python-minimal python-numpy python-support python2.7 python2.7-dev python2.7-minimal sbuild-build-depends-pymol-dummy tcl8.4 tcl8.4-dev tex-common texlive-base texlive-binaries texlive-common texlive-doc-base texlive-latex-base tk8.4 tk8.4-dev ttf-dejavu-core x11-common x11proto-core-dev x11proto-input-dev x11proto-kb-dev x11proto-xext-dev xorg-sgml-doctools xtrans-dev zlib1g-dev debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 110 newly installed, 0 to remove and 16 not upgraded. Need to get 0 B/112 MB of archives. After this operation, 240 MB of additional disk space will be used. Selecting previously unselected package libpcre3:armhf. (Reading database ... 10669 files and directories currently installed.) Unpacking libpcre3:armhf (from .../libpcre3_1%3a8.30-5_armhf.deb) ... Selecting previously unselected package libpipeline1:armhf. Unpacking libpipeline1:armhf (from .../libpipeline1_1.2.1-1_armhf.deb) ... Selecting previously unselected package libssl1.0.0:armhf. Unpacking libssl1.0.0:armhf (from .../libssl1.0.0_1.0.1c-1_armhf.deb) ... Selecting previously unselected package libmagic1:armhf. Unpacking libmagic1:armhf (from .../libmagic1_5.11-1_armhf.deb) ... Selecting previously unselected package libsqlite3-0:armhf. Unpacking libsqlite3-0:armhf (from .../libsqlite3-0_3.7.11-3_armhf.deb) ... Selecting previously unselected package libxml2:armhf. Unpacking libxml2:armhf (from .../libxml2_2.7.8.dfsg-9_armhf.deb) ... 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Unpacking python-dev (from .../python-dev_2.7.2-10_all.deb) ... Selecting previously unselected package python-numpy. Unpacking python-numpy (from .../python-numpy_1%3a1.6.1-8_armhf.deb) ... Selecting previously unselected package tcl8.4. Unpacking tcl8.4 (from .../tcl8.4_8.4.19-4_armhf.deb) ... Selecting previously unselected package tcl8.4-dev. Unpacking tcl8.4-dev (from .../tcl8.4-dev_8.4.19-4_armhf.deb) ... Selecting previously unselected package tex-common. Unpacking tex-common (from .../tex-common_3.11_all.deb) ... Selecting previously unselected package texlive-common. Unpacking texlive-common (from .../texlive-common_2011.20120424-1_all.deb) ... Selecting previously unselected package texlive-doc-base. Unpacking texlive-doc-base (from .../texlive-doc-base_2011.20120424-1_all.deb) ... Selecting previously unselected package texlive-binaries. Unpacking texlive-binaries (from .../texlive-binaries_2011.20120410-1_armhf.deb) ... Selecting previously unselected package texlive-base. Unpacking texlive-base (from .../texlive-base_2011.20120424-1_all.deb) ... Selecting previously unselected package texlive-latex-base. Unpacking texlive-latex-base (from .../texlive-latex-base_2011.20120424-1_all.deb) ... Selecting previously unselected package tk8.4. Unpacking tk8.4 (from .../tk8.4_8.4.19-4_armhf.deb) ... Selecting previously unselected package tk8.4-dev. Unpacking tk8.4-dev (from .../tk8.4-dev_8.4.19-4_armhf.deb) ... Selecting previously unselected package sbuild-build-depends-pymol-dummy. Unpacking sbuild-build-depends-pymol-dummy (from .../sbuild-build-depends-pymol-dummy.deb) ... Setting up libpcre3:armhf (1:8.30-5) ... Setting up libpipeline1:armhf (1.2.1-1) ... Setting up libssl1.0.0:armhf (1.0.1c-1) ... Setting up libmagic1:armhf (5.11-1) ... Setting up libsqlite3-0:armhf (3.7.11-3) ... Setting up libxml2:armhf (2.7.8.dfsg-9) ... Setting up libffi5:armhf (3.0.10-3+b3) ... Setting up libglib2.0-0:armhf (2.32.2-1) ... No schema files found: doing nothing. Setting up libcroco3:armhf (0.6.5-1) ... Setting up libdrm2:armhf (2.4.33-1) ... Setting up libexpat1:armhf (2.1.0-1) ... Setting up libfreetype6:armhf (2.4.9-1) ... Setting up ttf-dejavu-core (2.33-2) ... Setting up fontconfig-config (2.9.0-3) ... Setting up libfontconfig1:armhf (2.9.0-3) ... Setting up libgfortran3:armhf (4.7.0-1.1+rpi) ... Setting up libglapi-mesa:armhf (7.11.2-1) ... Setting up libxau6:armhf (1:1.0.7-1) ... Setting up libxdmcp6:armhf (1:1.1.1-1) ... Setting up libxcb1:armhf (1.8.1-1) ... Setting up libx11-data (2:1.4.99.901-2) ... Setting up libx11-6:armhf (2:1.4.99.901-2) ... Setting up libxdamage1:armhf (1:1.1.3-2) ... Setting up libxext6:armhf (2:1.3.1-2) ... Setting up libxfixes3:armhf (1:5.0-4) ... Setting up libxxf86vm1:armhf (1:1.1.2-1) ... Setting up libgl1-mesa-glx:armhf (7.11.2-1) ... Setting up libglu1-mesa:armhf (7.11.2-1) ... Setting up libxi6:armhf (2:1.6.0-1) ... Setting up x11-common (1:7.6+13) ... All runlevel operations denied by policy invoke-rc.d: policy-rc.d denied execution of start. Setting up libice6:armhf (2:1.0.8-2) ... Setting up libsm6:armhf (2:1.2.1-2) ... Setting up libxt6:armhf (1:1.1.3-1) ... Setting up libxmu6:armhf (2:1.1.1-1) ... Setting up libglew1.7:armhf (1.7.0-3) ... Setting up libjpeg8:armhf (8d-1) ... Setting up libpaper1:armhf (1.1.24+nmu2) ... Creating config file /etc/papersize with new version Setting up libpng12-0:armhf (1.2.49-1) ... Setting up libunistring0:armhf (0.9.3-5) ... Setting up libxpm4:armhf (1:3.5.10-1) ... Setting up libxaw7:armhf (2:1.0.10-2) ... Setting up bsdmainutils (9.0.1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode. update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode. Setting up groff-base (1.21-7) ... Setting up man-db (2.6.1-2) ... Building database of manual pages ... Setting up file (5.11-1) ... Setting up gettext-base (0.18.1.1-5+rpi1) ... Setting up mime-support (3.52-1) ... update-alternatives: using /usr/bin/see to provide /usr/bin/view (view) in auto mode. Setting up python2.7-minimal (2.7.3~rc2-2.1) ... Setting up python2.7 (2.7.3~rc2-2.1) ... Setting up python-minimal (2.7.2-10) ... Setting up python (2.7.2-10) ... Setting up python-support (1.0.14) ... Setting up html2text (1.3.2a-15) ... Setting up gettext (0.18.1.1-5+rpi1) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2) ... Setting up debhelper (9.20120419) ... Setting up ed (1.6-1) ... Setting up freeglut3 (2.6.0-1.1) ... Setting up xorg-sgml-doctools (1:1.10-1) ... Setting up x11proto-core-dev (7.0.23-1) ... Setting up libxau-dev:armhf (1:1.0.7-1) ... Setting up libxdmcp-dev:armhf (1:1.1.1-1) ... Setting up x11proto-input-dev (2.2-1) ... Setting up x11proto-kb-dev (1.0.6-1) ... Setting up xtrans-dev (1.2.7-1) ... Setting up libpthread-stubs0:armhf (0.3-3) ... Setting up libpthread-stubs0-dev:armhf (0.3-3) ... Setting up libxcb1-dev:armhf (1.8.1-1) ... Setting up libx11-dev:armhf (2:1.4.99.901-2) ... Setting up mesa-common-dev (7.11.2-1) ... Setting up x11proto-xext-dev (7.2.1-1) ... Setting up libxext-dev:armhf (2:1.3.1-2) ... Setting up libgl1-mesa-dev (7.11.2-1) ... Setting up libglu1-mesa-dev (7.11.2-1) ... Setting up libice-dev:armhf (2:1.0.8-2) ... Setting up libsm-dev:armhf (2:1.2.1-2) ... Setting up libxt-dev:armhf (1:1.1.3-1) ... Setting up freeglut3-dev (2.6.0-1.1) ... Setting up libblas3gf (1.2.20110419-2) ... update-alternatives: using /usr/lib/libblas/libblas.so.3gf to provide /usr/lib/libblas.so.3gf (libblas.so.3gf) in auto mode. Setting up libexpat1-dev (2.1.0-1) ... Setting up zlib1g-dev:armhf (1:1.2.7.dfsg-1) ... Setting up libfreetype6-dev (2.4.9-1) ... Setting up libglew-dev:armhf (1.7.0-3) ... Setting up libgraphite3 (1:2.3.1-0.2) ... Setting up libkpathsea6 (2011.20120410-1) ... Setting up liblapack3gf (3.3.1-1) ... update-alternatives: using /usr/lib/lapack/liblapack.so.3gf to provide /usr/lib/liblapack.so.3gf (liblapack.so.3gf) in auto mode. Setting up liblcms1 (1.19.dfsg-1) ... Setting up libpaper-utils (1.1.24+nmu2) ... Setting up libpng12-dev (1.2.49-1) ... Setting up libopenjpeg2 (1.3+dfsg-4) ... Setting up libpoppler13 (0.16.7-3) ... Setting up libptexenc1 (2011.20120410-1) ... Setting up libpython2.7 (2.7.3~rc2-2.1) ... Setting up libssl-dev (1.0.1c-1) ... Setting up luatex (0.70.1-3) ... texlive-base is not ready, cannot create formats Setting up python2.7-dev (2.7.3~rc2-2.1) ... Setting up python-dev (2.7.2-10) ... Setting up python-numpy (1:1.6.1-8) ... Setting up tcl8.4 (8.4.19-4) ... update-alternatives: using /usr/bin/tclsh8.4 to provide /usr/bin/tclsh (tclsh) in auto mode. Setting up tcl8.4-dev (8.4.19-4) ... Setting up tex-common (3.11) ... Running mktexlsr. This may take some time... done. texlive-base is not ready, delaying updmap-sys call texlive-base is not ready, skipping fmtutil-sys --all call Setting up texlive-common (2011.20120424-1) ... Setting up texlive-doc-base (2011.20120424-1) ... Setting up texlive-binaries (2011.20120410-1) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode. update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode. Building format(s) --refresh. This may take some time... done. Setting up tk8.4 (8.4.19-4) ... update-alternatives: using /usr/bin/wish8.4 to provide /usr/bin/wish (wish) in auto mode. Setting up tk8.4-dev (8.4.19-4) ... Processing triggers for tex-common ... Running mktexlsr. This may take some time... done. Setting up texlive-base (2011.20120424-1) ... /usr/bin/tl-paper: setting paper size for dvips to a4. /usr/bin/tl-paper: setting paper size for dvipdfmx to a4. /usr/bin/tl-paper: setting paper size for xdvi to a4. /usr/bin/tl-paper: setting paper size for pdftex to a4. Running mktexlsr. This may take some time... done. Building format(s) --all. This may take some time... done. Processing triggers for tex-common ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Setting up texlive-latex-base (2011.20120424-1) ... Running mktexlsr. This may take some time... done. Building format(s) --all --cnffile /etc/texmf/fmt.d/10texlive-latex-base.cnf. This may take some time... done. Processing triggers for tex-common ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Setting up sbuild-build-depends-pymol-dummy (0.invalid.0) ... Processing triggers for python-support ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build environment │ └──────────────────────────────────────────────────────────────────────────────┘ Kernel: Linux 3.2.0-2-mx5 armhf (armv7l) Toolchain package versions: binutils_2.22-6 dpkg-dev_1.16.2 g++-4.6_4.6.3-1.1+rpi2 gcc-4.6_4.6.3-1.1+rpi2 libc6-dev_2.13-32 libstdc++6_4.7.0-1.1+rpi libstdc++6-4.6-dev_4.6.3-1.1+rpi2 linux-libc-dev_3.2.12-1 Package versions: apt_0.8.15.10 base-files_6.7 base-passwd_3.5.24 bash_4.2-2 binutils_2.22-6 bsdmainutils_9.0.1 bsdutils_1:2.20.1-4 build-essential_11.5+b1 bzip2_1.0.6-1 coreutils_8.13-3.1 cpp_4:4.6.2-4 cpp-4.6_4.6.3-1.1+rpi2 dash_0.5.7-3 debconf_1.5.42 debfoster_2.7-1.1 debhelper_9.20120419 debian-archive-keyring_2010.08.28 debianutils_4.3 diffutils_1:3.2-2 dpkg_1.16.2 dpkg-dev_1.16.2 e2fslibs_1.42.2-2 e2fsprogs_1.42.2-2 ed_1.6-1 fakeroot_1.18.3-1 file_5.11-1 findutils_4.4.2-4 fontconfig-config_2.9.0-3 freeglut3_2.6.0-1.1 freeglut3-dev_2.6.0-1.1 g++_4:4.6.2-4 g++-4.6_4.6.3-1.1+rpi2 gcc_4:4.6.2-4 gcc-4.4-base_4.4.7-1.1+rpi1 gcc-4.5-base_4.5.3-12+rpi1 gcc-4.6_4.6.3-1.1+rpi2 gcc-4.6-base_4.6.3-1.1+rpi2 gcc-4.7-base_4.7.0-1.1+rpi gettext_0.18.1.1-5+rpi1 gettext-base_0.18.1.1-5+rpi1 gnupg_1.4.12-4 gpgv_1.4.12-4 grep_2.11-3 groff-base_1.21-7 gzip_1.4-5 hostname_3.11 html2text_1.3.2a-15 initscripts_2.88dsf-22.1 insserv_1.14.0-3 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-5 libattr1_1:2.4.46-5 libblas3gf_1.2.20110419-2 libblkid1_2.20.1-4 libbz2-1.0_1.0.6-1 libc-bin_2.13-32 libc-dev-bin_2.13-32 libc6_2.13-32 libc6-dev_2.13-32 libclass-isa-perl_0.36-3 libcomerr2_1.42.2-2 libcroco3_0.6.5-1 libdb5.1_5.1.29-1 libdpkg-perl_1.16.2 libdrm2_2.4.33-1 libexpat1_2.1.0-1 libexpat1-dev_2.1.0-1 libffi5_3.0.10-3+b3 libfile-fcntllock-perl_0.14-1 libfontconfig1_2.9.0-3 libfreetype6_2.4.9-1 libfreetype6-dev_2.4.9-1 libgc1c2_1:7.1-8 libgcc1_1:4.7.0-1.1+rpi libgdbm3_1.8.3-10 libgfortran3_4.7.0-1.1+rpi libgl1-mesa-dev_7.11.2-1 libgl1-mesa-glx_7.11.2-1 libglapi-mesa_7.11.2-1 libglew-dev_1.7.0-3 libglew1.7_1.7.0-3 libglib2.0-0_2.32.2-1 libglu1-mesa_7.11.2-1 libglu1-mesa-dev_7.11.2-1 libgmp10_2:5.0.5+dfsg-1.1 libgomp1_4.7.0-1.1+rpi libgraphite3_1:2.3.1-0.2 libice-dev_2:1.0.8-2 libice6_2:1.0.8-2 libjpeg8_8d-1 libkpathsea6_2011.20120410-1 liblapack3gf_3.3.1-1 liblcms1_1.19.dfsg-1 liblocale-gettext-perl_1.05-7 liblzma5_5.1.1alpha+20110809-3 libmagic1_5.11-1 libmount1_2.20.1-4 libmpc2_0.9-4 libmpfr4_3.1.0-4 libncurses5_5.9-7 libncursesw5_5.9-7 libopenjpeg2_1.3+dfsg-4 libpam-modules_1.1.3-7 libpam-modules-bin_1.1.3-7 libpam-runtime_1.1.3-7 libpam0g_1.1.3-7.1 libpaper-utils_1.1.24+nmu2 libpaper1_1.1.24+nmu2 libpcre3_1:8.30-5 libpipeline1_1.2.1-1 libpng12-0_1.2.49-1 libpng12-dev_1.2.49-1 libpoppler13_0.16.7-3 libptexenc1_2011.20120410-1 libpthread-stubs0_0.3-3 libpthread-stubs0-dev_0.3-3 libpython2.7_2.7.3~rc2-2.1 libreadline6_6.2-8 libselinux1_2.1.9-2 libsemanage-common_2.1.6-2 libsemanage1_2.1.6-2 libsepol1_2.1.4-3 libslang2_2.2.4-10 libsm-dev_2:1.2.1-2 libsm6_2:1.2.1-2 libsqlite3-0_3.7.11-3 libss2_1.42.2-2 libssl-dev_1.0.1c-1 libssl1.0.0_1.0.1c-1 libstdc++6_4.7.0-1.1+rpi libstdc++6-4.6-dev_4.6.3-1.1+rpi2 libswitch-perl_2.16-2 libtext-charwidth-perl_0.04-7 libtext-iconv-perl_1.7-5 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libtinfo5_5.9-7 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-20 libustr-1.0-1_1.0.4-2 libuuid1_2.20.1-4 libx11-6_2:1.4.99.901-2 libx11-data_2:1.4.99.901-2 libx11-dev_2:1.4.99.901-2 libxau-dev_1:1.0.7-1 libxau6_1:1.0.7-1 libxaw7_2:1.0.10-2 libxcb1_1.8.1-1 libxcb1-dev_1.8.1-1 libxdamage1_1:1.1.3-2 libxdmcp-dev_1:1.1.1-1 libxdmcp6_1:1.1.1-1 libxext-dev_2:1.3.1-2 libxext6_2:1.3.1-2 libxfixes3_1:5.0-4 libxi6_2:1.6.0-1 libxml2_2.7.8.dfsg-9 libxmu6_2:1.1.1-1 libxpm4_1:3.5.10-1 libxt-dev_1:1.1.3-1 libxt6_1:1.1.3-1 libxxf86vm1_1:1.1.2-1 linux-libc-dev_3.2.12-1 login_1:4.1.5-1 lsb-base_4.1+Debian0 luatex_0.70.1-3 make_3.81-8.1 man-db_2.6.1-2 mawk_1.3.3-17 mesa-common-dev_7.11.2-1 mime-support_3.52-1 mount_2.20.1-4 multiarch-support_2.13-30 ncurses-base_5.9-6 ncurses-bin_5.9-7 passwd_1:4.1.5-1 patch_2.6.1-3 perl_5.14.2-9 perl-base_5.14.2-9 perl-modules_5.14.2-9 po-debconf_1.0.16+nmu2 python_2.7.2-10 python-dev_2.7.2-10 python-minimal_2.7.2-10 python-numpy_1:1.6.1-8 python-support_1.0.14 python2.7_2.7.3~rc2-2.1 python2.7-dev_2.7.3~rc2-2.1 python2.7-minimal_2.7.3~rc2-2.1 readline-common_6.2-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-pymol-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-22.1 sysvinit_2.88dsf-22.1 sysvinit-utils_2.88dsf-22.1 tar_1.26-4 tcl8.4_8.4.19-4 tcl8.4-dev_8.4.19-4 tex-common_3.11 texlive-base_2011.20120424-1 texlive-binaries_2011.20120410-1 texlive-common_2011.20120424-1 texlive-doc-base_2011.20120424-1 texlive-latex-base_2011.20120424-1 tk8.4_8.4.19-4 tk8.4-dev_8.4.19-4 ttf-dejavu-core_2.33-2 tzdata_2012c-1 ucf_3.0025+nmu3 util-linux_2.20.1-4 x11-common_1:7.6+13 x11proto-core-dev_7.0.23-1 x11proto-input-dev_2.2-1 x11proto-kb-dev_1.0.6-1 x11proto-xext-dev_7.2.1-1 xorg-sgml-doctools_1:1.10-1 xtrans-dev_1.2.7-1 xz-utils_5.1.1alpha+20110809-3 zlib1g_1:1.2.7.dfsg-1 zlib1g-dev_1:1.2.7.dfsg-1 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build │ └──────────────────────────────────────────────────────────────────────────────┘ Unpack source ───────────── gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error gpgv: Signature made Wed May 2 16:33:26 2012 UTC using DSA key ID 9ED101BF gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./pymol_1.5.0.1-2.dsc dpkg-source: info: extracting pymol in pymol-1.5.0.1 dpkg-source: info: unpacking pymol_1.5.0.1.orig.tar.bz2 dpkg-source: info: unpacking pymol_1.5.0.1-2.debian.tar.gz dpkg-source: info: applying 02_test-suite.patch dpkg-source: info: applying 03_povray.patch dpkg-source: info: applying 05_examples_data_path.patch dpkg-source: info: applying 09_chempy_data_path.patch dpkg-source: info: applying 11_fix__cmd_import.patch dpkg-source: info: applying 13_activate_vmd_plugin.patch dpkg-source: info: applying 17_cmyk_png_data_path.patch dpkg-source: info: applying 19_blosum_matrix_path.patch dpkg-source: info: applying 20_output_license_terms.patch dpkg-source: info: applying 21_fix_png_batch_mode.patch dpkg-source: info: applying 22_fix_pymol_import.patch dpkg-source: info: applying 24_autodock_plugin.patch dpkg-source: info: applying 25_ignore_setup_clean_errors.patch dpkg-source: info: applying 26_subversion_updates.patch Check disc space ──────────────── Sufficient free space for build User Environment ──────────────── HOME=/sbuild-nonexistent LOGNAME=buildd PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/X11R6/bin:/usr/games SCHROOT_CHROOT_NAME=testing-armhf-sbuild SCHROOT_COMMAND=env SCHROOT_GID=108 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=testing-armhf-sbuild-13122d23-7986-42ec-ad66-73e846b6ca6b SCHROOT_UID=106 SCHROOT_USER=buildd SHELL=/bin/sh TERM=xterm USER=buildd dpkg-buildpackage ───────────────── dpkg-buildpackage: source package pymol dpkg-buildpackage: source version 1.5.0.1-2 dpkg-source --before-build pymol-1.5.0.1 dpkg-buildpackage: host architecture armhf fakeroot debian/rules clean dh clean --with python2 --parallel dh_testdir -O--parallel debian/rules override_dh_auto_clean make[1]: Entering directory `/«PKGBUILDDIR»' [ ! -f Makefile ] || /usr/bin/make distclean dh_auto_clean -Spython_distutils running clean 'build/lib.linux-armv7l-2.7' does not exist -- can't clean it 'build/bdist.linux-armv7l' does not exist -- can't clean it 'build/scripts-2.7' does not exist -- can't clean it After running: python setup.py install Please run, to complete the installation: python setup2.py install To uninstall PyMOL, run: python setup2.py uninstall python setup.py clean running clean After running: python setup.py install Please run, to complete the installation: python setup2.py install To uninstall PyMOL, run: python setup2.py uninstall make[1]: Leaving directory `/«PKGBUILDDIR»' debian/rules override_dh_clean make[1]: Entering directory `/«PKGBUILDDIR»' rm -f -r build test/tmp test/cmp generated dh_clean debian/pymol.launch debian/pymol-ref-card.* \ Rules.make create_shadertext.pyc make[1]: Leaving directory `/«PKGBUILDDIR»' debian/rules build-arch dh build-arch --with python2 --parallel dh_testdir -a -O--parallel debian/rules override_dh_auto_configure make[1]: Entering directory `/«PKGBUILDDIR»' dh_auto_configure -Spython_distutils make[1]: Leaving directory `/«PKGBUILDDIR»' debian/rules override_dh_auto_build make[1]: Entering directory `/«PKGBUILDDIR»' dh_auto_build -Spython_distutils running build running build_py creating build creating build/lib.linux-armv7l-2.7 creating build/lib.linux-armv7l-2.7/chempy copying modules/chempy/bond_amber.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/solvate.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/gamess1.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/mae.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/mass.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/water_amber.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/protein_mmff.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/water_residues.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/mmd.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/pdb.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/bond_mmff.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/cc1.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/cex.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/dictdb.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/cif.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/arc.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/protein_amber99.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/protein_residues.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/mol2.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/place.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/xyz.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/neighbor.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/lst.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/brick.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/charge.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/protein.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/gms.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/sdf.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/io.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/__init__.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/pkl.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/bonds.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/map.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/mol.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/protein_amber.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/cpv.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/hetatm.py -> build/lib.linux-armv7l-2.7/chempy copying modules/chempy/models.py -> build/lib.linux-armv7l-2.7/chempy creating build/lib.linux-armv7l-2.7/chempy/bmin copying modules/chempy/bmin/state.py -> build/lib.linux-armv7l-2.7/chempy/bmin copying modules/chempy/bmin/commands.py -> build/lib.linux-armv7l-2.7/chempy/bmin copying modules/chempy/bmin/util.py -> build/lib.linux-armv7l-2.7/chempy/bmin copying modules/chempy/bmin/__init__.py -> build/lib.linux-armv7l-2.7/chempy/bmin copying modules/chempy/bmin/realtime.py -> build/lib.linux-armv7l-2.7/chempy/bmin creating build/lib.linux-armv7l-2.7/chempy/champ copying modules/chempy/champ/amber99.py -> build/lib.linux-armv7l-2.7/chempy/champ copying modules/chempy/champ/formal_charges.py -> build/lib.linux-armv7l-2.7/chempy/champ copying modules/chempy/champ/assign.py -> build/lib.linux-armv7l-2.7/chempy/champ copying modules/chempy/champ/__init__.py -> build/lib.linux-armv7l-2.7/chempy/champ creating build/lib.linux-armv7l-2.7/chempy/fast copying modules/chempy/fast/__init__.py -> build/lib.linux-armv7l-2.7/chempy/fast creating build/lib.linux-armv7l-2.7/chempy/fragments copying modules/chempy/fragments/__init__.py -> build/lib.linux-armv7l-2.7/chempy/fragments creating build/lib.linux-armv7l-2.7/chempy/tinker copying modules/chempy/tinker/amber.py -> build/lib.linux-armv7l-2.7/chempy/tinker copying modules/chempy/tinker/state.py -> build/lib.linux-armv7l-2.7/chempy/tinker copying modules/chempy/tinker/keyword.py -> build/lib.linux-armv7l-2.7/chempy/tinker copying modules/chempy/tinker/__init__.py -> build/lib.linux-armv7l-2.7/chempy/tinker copying modules/chempy/tinker/realtime.py -> build/lib.linux-armv7l-2.7/chempy/tinker creating build/lib.linux-armv7l-2.7/pmg_tk copying modules/pmg_tk/PyMOLMapLoad.py -> build/lib.linux-armv7l-2.7/pmg_tk copying modules/pmg_tk/PMGApp.py -> build/lib.linux-armv7l-2.7/pmg_tk copying modules/pmg_tk/ColorEditor.py -> build/lib.linux-armv7l-2.7/pmg_tk copying modules/pmg_tk/SetEditor.py -> build/lib.linux-armv7l-2.7/pmg_tk copying modules/pmg_tk/__init__.py -> build/lib.linux-armv7l-2.7/pmg_tk copying modules/pmg_tk/Setting.py -> build/lib.linux-armv7l-2.7/pmg_tk copying modules/pmg_tk/Demo.py -> build/lib.linux-armv7l-2.7/pmg_tk creating build/lib.linux-armv7l-2.7/pmg_tk/startup copying modules/pmg_tk/startup/autodock.py -> build/lib.linux-armv7l-2.7/pmg_tk/startup copying modules/pmg_tk/startup/remote_pdb_load.py -> build/lib.linux-armv7l-2.7/pmg_tk/startup copying modules/pmg_tk/startup/__init__.py -> build/lib.linux-armv7l-2.7/pmg_tk/startup copying modules/pmg_tk/startup/apbs_tools.py -> build/lib.linux-armv7l-2.7/pmg_tk/startup creating build/lib.linux-armv7l-2.7/pmg_tk/skins copying modules/pmg_tk/skins/__init__.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins creating build/lib.linux-armv7l-2.7/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/ModalWindow.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/volume.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/SimpleColorChooser.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/hist.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/ColorRampModel.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/builder.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/__init__.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/normal copying modules/pmg_tk/skins/normal/ColorMap.py -> build/lib.linux-armv7l-2.7/pmg_tk/skins/normal creating build/lib.linux-armv7l-2.7/pmg_wx copying modules/pmg_wx/__init__.py -> build/lib.linux-armv7l-2.7/pmg_wx creating build/lib.linux-armv7l-2.7/pymol copying modules/pymol/shortcut.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/completing.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/fitting.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/exporting.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/invocation.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/colorramping.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/editing.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/m4x.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/wizarding.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/selecting.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/xray.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/vfont.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/internal.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/xwin.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/controlling.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/helping.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/parsing.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/parser.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/preset.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/constants_palette.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/creating.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/querying.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/callback.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/computing.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/externing.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/api.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/povray.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/locking.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/checking.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/util.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/gui.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/importing.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/keyboard.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/viewing.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/editor.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/keywords.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/selector.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/setting.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/__init__.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/moving.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/headering.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/monitoring.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/commanding.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/feedingback.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/cmd.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/experimenting.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/rpc.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/cgo.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/constants.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/movie.py -> build/lib.linux-armv7l-2.7/pymol copying modules/pymol/menu.py -> build/lib.linux-armv7l-2.7/pymol creating build/lib.linux-armv7l-2.7/pymol/contrib copying modules/pymol/contrib/__init__.py -> build/lib.linux-armv7l-2.7/pymol/contrib creating build/lib.linux-armv7l-2.7/pymol/opengl copying modules/pymol/opengl/__init__.py -> build/lib.linux-armv7l-2.7/pymol/opengl creating build/lib.linux-armv7l-2.7/pymol/opengl/gl copying modules/pymol/opengl/gl/glconst.py -> build/lib.linux-armv7l-2.7/pymol/opengl/gl copying modules/pymol/opengl/gl/__init__.py -> build/lib.linux-armv7l-2.7/pymol/opengl/gl creating build/lib.linux-armv7l-2.7/pymol/opengl/glu copying modules/pymol/opengl/glu/gluconst.py -> build/lib.linux-armv7l-2.7/pymol/opengl/glu copying modules/pymol/opengl/glu/__init__.py -> build/lib.linux-armv7l-2.7/pymol/opengl/glu creating build/lib.linux-armv7l-2.7/pymol/opengl/glut copying modules/pymol/opengl/glut/glutconst.py -> build/lib.linux-armv7l-2.7/pymol/opengl/glut copying modules/pymol/opengl/glut/__init__.py -> build/lib.linux-armv7l-2.7/pymol/opengl/glut creating build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/measurement.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/label.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/pseudoatom.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/pair_fit.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/benchmark.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/toggle.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/fedora.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/cleanup.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/annotation.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/demo.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/stereodemo.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/filter.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/mutagenesis.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/box.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/dragging.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/security.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/distance.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/charge.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/message.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/density.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/renaming.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/__init__.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/sculpting.py -> build/lib.linux-armv7l-2.7/pymol/wizard copying modules/pymol/wizard/appearance.py -> build/lib.linux-armv7l-2.7/pymol/wizard creating build/lib.linux-armv7l-2.7/pymol2 copying modules/pymol2/cmd2.py -> build/lib.linux-armv7l-2.7/pymol2 copying modules/pymol2/__init__.py -> build/lib.linux-armv7l-2.7/pymol2 copying modules/pymol2/make_cmd2.py -> build/lib.linux-armv7l-2.7/pymol2 creating build/lib.linux-armv7l-2.7/web copying modules/web/pymolhttpd.py -> build/lib.linux-armv7l-2.7/web copying modules/web/__init__.py -> build/lib.linux-armv7l-2.7/web creating build/lib.linux-armv7l-2.7/web/examples copying modules/web/examples/justhttpd.py -> build/lib.linux-armv7l-2.7/web/examples copying modules/web/examples/__init__.py -> build/lib.linux-armv7l-2.7/web/examples package init file 'modules/web/javascript/__init__.py' not found (or not a regular file) package init file 'modules/web/javascript/__init__.py' not found (or not a regular file) running build_ext building 'pymol._cmd' extension creating build/temp.linux-armv7l-2.7 creating build/temp.linux-armv7l-2.7/modules creating build/temp.linux-armv7l-2.7/modules/cealign creating build/temp.linux-armv7l-2.7/modules/cealign/src creating build/temp.linux-armv7l-2.7/generated creating build/temp.linux-armv7l-2.7/generated/src creating build/temp.linux-armv7l-2.7/ov creating build/temp.linux-armv7l-2.7/ov/src creating build/temp.linux-armv7l-2.7/layer0 creating build/temp.linux-armv7l-2.7/layer1 creating build/temp.linux-armv7l-2.7/layer2 creating build/temp.linux-armv7l-2.7/layer3 creating build/temp.linux-armv7l-2.7/layer4 creating build/temp.linux-armv7l-2.7/layer5 creating build/temp.linux-armv7l-2.7/contrib creating build/temp.linux-armv7l-2.7/contrib/uiuc creating build/temp.linux-armv7l-2.7/contrib/uiuc/plugins creating build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin creating build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c modules/cealign/src/ccealignmodule.cpp -o build/temp.linux-armv7l-2.7/modules/cealign/src/ccealignmodule.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c generated/src/ShaderText.c -o build/temp.linux-armv7l-2.7/generated/src/ShaderText.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c ov/src/OVContext.c -o build/temp.linux-armv7l-2.7/ov/src/OVContext.o -ffast-math -funroll-loops -O3 -g ov/src/OVContext.c: In function 'OVContext_Del': ov/src/OVContext.c:21:13: warning: variable 'heap' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c ov/src/OVHeapArray.c -o build/temp.linux-armv7l-2.7/ov/src/OVHeapArray.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c ov/src/OVHeap.c -o build/temp.linux-armv7l-2.7/ov/src/OVHeap.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c ov/src/OVLexicon.c -o build/temp.linux-armv7l-2.7/ov/src/OVLexicon.o -ffast-math -funroll-loops -O3 -g ov/src/OVLexicon.c: In function 'OVLexicon_BorrowFromCString': ov/src/OVLexicon.c:360:11: warning: variable 'cur_index' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c ov/src/OVOneToOne.c -o build/temp.linux-armv7l-2.7/ov/src/OVOneToOne.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c ov/src/OVOneToAny.c -o build/temp.linux-armv7l-2.7/ov/src/OVOneToAny.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c ov/src/OVRandom.c -o build/temp.linux-armv7l-2.7/ov/src/OVRandom.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c ov/src/ov_utility.c -o build/temp.linux-armv7l-2.7/ov/src/ov_utility.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Block.c -o build/temp.linux-armv7l-2.7/layer0/Block.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Crystal.c -o build/temp.linux-armv7l-2.7/layer0/Crystal.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Debug.c -o build/temp.linux-armv7l-2.7/layer0/Debug.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Deferred.c -o build/temp.linux-armv7l-2.7/layer0/Deferred.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Err.c -o build/temp.linux-armv7l-2.7/layer0/Err.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Feedback.c -o build/temp.linux-armv7l-2.7/layer0/Feedback.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Field.c -o build/temp.linux-armv7l-2.7/layer0/Field.o -ffast-math -funroll-loops -O3 -g layer0/Field.c: In function 'FieldNewFromPyList': layer0/Field.c:136:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] layer0/Field.c:135:16: warning: variable 'n_elem' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Isosurf.c -o build/temp.linux-armv7l-2.7/layer0/Isosurf.o -ffast-math -funroll-loops -O3 -g layer0/Isosurf.c: In function 'IsosurfNewFromPyList': layer0/Isosurf.c:168:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Map.c -o build/temp.linux-armv7l-2.7/layer0/Map.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Match.c -o build/temp.linux-armv7l-2.7/layer0/Match.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Matrix.c -o build/temp.linux-armv7l-2.7/layer0/Matrix.o -ffast-math -funroll-loops -O3 -g layer0/Matrix.c: In function 'MatrixFitRMSTTTf': layer0/Matrix.c:1358:18: warning: variable 'ix' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/MemoryDebug.c -o build/temp.linux-armv7l-2.7/layer0/MemoryDebug.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/MemoryCache.c -o build/temp.linux-armv7l-2.7/layer0/MemoryCache.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/MyPNG.c -o build/temp.linux-armv7l-2.7/layer0/MyPNG.o -ffast-math -funroll-loops -O3 -g In file included from /usr/include/python2.7/Python.h:8:0, from layer0/os_python.h:28, from layer1/Setting.h:20, from layer0/MyPNG.c:56: /usr/include/python2.7/pyconfig.h:1161:0: warning: "_POSIX_C_SOURCE" redefined [enabled by default] /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Parse.c -o build/temp.linux-armv7l-2.7/layer0/Parse.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Pixmap.c -o build/temp.linux-armv7l-2.7/layer0/Pixmap.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Queue.c -o build/temp.linux-armv7l-2.7/layer0/Queue.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Raw.c -o build/temp.linux-armv7l-2.7/layer0/Raw.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Sphere.c -o build/temp.linux-armv7l-2.7/layer0/Sphere.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/ShaderMgr.c -o build/temp.linux-armv7l-2.7/layer0/ShaderMgr.o -ffast-math -funroll-loops -O3 -g layer0/ShaderMgr.c: In function 'CShaderMgr_ReadShaderFromDisk': layer0/ShaderMgr.c:449:7: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'size_t' [-Wformat] layer0/ShaderMgr.c: In function 'CShaderPrg_Enable_CylinderShader': layer0/ShaderMgr.c:973:10: warning: variable 'm' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Tetsurf.c -o build/temp.linux-armv7l-2.7/layer0/Tetsurf.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Texture.c -o build/temp.linux-armv7l-2.7/layer0/Texture.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Tracker.c -o build/temp.linux-armv7l-2.7/layer0/Tracker.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Triangle.c -o build/temp.linux-armv7l-2.7/layer0/Triangle.o -ffast-math -funroll-loops -O3 -g layer0/Triangle.c: In function 'TriangleBuildLast': layer0/Triangle.c:1511:7: warning: variable 'both_active' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Util.c -o build/temp.linux-armv7l-2.7/layer0/Util.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Vector.c -o build/temp.linux-armv7l-2.7/layer0/Vector.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Word.c -o build/temp.linux-armv7l-2.7/layer0/Word.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/os_gl.c -o build/temp.linux-armv7l-2.7/layer0/os_gl.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Basis.c -o build/temp.linux-armv7l-2.7/layer1/Basis.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/ButMode.c -o build/temp.linux-armv7l-2.7/layer1/ButMode.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Character.c -o build/temp.linux-armv7l-2.7/layer1/Character.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/CGO.c -o build/temp.linux-armv7l-2.7/layer1/CGO.o -ffast-math -funroll-loops -O3 -g layer1/CGO.c: In function 'CGONewFromPyList': layer1/CGO.c:432:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'CGOFromFloatArray': layer1/CGO.c:607:7: warning: variable 'c' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'CGOCombineBeginEnd': layer1/CGO.c:1708:11: warning: variable 'pickColorValsUC' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'OptimizePointsToVBO': layer1/CGO.c:2200:9: warning: variable 'err' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'CGOOptimizeToVBONotIndexed': layer1/CGO.c:2461:9: warning: variable 'err' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'CGOOptimizeToVBOIndexedWithColor': layer1/CGO.c:3085:9: warning: variable 'err' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'CGOSimplify': layer1/CGO.c:4420:11: warning: variable 'pickColorValsUC' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'CGORenderRay': layer1/CGO.c:4961:42: warning: variable 'pickColorVals' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'CGORenderGLPicking': layer1/CGO.c:6198:73: warning: variable 'pbnd' set but not used [-Wunused-but-set-variable] layer1/CGO.c:6198:57: warning: variable 'pidx' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'CGOSimpleCone': layer1/CGO.c:7452:15: warning: variable 'nub2' set but not used [-Wunused-but-set-variable] layer1/CGO.c:7452:9: warning: variable 'nub1' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Color.c -o build/temp.linux-armv7l-2.7/layer1/Color.o -ffast-math -funroll-loops -O3 -g layer1/Color.c: In function 'ColorExtFromPyList': layer1/Color.c:428:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] layer1/Color.c: In function 'ColorDef': layer1/Color.c:645:7: warning: variable 'best' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Control.c -o build/temp.linux-armv7l-2.7/layer1/Control.o -ffast-math -funroll-loops -O3 -g layer1/Control.c: In function 'ControlDrag': layer1/Control.c:251:7: warning: variable 'width' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Extrude.c -o build/temp.linux-armv7l-2.7/layer1/Extrude.o -ffast-math -funroll-loops -O3 -g layer1/Extrude.c: In function 'ExtrudeCGOSurfaceVariableTube': layer1/Extrude.c:1112:14: warning: variable 'stop' set but not used [-Wunused-but-set-variable] layer1/Extrude.c:1112:7: warning: variable 'start' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Font.c -o build/temp.linux-armv7l-2.7/layer1/Font.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/FontType.c -o build/temp.linux-armv7l-2.7/layer1/FontType.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/FontGLUT.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUT.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/FontGLUT8x13.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUT8x13.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/FontGLUT9x15.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUT9x15.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/FontGLUTHel10.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel10.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/FontGLUTHel12.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel12.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/FontGLUTHel18.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel18.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Movie.c -o build/temp.linux-armv7l-2.7/layer1/Movie.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Ortho.c -o build/temp.linux-armv7l-2.7/layer1/Ortho.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/P.c -o build/temp.linux-armv7l-2.7/layer1/P.o -ffast-math -funroll-loops -O3 -g layer1/P.c: In function 'PLabelExprUsesVariable': layer1/P.c:196:17: warning: variable 'buffer' set but not used [-Wunused-but-set-variable] layer1/P.c: In function 'PAlterAtomState': layer1/P.c:811:59: warning: variable 'z_id1' set but not used [-Wunused-but-set-variable] layer1/P.c:811:36: warning: variable 'y_id1' set but not used [-Wunused-but-set-variable] layer1/P.c:811:13: warning: variable 'x_id1' set but not used [-Wunused-but-set-variable] layer1/P.c: In function 'PFlush': layer1/P.c:2621:7: warning: implicit declaration of function 'OrthoCommandOutSize' [-Wimplicit-function-declaration] layer1/P.c:2621:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses] layer1/P.c: In function 'PFlushFast': layer1/P.c:2665:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/PConv.c -o build/temp.linux-armv7l-2.7/layer1/PConv.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Pop.c -o build/temp.linux-armv7l-2.7/layer1/Pop.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/PyMOLObject.c -o build/temp.linux-armv7l-2.7/layer1/PyMOLObject.o -ffast-math -funroll-loops -O3 -g layer1/PyMOLObject.c: In function 'ObjectMotion': layer1/PyMOLObject.c:382:13: warning: variable 'zero_flag' set but not used [-Wunused-but-set-variable] layer1/PyMOLObject.c: In function 'ObjectStateFromPyList': layer1/PyMOLObject.c:1509:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Ray.c -o build/temp.linux-armv7l-2.7/layer1/Ray.o -ffast-math -funroll-loops -O3 -g In file included from layer1/Ray.c:44:0: layer1/Basis.c: In function 'ConeLineToSphereCapped': layer1/Basis.c:847:11: warning: variable 'base2orig_len' set but not used [-Wunused-but-set-variable] layer1/Basis.c: In function 'BasisHitShadow': layer1/Basis.c:2429:7: warning: variable 'check_interior_flag' set but not used [-Wunused-but-set-variable] layer1/Basis.c:2428:7: warning: variable 'excl_trans_flag' set but not used [-Wunused-but-set-variable] layer1/Ray.c: In function 'RayRenderG3d': layer1/Ray.c:894:36: warning: variable 'scale_z' set but not used [-Wunused-but-set-variable] layer1/Ray.c: In function 'RayRenderIDTF': layer1/Ray.c:2117:11: warning: variable 'mesh_start' set but not used [-Wunused-but-set-variable] layer1/Ray.c: In function 'RayRenderPOV': layer1/Ray.c:2430:28: warning: variable 'bkrd_bottom' set but not used [-Wunused-but-set-variable] layer1/Ray.c:2430:17: warning: variable 'bkrd_top' set but not used [-Wunused-but-set-variable] layer1/Ray.c:2428:7: warning: variable 'fogRangeFlag' set but not used [-Wunused-but-set-variable] layer1/Ray.c:2427:7: warning: variable 'fogFlag' set but not used [-Wunused-but-set-variable] layer1/Ray.c: In function 'RayRender': layer1/Ray.c:6144:15: warning: variable 'dc' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Rep.c -o build/temp.linux-armv7l-2.7/layer1/Rep.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Scene.c -o build/temp.linux-armv7l-2.7/layer1/Scene.o -ffast-math -funroll-loops -O3 -g layer1/Scene.c: In function 'SceneDraw': layer1/Scene.c:3394:22: warning: variable 'color_word' set but not used [-Wunused-but-set-variable] layer1/Scene.c: In function 'SceneReadTriplets': layer1/Scene.c:3601:7: warning: variable 'dim' set but not used [-Wunused-but-set-variable] layer1/Scene.c: In function 'SceneDrag': layer1/Scene.c:6000:8: warning: variable 'result' set but not used [-Wunused-but-set-variable] layer1/Scene.c:6048:8: warning: variable 'result' set but not used [-Wunused-but-set-variable] layer1/Scene.c: In function 'SceneReshape': layer1/Scene.c:6425:7: warning: variable 'y' set but not used [-Wunused-but-set-variable] layer1/Scene.c: In function 'SceneApplyImageGamma': layer1/Scene.c:6599:7: warning: variable 'big_endian' set but not used [-Wunused-but-set-variable] layer1/Scene.c: In function 'SceneRay': layer1/Scene.c:6820:7: warning: variable 'curState' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/ScrollBar.c -o build/temp.linux-armv7l-2.7/layer1/ScrollBar.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Seq.c -o build/temp.linux-armv7l-2.7/layer1/Seq.o -ffast-math -funroll-loops -O3 -g layer1/Seq.c: In function 'SeqDrag': layer1/Seq.c:181:16: warning: variable 'col' set but not used [-Wunused-but-set-variable] layer1/Seq.c: In function 'SeqRelease': layer1/Seq.c:212:16: warning: variable 'col' set but not used [-Wunused-but-set-variable] layer1/Seq.c: In function 'SeqClick': layer1/Seq.c:266:16: warning: variable 'col' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Setting.c -o build/temp.linux-armv7l-2.7/layer1/Setting.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Shaker.c -o build/temp.linux-armv7l-2.7/layer1/Shaker.o -ffast-math -funroll-loops -O3 -g layer1/Shaker.c: In function 'ShakerGetPyra': layer1/Shaker.c:132:16: warning: variable 't0' set but not used [-Wunused-but-set-variable] layer1/Shaker.c: In function 'ShakerDoPyra': layer1/Shaker.c:153:16: warning: variable 't0' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Symmetry.c -o build/temp.linux-armv7l-2.7/layer1/Symmetry.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Text.c -o build/temp.linux-armv7l-2.7/layer1/Text.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/TypeFace.c -o build/temp.linux-armv7l-2.7/layer1/TypeFace.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Wizard.c -o build/temp.linux-armv7l-2.7/layer1/Wizard.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/View.c -o build/temp.linux-armv7l-2.7/layer1/View.o -ffast-math -funroll-loops -O3 -g layer1/View.c: In function 'matrix_interpolate': layer1/View.c:724:23: warning: variable 'center' set but not used [-Wunused-but-set-variable] layer1/View.c:724:16: warning: variable 'p1' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/AtomInfo.c -o build/temp.linux-armv7l-2.7/layer2/AtomInfo.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/CoordSet.c -o build/temp.linux-armv7l-2.7/layer2/CoordSet.o -ffast-math -funroll-loops -O3 -g layer2/CoordSet.c: In function 'CoordSetAtomToChemPyAtom': layer2/CoordSet.c:942:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/GadgetSet.c -o build/temp.linux-armv7l-2.7/layer2/GadgetSet.o -ffast-math -funroll-loops -O3 -g layer2/GadgetSet.c: In function 'GadgetSetFromPyList': layer2/GadgetSet.c:186:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/DistSet.c -o build/temp.linux-armv7l-2.7/layer2/DistSet.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectAlignment.c -o build/temp.linux-armv7l-2.7/layer2/ObjectAlignment.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectCGO.c -o build/temp.linux-armv7l-2.7/layer2/ObjectCGO.o -ffast-math -funroll-loops -O3 -g layer2/ObjectCGO.c: In function 'ObjectCGOStateFromPyList': layer2/ObjectCGO.c:74:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectCallback.c -o build/temp.linux-armv7l-2.7/layer2/ObjectCallback.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectDist.c -o build/temp.linux-armv7l-2.7/layer2/ObjectDist.o -ffast-math -funroll-loops -O3 -g layer2/ObjectDist.c: In function 'ObjectDistGetDistSetFromM4XBond': layer2/ObjectDist.c:198:25: warning: variable 'dist' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectMap.c -o build/temp.linux-armv7l-2.7/layer2/ObjectMap.o -ffast-math -funroll-loops -O3 -g layer2/ObjectMap.c: In function 'ObjectMapStateTrim': layer2/ObjectMap.c:434:7: warning: variable 'max' set but not used [-Wunused-but-set-variable] layer2/ObjectMap.c: In function 'ObjectMapStateInterpolate': layer2/ObjectMap.c:1064:10: warning: variable 'out' set but not used [-Wunused-but-set-variable] layer2/ObjectMap.c: In function 'ObjectMapNewFromPyList': layer2/ObjectMap.c:1556:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] layer2/ObjectMap.c: In function 'ObjectMapCCP4StrToMap': layer2/ObjectMap.c:2419:14: warning: variable 'xref' set but not used [-Wunused-but-set-variable] layer2/ObjectMap.c: In function 'ObjectMapLoadCCP4': layer2/ObjectMap.c:4521:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMap.c: In function 'ObjectMapLoadPHI': layer2/ObjectMap.c:4692:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMap.c: In function 'ObjectMapLoadDXFile': layer2/ObjectMap.c:5047:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMap.c: In function 'ObjectMapLoadACNTFile': layer2/ObjectMap.c:5295:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMap.c: In function 'ObjectMapLoadFLDFile': layer2/ObjectMap.c:5348:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectMesh.c -o build/temp.linux-armv7l-2.7/layer2/ObjectMesh.o -ffast-math -funroll-loops -O3 -g layer2/ObjectMesh.c: In function 'ObjectMeshNewFromPyList': layer2/ObjectMesh.c:213:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] layer2/ObjectMesh.c: In function 'ObjectMeshUpdate': layer2/ObjectMesh.c:578:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMesh.c: In function 'ObjectMeshRender': layer2/ObjectMesh.c:980:14: warning: variable 'color' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectMolecule.c -o build/temp.linux-armv7l-2.7/layer2/ObjectMolecule.o -ffast-math -funroll-loops -O3 -g layer2/ObjectMolecule.c: In function 'ObjectMoleculeFixSeleHydrogens': layer2/ObjectMolecule.c:664:13: warning: variable 'cs' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeLoadTRJFile': layer2/ObjectMolecule.c:816:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeLoadRSTFile': layer2/ObjectMolecule.c:1199:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeLoadTOPFile': layer2/ObjectMolecule.c:2332:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeLoadPMOFile': layer2/ObjectMolecule.c:2790:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeRenderSele': layer2/ObjectMolecule.c:3225:51: warning: variable 'ai' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeLoadXYZFile': layer2/ObjectMolecule.c:3823:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeAttach': layer2/ObjectMolecule.c:4363:10: warning: variable 'nn' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeFindOpenValenceVector': layer2/ObjectMolecule.c:4543:22: warning: variable 'ai1' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeCreateSpheroid': layer2/ObjectMolecule.c:4724:10: warning: variable 'spl' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeGuessValences': layer2/ObjectMolecule.c:6184:29: warning: variable 'bnd2' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c:5958:38: warning: variable 'c2_len' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c:5958:23: warning: variable 'c1_len' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c:5957:56: warning: variable 'c2_bd' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c:5957:45: warning: variable 'c1_bd' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c:5952:68: warning: variable 'o4_len' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c:5952:53: warning: variable 'o3_len' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeMOL2SetFormalCharges': layer2/ObjectMolecule.c:8785:46: warning: variable 'n' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeMOL2Str2CoordSet': layer2/ObjectMolecule.c:9185:38: warning: variable 'resv_flag' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeInvalidateAtomType': layer2/ObjectMolecule.c:12073:16: warning: variable 'a' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectMolecule2.c -o build/temp.linux-armv7l-2.7/layer2/ObjectMolecule2.o -ffast-math -funroll-loops -O3 -g layer2/ObjectMolecule2.c: In function 'ObjectMoleculePDBStr2CoordSet': layer2/ObjectMolecule2.c:1655:7: warning: variable 'have_conect' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule2.c:1654:7: warning: variable 'seen_conect' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule2.c: In function 'ObjectMoleculeNewFromPyList': layer2/ObjectMolecule2.c:3628:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectSurface.c -o build/temp.linux-armv7l-2.7/layer2/ObjectSurface.o -ffast-math -funroll-loops -O3 -g layer2/ObjectSurface.c: In function 'ObjectSurfaceUpdate': layer2/ObjectSurface.c:518:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectSlice.c -o build/temp.linux-armv7l-2.7/layer2/ObjectSlice.o -ffast-math -funroll-loops -O3 -g layer2/ObjectSlice.c: In function 'ObjectSliceStateFromPyList': layer2/ObjectSlice.c:116:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] layer2/ObjectSlice.c: In function 'ObjectSliceNewFromPyList': layer2/ObjectSlice.c:185:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] layer2/ObjectSlice.c: In function 'ObjectSliceUpdate': layer2/ObjectSlice.c:722:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectVolume.c -o build/temp.linux-armv7l-2.7/layer2/ObjectVolume.o -ffast-math -funroll-loops -O3 -g layer2/ObjectVolume.c: In function 'ObjectVolumeNewFromPyList': layer2/ObjectVolume.c:236:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] layer2/ObjectVolume.c: In function 'ObjectVolumeUpdate': layer2/ObjectVolume.c:593:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectVolume.c: In function 'ObjectVolumeRender': layer2/ObjectVolume.c:880:20: warning: variable 'max_ext' set but not used [-Wunused-but-set-variable] layer2/ObjectVolume.c:880:10: warning: variable 'min_ext' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepCartoon.c -o build/temp.linux-armv7l-2.7/layer2/RepCartoon.o -ffast-math -funroll-loops -O3 -g layer2/RepCartoon.c: In function 'do_ring': layer2/RepCartoon.c:235:7: warning: variable 'cartoon_color' set but not used [-Wunused-but-set-variable] layer2/RepCartoon.c: In function 'nuc_acid': layer2/RepCartoon.c:1450:22: warning: variable 'v_n' set but not used [-Wunused-but-set-variable] layer2/RepCartoon.c: In function 'GenerateRepCartoonCGO': layer2/RepCartoon.c:1614:31: warning: variable 'ring_finder_eff' set but not used [-Wunused-but-set-variable] layer2/RepCartoon.c: In function 'RepCartoonNew': layer2/RepCartoon.c:2746:9: warning: variable 'alpha' set but not used [-Wunused-but-set-variable] layer2/RepCartoon.c:2733:7: warning: variable 'skip_to' set but not used [-Wunused-but-set-variable] layer2/RepCartoon.c:2722:7: warning: variable 'highlight_color' set but not used [-Wunused-but-set-variable] layer2/RepCartoon.c:2718:7: warning: variable 'cartoon_debug' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepCylBond.c -o build/temp.linux-armv7l-2.7/layer2/RepCylBond.o -ffast-math -funroll-loops -O3 -g layer2/RepCylBond.c: In function 'RepCylBondPopulateAdjacentAtoms': layer2/RepCylBond.c:1400:25: warning: variable 'h_scale' set but not used [-Wunused-but-set-variable] layer2/RepCylBond.c:1400:17: warning: variable 'transp' set but not used [-Wunused-but-set-variable] layer2/RepCylBond.c:1400:9: warning: variable 'radius' set but not used [-Wunused-but-set-variable] layer2/RepCylBond.c:1397:10: warning: variable 'ord' set but not used [-Wunused-but-set-variable] layer2/RepCylBond.c: In function 'RepCylBondNew': layer2/RepCylBond.c:1543:16: warning: variable 'v_size' set but not used [-Wunused-but-set-variable] layer2/RepCylBond.c:1536:7: warning: variable 'stick_round_nub' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepDistDash.c -o build/temp.linux-armv7l-2.7/layer2/RepDistDash.o -ffast-math -funroll-loops -O3 -g layer2/RepDistDash.c: In function 'RepDistDashNew': layer2/RepDistDash.c:333:29: warning: variable 'd1' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepDistLabel.c -o build/temp.linux-armv7l-2.7/layer2/RepDistLabel.o -ffast-math -funroll-loops -O3 -g layer2/RepDistLabel.c: In function 'RepDistLabelNew': layer2/RepDistLabel.c:373:24: warning: variable 'v6' set but not used [-Wunused-but-set-variable] layer2/RepDistLabel.c:373:19: warning: variable 'v5' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepDot.c -o build/temp.linux-armv7l-2.7/layer2/RepDot.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepLabel.c -o build/temp.linux-armv7l-2.7/layer2/RepLabel.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepMesh.c -o build/temp.linux-armv7l-2.7/layer2/RepMesh.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectGadget.c -o build/temp.linux-armv7l-2.7/layer2/ObjectGadget.o -ffast-math -funroll-loops -O3 -g layer2/ObjectGadget.c: In function 'ObjectGadgetInitFromPyList': layer2/ObjectGadget.c:505:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectGadgetRamp.c -o build/temp.linux-armv7l-2.7/layer2/ObjectGadgetRamp.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectGroup.c -o build/temp.linux-armv7l-2.7/layer2/ObjectGroup.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepAngle.c -o build/temp.linux-armv7l-2.7/layer2/RepAngle.o -ffast-math -funroll-loops -O3 -g layer2/RepAngle.c: In function 'RepAngleNew': layer2/RepAngle.c:430:15: warning: variable 'mod_pos' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepDihedral.c -o build/temp.linux-armv7l-2.7/layer2/RepDihedral.o -ffast-math -funroll-loops -O3 -g layer2/RepDihedral.c: In function 'RepDihedralNew': layer2/RepDihedral.c:509:15: warning: variable 'mod_pos' set but not used [-Wunused-but-set-variable] layer2/RepDihedral.c:362:37: warning: variable 'v6' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepNonbonded.c -o build/temp.linux-armv7l-2.7/layer2/RepNonbonded.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepNonbondedSphere.c -o build/temp.linux-armv7l-2.7/layer2/RepNonbondedSphere.o -ffast-math -funroll-loops -O3 -g layer2/RepNonbondedSphere.c: In function 'RepNonbondedSphereRender': layer2/RepNonbondedSphere.c:199:25: warning: variable 'use_default_shader' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepRibbon.c -o build/temp.linux-armv7l-2.7/layer2/RepRibbon.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepSphere.c -o build/temp.linux-armv7l-2.7/layer2/RepSphere.o -ffast-math -funroll-loops -O3 -g layer2/RepSphere.c: In function 'RepSphereNew': layer2/RepSphere.c:2936:26: warning: variable 'nbr_flag' set but not used [-Wunused-but-set-variable] layer2/RepSphere.c:2656:17: warning: variable 'ai2' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepEllipsoid.c -o build/temp.linux-armv7l-2.7/layer2/RepEllipsoid.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepSurface.c -o build/temp.linux-armv7l-2.7/layer2/RepSurface.o -ffast-math -funroll-loops -O3 -g layer2/RepSurface.c: In function 'RepSurfaceRender': layer2/RepSurface.c:1935:11: warning: variable 'col' set but not used [-Wunused-but-set-variable] layer2/RepSurface.c:2193:28: warning: variable 'col' set but not used [-Wunused-but-set-variable] layer2/RepSurface.c:3352:13: warning: variable 'color' set but not used [-Wunused-but-set-variable] layer2/RepSurface.c: In function 'RepSurfaceColor': layer2/RepSurface.c:3654:22: warning: variable 'planew' set but not used [-Wunused-but-set-variable] layer2/RepSurface.c:3733:29: warning: variable 'planew' set but not used [-Wunused-but-set-variable] layer2/RepSurface.c:3733:22: warning: variable 'pt' set but not used [-Wunused-but-set-variable] layer2/RepSurface.c:3888:36: warning: variable 'pai2' set but not used [-Wunused-but-set-variable] layer2/RepSurface.c: In function 'SolventDotNew': layer2/RepSurface.c:5595:7: warning: variable 'maxDot' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepWireBond.c -o build/temp.linux-armv7l-2.7/layer2/RepWireBond.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/Sculpt.c -o build/temp.linux-armv7l-2.7/layer2/Sculpt.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/SculptCache.c -o build/temp.linux-armv7l-2.7/layer2/SculptCache.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/VFont.c -o build/temp.linux-armv7l-2.7/layer2/VFont.o -ffast-math -funroll-loops -O3 -g layer2/VFont.c: In function 'VFontIndent': layer2/VFont.c:160:10: warning: variable 'pc' set but not used [-Wunused-but-set-variable] layer2/VFont.c:159:9: warning: variable 'base' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer3/PlugIOManager.c -o build/temp.linux-armv7l-2.7/layer3/PlugIOManager.o -ffast-math -funroll-loops -O3 -g layer3/PlugIOManager.c: In function 'PlugIOManagerLoadVol': layer3/PlugIOManager.c:341:17: warning: variable 'isNew' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer3/Editor.c -o build/temp.linux-armv7l-2.7/layer3/Editor.o -ffast-math -funroll-loops -O3 -g layer3/Editor.c: In function 'EditorDrawDihedral': layer3/Editor.c:109:22: warning: variable 'sele3' set but not used [-Wunused-but-set-variable] layer3/Editor.c:109:15: warning: variable 'sele0' set but not used [-Wunused-but-set-variable] layer3/Editor.c: In function 'EditorAttach': layer3/Editor.c:929:7: warning: variable 'state' set but not used [-Wunused-but-set-variable] layer3/Editor.c: In function 'EditorReplace': layer3/Editor.c:1112:7: warning: variable 'state' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer3/Executive.c -o build/temp.linux-armv7l-2.7/layer3/Executive.o -ffast-math -funroll-loops -O3 -g layer3/Executive.c: In function 'ExecutiveVolume': layer3/Executive.c:1096:19: warning: variable 'sele_obj' set but not used [-Wunused-but-set-variable] layer3/Executive.c: In function 'ExecutiveProcessObjectName': layer3/Executive.c:3312:7: warning: variable 'result' set but not used [-Wunused-but-set-variable] layer3/Executive.c: In function 'ExecutiveMapSet': layer3/Executive.c:6653:21: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] layer3/Executive.c: In function 'ExecutiveSculptIterate': layer3/Executive.c:7426:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer3/Executive.c: In function 'ExecutiveRemoveAtoms': layer3/Executive.c:9679:7: warning: variable 'flag' set but not used [-Wunused-but-set-variable] layer3/Executive.c: In function 'ExecutiveCenter': layer3/Executive.c:14655:23: warning: variable 'df' set but not used [-Wunused-but-set-variable] layer3/Executive.c: In function 'ExecutiveRelease': layer3/Executive.c:16916:7: warning: variable 'n' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer3/Seeker.c -o build/temp.linux-armv7l-2.7/layer3/Seeker.o -ffast-math -funroll-loops -O3 -g layer3/Seeker.c: In function 'SeekerRefresh': layer3/Seeker.c:511:22: warning: variable 'not_selected' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer3/Selector.c -o build/temp.linux-armv7l-2.7/layer3/Selector.o -ffast-math -funroll-loops -O3 -g layer3/Selector.c: In function 'SelectorGetSpacialMapFromSeleCoord': layer3/Selector.c:1506:23: warning: variable 'ai' set but not used [-Wunused-but-set-variable] layer3/Selector.c: In function 'SelectorAssignSS': layer3/Selector.c:2104:11: warning: variable 'c' set but not used [-Wunused-but-set-variable] layer3/Selector.c: In function 'SelectorGetPairIndices': layer3/Selector.c:3577:23: warning: variable 'ai2' set but not used [-Wunused-but-set-variable] layer3/Selector.c:3577:17: warning: variable 'ai1' set but not used [-Wunused-but-set-variable] layer3/Selector.c: In function 'SelectorMapMaskVDW': layer3/Selector.c:5395:11: warning: variable 'n2' set but not used [-Wunused-but-set-variable] layer3/Selector.c: In function 'SelectorSelect0': layer3/Selector.c:8719:15: warning: variable 's' set but not used [-Wunused-but-set-variable] layer3/Selector.c: In function 'SelectorSelect1': layer3/Selector.c:9159:11: warning: variable 'prevmodel' set but not used [-Wunused-but-set-variable] layer3/Selector.c:9221:11: warning: variable 'prevmodel' set but not used [-Wunused-but-set-variable] layer3/Selector.c: In function 'SelectorLogic1': layer3/Selector.c:10368:21: warning: variable 'ai' set but not used [-Wunused-but-set-variable] layer3/Selector.c: In function 'SelectorEvaluate': layer3/Selector.c:10900:19: warning: variable 'cc2' set but not used [-Wunused-but-set-variable] layer3/Selector.c:10899:15: warning: variable 'opFlag2' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer4/Cmd.c -o build/temp.linux-armv7l-2.7/layer4/Cmd.o -ffast-math -funroll-loops -O3 -g layer4/Cmd.c: In function 'CmdAlign': layer4/Cmd.c:2227:9: warning: variable 'result' set but not used [-Wunused-but-set-variable] layer4/Cmd.c: In function 'Cmd_New': layer4/Cmd.c:4494:11: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer4/Cmd.c: In function 'CmdLoadObject': layer4/Cmd.c:7286:9: warning: variable 'isTmp' set but not used [-Wunused-but-set-variable] layer4/Cmd.c: In function 'CmdSetObjectColor': layer4/Cmd.c:8323:7: warning: variable 'result' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer4/Export.c -o build/temp.linux-armv7l-2.7/layer4/Export.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer4/Menu.c -o build/temp.linux-armv7l-2.7/layer4/Menu.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer4/PopUp.c -o build/temp.linux-armv7l-2.7/layer4/PopUp.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer5/PyMOL.c -o build/temp.linux-armv7l-2.7/layer5/PyMOL.o -ffast-math -funroll-loops -O3 -g layer5/PyMOL.c: In function 'PyMOL_CmdGetNames': layer5/PyMOL.c:4594:15: warning: variable 'arg' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer5/TestPyMOL.c -o build/temp.linux-armv7l-2.7/layer5/TestPyMOL.o -ffast-math -funroll-loops -O3 -g layer5/TestPyMOL.c: In function 'get_st': layer5/TestPyMOL.c:76:25: warning: variable 'p' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer5/main.c -o build/temp.linux-armv7l-2.7/layer5/main.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/carplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function 'int read_ccp4_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:370:68: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/corplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c: In function 'get_internal_basis': contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:943:13: warning: unused variable 'wavef_size' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c: In function 'get_wavefunction': contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1378:7: warning: unused variable 'num_orbs' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1377:7: warning: unused variable 'total_orbs' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1376:21: warning: unused variable 'num_values' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1376:14: warning: unused variable 'j' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1375:7: warning: unused variable 'orbital_counter' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1374:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1372:8: warning: variable 'buffer' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1371:10: warning: unused variable 'wave_function' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1370:10: warning: unused variable 'orbital_energies' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c: At top level: contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1531:12: warning: 'get_population' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c: In function 'parse_static_data': contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:780:28: warning: 'numstates' may be used uninitialized in this function [-Wuninitialized] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/cpmdplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/cpmdplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/cpmdplugin.c:89:12: warning: 'read_cpmd_structure' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c: In function 'write_crd_timestep': contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c:167:6: warning: 'lfdone' may be used uninitialized in this function [-Wuninitialized] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: 'int get_pte_idx(const char*)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'int get_pte_idx_from_string(const char*)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'swap2_aligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fastio.h:455:12: warning: 'fio_read_int32' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fastio.h:459:12: warning: 'fio_write_str' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:120:13: warning: 'void swap4_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function 'int handle_wrapped_v2({anonymous}::BlobMap&, uint32_t, bool, const std::vector&, molfile_timestep_t*)': contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1056:28: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'uint64_t {aka long long unsigned int}' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1065:30: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'uint64_t {aka long long unsigned int}' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function 'int handle_wrapped_v1({anonymous}::BlobMap&, uint32_t, bool, const std::vector&, molfile_timestep_t*)': contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1302:34: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'uint64_t {aka long long unsigned int}' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function 'int handle_anton_sfxp_v3({anonymous}::BlobMap&, uint32_t, bool, const std::vector&, molfile_timestep_t*)': contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1318:67: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'std::vector::size_type {aka unsigned int}' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/vmddir.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/vmddir.h:130:12: warning: 'int vmd_file_is_executable(const char*)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:120:13: warning: 'void swap4_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1878:12: warning: 'int read_timestep2(void*, ssize_t, molfile_timestep_t*)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function 'int read_edm_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:207:10: warning: unused variable 'l' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:220:7: warning: unused variable 'leftover' [-Wunused-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: 'int fort_eat_recmark(FILE*, int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: 'int fort_get_endian_reclen(int, int, int, int*, int*)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:133:13: warning: 'void strnwscpy(char*, const char*, int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_basis_stats': contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1749:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_traj_frame': contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:2247:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_wavefunction': contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:2725:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: At top level: contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:928:13: warning: 'print_input_data' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:4161:13: warning: 'whereami' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:230:13: warning: 'thisline' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.c: In function 'get_traj_frame': contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.c:1809:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.c:1808:8: warning: variable 'buffer' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.c: In function 'get_wavefunction': contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.c:1950:36: warning: variable 'orb_idx' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.c: At top level: contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.c:2122:12: warning: 'get_population' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: 'int fort_eat_recmark(FILE*, int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: 'int fort_get_endian_reclen(int, int, int, int*, int*)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:133:13: warning: 'void strnwscpy(char*, const char*, int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] In file included from contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:30:0: contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h: In function 'int _ZL13mdio_timestepP7md_fileP5md_ts.constprop.8(md_file*, md_ts*)': contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1853:53: warning: 'bitsizeint[2]' may be used uninitialized in this function [-Wuninitialized] contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1764:37: note: 'bitsizeint[2]' was declared here contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1852:53: warning: 'bitsizeint[1]' may be used uninitialized in this function [-Wuninitialized] contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1764:37: note: 'bitsizeint[1]' was declared here contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1851:53: warning: 'bitsizeint[0]' may be used uninitialized in this function [-Wuninitialized] contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1764:37: note: 'bitsizeint[0]' was declared here contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/hash.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/hash.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/hash.c:183:21: warning: 'hash_delete' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/hash.c:270:24: warning: 'hash_stats' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fastio.h:442:19: warning: 'fio_ftell' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'swap4_unaligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'swap8_unaligned' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/hash.c:183:21: warning: 'int hash_delete(hash_t*, const char*)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/hash.c:270:24: warning: 'char* hash_stats(hash_t*)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mmcif.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp: In function 'int read_mmcif_timestep(void*, int, molfile_timestep_t*)': contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp:85:14: warning: unused variable 'data' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:95:20: warning: 'const char* get_pte_label(int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:102:14: warning: 'float get_pte_mass(int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:109:14: warning: 'float get_pte_vdw_radius(int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: 'int get_pte_idx(const char*)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'int get_pte_idx_from_string(const char*)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp:98:14: warning: 'void* open_mmcif_write(const char*, const char*, int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.cpp: In function 'void* open_mrc_read(const char*, const char*, int*)': contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.cpp:247:61: warning: format '%f' expects argument of type 'double', but argument 2 has type 'int' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.cpp:247:61: warning: format '%f' expects argument of type 'double', but argument 3 has type 'int' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.cpp:247:61: warning: format '%f' expects argument of type 'double', but argument 4 has type 'int' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.cpp: In function 'int read_mrc_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.cpp:298:68: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp: In function 'int read_pbeq_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp:262:55: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: 'get_pte_idx' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp: In function 'int read_plt_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:143:54: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c: In function 'get_atom_radius': contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:167:16: warning: variable 'type' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:167:9: warning: variable 'name' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'swap4_unaligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'swap8_unaligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'swap2_aligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'swap8_aligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: 'fort_eat_recmark' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: 'fort_get_endian_reclen' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:103:12: warning: 'fortread_4' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c: In function 'open_rst_read': contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:43:11: warning: variable 'timesteprst' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp: In function 'int read_spider_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:277:7: warning: unused variable 'x' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:277:10: warning: unused variable 'y' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:277:13: warning: unused variable 'z' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp: In function 'int read_rawgraphics(void*, int*, const molfile_graphics_t**)': contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:150:59: warning: operation on 'i' may be undefined [-Wsequence-point] contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:150:59: warning: operation on 'i' may be undefined [-Wsequence-point] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function 'void* open_uhbd_read(const char*, const char*, int*)': contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:90:22: warning: variable 'o' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:90:28: warning: variable 's' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function 'int read_uhbd_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:254:69: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o -ffast-math -funroll-loops -O3 -g In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:42:0: contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:111:13: warning: 'vasp_timestep_unitcell' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o -ffast-math -funroll-loops -O3 -g In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:40:0: contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o -ffast-math -funroll-loops -O3 -g In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:42:0: contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:111:13: warning: 'vasp_timestep_unitcell' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o -ffast-math -funroll-loops -O3 -g In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:40:0: contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o -ffast-math -funroll-loops -O3 -g In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:40:0: contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o -ffast-math -funroll-loops -O3 -g In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:47:0: contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c: In function 'vtf_parse_atom': contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:234:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[16]' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:243:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[16]' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:269:2: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[8]' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:284:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[8]' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:293:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[2]' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:305:2: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[2]' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:339:2: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[2]' [-Wformat] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'int get_pte_idx_from_string(const char*)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function] g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro build/temp.linux-armv7l-2.7/modules/cealign/src/ccealignmodule.o build/temp.linux-armv7l-2.7/generated/src/ShaderText.o build/temp.linux-armv7l-2.7/ov/src/OVContext.o build/temp.linux-armv7l-2.7/ov/src/OVHeapArray.o build/temp.linux-armv7l-2.7/ov/src/OVHeap.o build/temp.linux-armv7l-2.7/ov/src/OVLexicon.o build/temp.linux-armv7l-2.7/ov/src/OVOneToOne.o build/temp.linux-armv7l-2.7/ov/src/OVOneToAny.o build/temp.linux-armv7l-2.7/ov/src/OVRandom.o build/temp.linux-armv7l-2.7/ov/src/ov_utility.o build/temp.linux-armv7l-2.7/layer0/Block.o build/temp.linux-armv7l-2.7/layer0/Crystal.o build/temp.linux-armv7l-2.7/layer0/Debug.o build/temp.linux-armv7l-2.7/layer0/Deferred.o build/temp.linux-armv7l-2.7/layer0/Err.o build/temp.linux-armv7l-2.7/layer0/Feedback.o build/temp.linux-armv7l-2.7/layer0/Field.o build/temp.linux-armv7l-2.7/layer0/Isosurf.o build/temp.linux-armv7l-2.7/layer0/Map.o build/temp.linux-armv7l-2.7/layer0/Match.o build/temp.linux-armv7l-2.7/layer0/Matrix.o build/temp.linux-armv7l-2.7/layer0/MemoryDebug.o build/temp.linux-armv7l-2.7/layer0/MemoryCache.o build/temp.linux-armv7l-2.7/layer0/MyPNG.o build/temp.linux-armv7l-2.7/layer0/Parse.o build/temp.linux-armv7l-2.7/layer0/Pixmap.o build/temp.linux-armv7l-2.7/layer0/Queue.o build/temp.linux-armv7l-2.7/layer0/Raw.o build/temp.linux-armv7l-2.7/layer0/Sphere.o build/temp.linux-armv7l-2.7/layer0/ShaderMgr.o build/temp.linux-armv7l-2.7/layer0/Tetsurf.o build/temp.linux-armv7l-2.7/layer0/Texture.o build/temp.linux-armv7l-2.7/layer0/Tracker.o build/temp.linux-armv7l-2.7/layer0/Triangle.o build/temp.linux-armv7l-2.7/layer0/Util.o build/temp.linux-armv7l-2.7/layer0/Vector.o build/temp.linux-armv7l-2.7/layer0/Word.o build/temp.linux-armv7l-2.7/layer0/os_gl.o build/temp.linux-armv7l-2.7/layer1/Basis.o build/temp.linux-armv7l-2.7/layer1/ButMode.o build/temp.linux-armv7l-2.7/layer1/Character.o build/temp.linux-armv7l-2.7/layer1/CGO.o build/temp.linux-armv7l-2.7/layer1/Color.o build/temp.linux-armv7l-2.7/layer1/Control.o build/temp.linux-armv7l-2.7/layer1/Extrude.o build/temp.linux-armv7l-2.7/layer1/Font.o build/temp.linux-armv7l-2.7/layer1/FontType.o build/temp.linux-armv7l-2.7/layer1/FontGLUT.o build/temp.linux-armv7l-2.7/layer1/FontGLUT8x13.o build/temp.linux-armv7l-2.7/layer1/FontGLUT9x15.o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel10.o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel12.o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel18.o build/temp.linux-armv7l-2.7/layer1/Movie.o build/temp.linux-armv7l-2.7/layer1/Ortho.o build/temp.linux-armv7l-2.7/layer1/P.o build/temp.linux-armv7l-2.7/layer1/PConv.o build/temp.linux-armv7l-2.7/layer1/Pop.o build/temp.linux-armv7l-2.7/layer1/PyMOLObject.o build/temp.linux-armv7l-2.7/layer1/Ray.o build/temp.linux-armv7l-2.7/layer1/Rep.o build/temp.linux-armv7l-2.7/layer1/Scene.o build/temp.linux-armv7l-2.7/layer1/ScrollBar.o build/temp.linux-armv7l-2.7/layer1/Seq.o build/temp.linux-armv7l-2.7/layer1/Setting.o build/temp.linux-armv7l-2.7/layer1/Shaker.o build/temp.linux-armv7l-2.7/layer1/Symmetry.o build/temp.linux-armv7l-2.7/layer1/Text.o build/temp.linux-armv7l-2.7/layer1/TypeFace.o build/temp.linux-armv7l-2.7/layer1/Wizard.o build/temp.linux-armv7l-2.7/layer1/View.o build/temp.linux-armv7l-2.7/layer2/AtomInfo.o build/temp.linux-armv7l-2.7/layer2/CoordSet.o build/temp.linux-armv7l-2.7/layer2/GadgetSet.o build/temp.linux-armv7l-2.7/layer2/DistSet.o build/temp.linux-armv7l-2.7/layer2/ObjectAlignment.o build/temp.linux-armv7l-2.7/layer2/ObjectCGO.o build/temp.linux-armv7l-2.7/layer2/ObjectCallback.o build/temp.linux-armv7l-2.7/layer2/ObjectDist.o build/temp.linux-armv7l-2.7/layer2/ObjectMap.o build/temp.linux-armv7l-2.7/layer2/ObjectMesh.o build/temp.linux-armv7l-2.7/layer2/ObjectMolecule.o build/temp.linux-armv7l-2.7/layer2/ObjectMolecule2.o build/temp.linux-armv7l-2.7/layer2/ObjectSurface.o build/temp.linux-armv7l-2.7/layer2/ObjectSlice.o build/temp.linux-armv7l-2.7/layer2/ObjectVolume.o build/temp.linux-armv7l-2.7/layer2/RepCartoon.o build/temp.linux-armv7l-2.7/layer2/RepCylBond.o build/temp.linux-armv7l-2.7/layer2/RepDistDash.o build/temp.linux-armv7l-2.7/layer2/RepDistLabel.o build/temp.linux-armv7l-2.7/layer2/RepDot.o build/temp.linux-armv7l-2.7/layer2/RepLabel.o build/temp.linux-armv7l-2.7/layer2/RepMesh.o build/temp.linux-armv7l-2.7/layer2/ObjectGadget.o build/temp.linux-armv7l-2.7/layer2/ObjectGadgetRamp.o build/temp.linux-armv7l-2.7/layer2/ObjectGroup.o build/temp.linux-armv7l-2.7/layer2/RepAngle.o build/temp.linux-armv7l-2.7/layer2/RepDihedral.o build/temp.linux-armv7l-2.7/layer2/RepNonbonded.o build/temp.linux-armv7l-2.7/layer2/RepNonbondedSphere.o build/temp.linux-armv7l-2.7/layer2/RepRibbon.o build/temp.linux-armv7l-2.7/layer2/RepSphere.o build/temp.linux-armv7l-2.7/layer2/RepEllipsoid.o build/temp.linux-armv7l-2.7/layer2/RepSurface.o build/temp.linux-armv7l-2.7/layer2/RepWireBond.o build/temp.linux-armv7l-2.7/layer2/Sculpt.o build/temp.linux-armv7l-2.7/layer2/SculptCache.o build/temp.linux-armv7l-2.7/layer2/VFont.o build/temp.linux-armv7l-2.7/layer3/PlugIOManager.o build/temp.linux-armv7l-2.7/layer3/Editor.o build/temp.linux-armv7l-2.7/layer3/Executive.o build/temp.linux-armv7l-2.7/layer3/Seeker.o build/temp.linux-armv7l-2.7/layer3/Selector.o build/temp.linux-armv7l-2.7/layer4/Cmd.o build/temp.linux-armv7l-2.7/layer4/Export.o build/temp.linux-armv7l-2.7/layer4/Menu.o build/temp.linux-armv7l-2.7/layer4/PopUp.o build/temp.linux-armv7l-2.7/layer5/PyMOL.o build/temp.linux-armv7l-2.7/layer5/TestPyMOL.o build/temp.linux-armv7l-2.7/layer5/main.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/cpmdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/hash.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mmcif.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o -L/usr/X11R6/lib64 -lGL -lGLU -lglut -lpng -lz -lfreetype -lGLEW -o build/lib.linux-armv7l-2.7/pymol/_cmd.so building 'chempy.champ._champ' extension creating build/temp.linux-armv7l-2.7/contrib/champ gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/champ.c -o build/temp.linux-armv7l-2.7/contrib/champ/champ.o contrib/champ/champ.c: In function 'ChampSmiToPat': contrib/champ/champ.c:5005:9: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'int' [-Wformat] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/champ_module.c -o build/temp.linux-armv7l-2.7/contrib/champ/champ_module.o gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/chiral.c -o build/temp.linux-armv7l-2.7/contrib/champ/chiral.o gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/err2.c -o build/temp.linux-armv7l-2.7/contrib/champ/err2.o gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/feedback2.c -o build/temp.linux-armv7l-2.7/contrib/champ/feedback2.o gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/list.c -o build/temp.linux-armv7l-2.7/contrib/champ/list.o gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/os_memory.c -o build/temp.linux-armv7l-2.7/contrib/champ/os_memory.o gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/sort.c -o build/temp.linux-armv7l-2.7/contrib/champ/sort.o gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/strblock.c -o build/temp.linux-armv7l-2.7/contrib/champ/strblock.o gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -Icontrib/champ -I/usr/include/python2.7 -c contrib/champ/vla.c -o build/temp.linux-armv7l-2.7/contrib/champ/vla.o gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro build/temp.linux-armv7l-2.7/contrib/champ/champ.o build/temp.linux-armv7l-2.7/contrib/champ/champ_module.o build/temp.linux-armv7l-2.7/contrib/champ/chiral.o build/temp.linux-armv7l-2.7/contrib/champ/err2.o build/temp.linux-armv7l-2.7/contrib/champ/feedback2.o build/temp.linux-armv7l-2.7/contrib/champ/list.o build/temp.linux-armv7l-2.7/contrib/champ/os_memory.o build/temp.linux-armv7l-2.7/contrib/champ/sort.o build/temp.linux-armv7l-2.7/contrib/champ/strblock.o build/temp.linux-armv7l-2.7/contrib/champ/vla.o -o build/lib.linux-armv7l-2.7/chempy/champ/_champ.so building 'pymol.opengl.glu._glu_num' extension creating build/temp.linux-armv7l-2.7/contrib/pyopengl gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/pyopengl/_glu_nummodule.c -o build/temp.linux-armv7l-2.7/contrib/pyopengl/_glu_nummodule.o -ffast-math -funroll-loops -O3 -g gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro build/temp.linux-armv7l-2.7/contrib/pyopengl/_glu_nummodule.o -L/usr/X11R6/lib64 -lGL -lGLU -lglut -lGLEW -o build/lib.linux-armv7l-2.7/pymol/opengl/glu/_glu_num.so building 'pymol.opengl.glu._glu' extension gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/pyopengl/_glumodule.c -o build/temp.linux-armv7l-2.7/contrib/pyopengl/_glumodule.o -ffast-math -funroll-loops -O3 -g contrib/pyopengl/_glumodule.c:236:13: warning: 'suppress_compiler_warnings' defined but not used [-Wunused-function] gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro build/temp.linux-armv7l-2.7/contrib/pyopengl/_glumodule.o -L/usr/X11R6/lib64 -lGL -lGLU -lglut -lGLEW -o build/lib.linux-armv7l-2.7/pymol/opengl/glu/_glu.so building 'pymol.opengl.glut._glut' extension gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/pyopengl/_glutmodule.c -o build/temp.linux-armv7l-2.7/contrib/pyopengl/_glutmodule.o -ffast-math -funroll-loops -O3 -g gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro build/temp.linux-armv7l-2.7/contrib/pyopengl/_glutmodule.o -L/usr/X11R6/lib64 -lGL -lGLU -lglut -lGLEW -o build/lib.linux-armv7l-2.7/pymol/opengl/glut/_glut.so building 'pymol.opengl.gl._opengl_num' extension gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/pyopengl/_opengl_nummodule.c -o build/temp.linux-armv7l-2.7/contrib/pyopengl/_opengl_nummodule.o -ffast-math -funroll-loops -O3 -g gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro build/temp.linux-armv7l-2.7/contrib/pyopengl/_opengl_nummodule.o -L/usr/X11R6/lib64 -lGL -lGLU -lglut -lGLEW -o build/lib.linux-armv7l-2.7/pymol/opengl/gl/_opengl_num.so building 'pymol.opengl.gl._opengl' extension gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/pyopengl/_openglmodule.c -o build/temp.linux-armv7l-2.7/contrib/pyopengl/_openglmodule.o -ffast-math -funroll-loops -O3 -g gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro build/temp.linux-armv7l-2.7/contrib/pyopengl/_openglmodule.o -L/usr/X11R6/lib64 -lGL -lGLU -lglut -lGLEW -o build/lib.linux-armv7l-2.7/pymol/opengl/gl/_opengl.so building 'pymol.opengl.gl.openglutil' extension gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/pyopengl/openglutil.c -o build/temp.linux-armv7l-2.7/contrib/pyopengl/openglutil.o -ffast-math -funroll-loops -O3 -g contrib/pyopengl/openglutil.c:49:13: warning: 'suppress_compiler_warnings' defined but not used [-Wunused-function] gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro build/temp.linux-armv7l-2.7/contrib/pyopengl/openglutil.o -L/usr/X11R6/lib64 -lGL -lGLU -lglut -lGLEW -o build/lib.linux-armv7l-2.7/pymol/opengl/gl/openglutil.so building 'pymol.opengl.gl.openglutil_num' extension gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/pyopengl/openglutil_num.c -o build/temp.linux-armv7l-2.7/contrib/pyopengl/openglutil_num.o -ffast-math -funroll-loops -O3 -g gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro build/temp.linux-armv7l-2.7/contrib/pyopengl/openglutil_num.o -L/usr/X11R6/lib64 -lGL -lGLU -lglut -lGLEW -o build/lib.linux-armv7l-2.7/pymol/opengl/gl/openglutil_num.so After running: python setup.py install Please run, to complete the installation: python setup2.py install To uninstall PyMOL, run: python setup2.py uninstall make[1]: Leaving directory `/«PKGBUILDDIR»' debian/rules override_dh_auto_test make[1]: Entering directory `/«PKGBUILDDIR»' #dh_auto_test chmod +x test/pymol-test (cd test && python run) run_tests: C0001quit... run_tests: C0001quit.log DIFFERS over about 4 lines: ['1,8d0\n', '< PyMOL>quit\n', '< ================================= HEAP =================================\n', '< OVHeap: Summary: Blocks expected 0, found 0, peaked at 79.\n', '< OVHeap: Summary: Total bytes allocated 0x0 (0.000 MB).\n', '< ========================================================================\n', '< Memory: 0 blocks expected, 0 found, 118 maximum allocated.\n', '< Memory: current memory allocated 0 bytes (0.0 MB).\n', '< PyMOL: normal program termination.\n'] run_tests: C0010hello... run_tests: C0010hello.log DIFFERS over about 1 lines: ['1,2d0\n', '< PyMOL>print "hello"\n', '< hello\n'] run_tests: C0020pdb... run_tests: C0020pdb.log DIFFERS over about 4 lines: ['1,8d0\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>print cmd.select("(all)")\n', '< 107\n', '< PyMOL>save cmp/C0020pdb.pdb\n', '< Save: wrote "cmp/C0020pdb.pdb".\n'] run_tests: C0020pdb.pdb is missing. run_tests: C0021pdbstr... run_tests: C0021pdbstr.log DIFFERS over about 3 lines: ['1,6d0\n', '< PyMOL>f=open("dat/pept.pdb","rb")\n', '< PyMOL>l=f.read()\n', '< PyMOL>f.close()\n', '< PyMOL>cmd.read_pdbstr(l,"test")\n', '< PyMOL>print cmd.count_atoms()\n', '< 107\n'] run_tests: C0025mol... run_tests: C0025mol.log DIFFERS over about 3 lines: ['1,6d0\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>print cmd.get_names()\n', "< ['small01']\n", '< PyMOL>print cmd.select("(all)")\n', '< 36\n'] run_tests: C0026sdf... run_tests: C0026sdf.log DIFFERS over about 17 lines: ['1,34d0\n', '< PyMOL>load dat/ligs3d.sdf\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: "dat/ligs3d.sdf" loaded as "ligs3d", through state 10.\n', '< PyMOL>print cmd.get_names()\n', "< ['ligs3d']\n", '< PyMOL>print cmd.select("(all)")\n', '< 337\n', '< PyMOL>set ray_default_renderer=2\n', '< Setting: ray_default_renderer set to 2.\n', '< PyMOL>set valence\n', '< Setting: valence set to on.\n', '< PyMOL>frame 1\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 91 graphics primitives.\n', '< PyMOL>frame 10\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 70 graphics primitives.\n', '< PyMOL>hide\n', '< PyMOL>show sticks\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 70 graphics primitives.\n', '< PyMOL>unset valence\n', '< Setting: valence set to off.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 42 graphics primitives.\n'] run_tests: C0027mol2... run_tests: C0027mol2.log DIFFERS over about 36 lines: ['1,71d0\n', '< PyMOL>load dat/small03.mol2\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: "dat/small03.mol2" loaded as "small03", through state 16.\n', '< PyMOL>print cmd.get_names()\n', "< ['small03']\n", '< PyMOL>print cmd.count_states()\n', '< 16\n', '< PyMOL>print cmd.select("(all)")\n', '< 389\n', '< PyMOL>set ray_default_renderer=2\n', '< Setting: ray_default_renderer set to 2.\n', '< PyMOL>set valence\n', '< Setting: valence set to on.\n', '< PyMOL>frame 1\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 19 graphics primitives.\n', '< PyMOL>frame 10\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 41 graphics primitives.\n', '< PyMOL>hide\n', '< PyMOL>show sticks\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 41 graphics primitives.\n', '< PyMOL>unset valence\n', '< Setting: valence set to off.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 37 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small03.mol2, discrete=0\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: "dat/small03.mol2" loaded as "small03", through state 16.\n', '< PyMOL>count_atoms\n', '< count_atoms: 369 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small03.mol2, multiplex=1\n', '< ExecutiveLoad: loaded 16 objects from "dat/small03.mol2".\n', '< PyMOL>print cmd.get_names()\n', "< ['AGLYSL01', 'AMHTAR01', 'AMPTRB10', 'ARGIND11', 'BAOXLM01', 'BBSPRT10', 'BEVJER10', 'BEWCUB', 'BEWKUJ04', 'BIHKEI01', 'BIPDEJ02', 'BIPJUF10', 'BIPYCL01', 'BITNAT10', 'BIYBIU10', 'BODKOU']\n", '< PyMOL>print cmd.count_states()\n', '< 1\n', '< PyMOL>print cmd.select("(all)")\n', '< 389\n', '< PyMOL>dele all\n', '< PyMOL>set multiplex, 1\n', '< Setting: multiplex set to 1.\n', '< PyMOL>load dat/small03.mol2\n', '< ExecutiveLoad: loaded 16 objects from "dat/small03.mol2".\n', '< PyMOL>print cmd.get_names()\n', "< ['AGLYSL01', 'AMHTAR01', 'AMPTRB10', 'ARGIND11', 'BAOXLM01', 'BBSPRT10', 'BEVJER10', 'BEWCUB', 'BEWKUJ04', 'BIHKEI01', 'BIPDEJ02', 'BIPJUF10', 'BIPYCL01', 'BITNAT10', 'BIYBIU10', 'BODKOU']\n", '< PyMOL>print cmd.count_states()\n', '< 1\n', '< PyMOL>print cmd.select("(all)")\n', '< 389\n'] run_tests: C0030pkl... run_tests: C0030pkl.log DIFFERS over about 4 lines: ['1,8d0\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>print cmd.select("(all)")\n', '< 198\n', '< PyMOL>save cmp/C0030pkl.pdb\n', '< Save: wrote "cmp/C0030pkl.pdb".\n'] run_tests: C0030pkl.pdb is missing. run_tests: C0050multi... run_tests: C0050multi.log DIFFERS over about 4 lines: ['1,8d0\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>load dat/tiny.pdb\n', '< CmdLoad: "dat/tiny.pdb" loaded as "tiny".\n', '< PyMOL>load dat/water.pdb\n', '< CmdLoad: "dat/water.pdb" loaded as "water".\n'] run_tests: C0060delete... run_tests: C0060delete.log DIFFERS over about 19 lines: ['1,37d0\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>delete pept\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>delete pept\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>delete pept\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>print cmd.get_names()\n', "< ['il2', 'pept']\n", '< PyMOL>delete il2\n', '< PyMOL>delete pept\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>delete il2\n', '< PyMOL>delete pept\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>delete il2\n', '< PyMOL>delete pept\n', '< PyMOL>print cmd.get_names()\n', '< []\n'] run_tests: C0070rep... run_tests: C0070rep.log DIFFERS over about 9 lines: ['1,17d0\n', '< PyMOL>load dat/tiny.pdb\n', '< CmdLoad: "dat/tiny.pdb" loaded as "tiny".\n', '< PyMOL>print cmd.get_names()\n', "< ['tiny']\n", '< PyMOL>show sticks\n', '< PyMOL>refresh\n', '< PyMOL>show spheres\n', '< PyMOL>refresh\n', '< PyMOL>show dots\n', '< PyMOL>refresh\n', '< PyMOL>show surface\n', '< PyMOL>refresh\n', '< RepSurface: 318 surface points.\n', '< RepSurface: 632 triangles.\n', '< PyMOL>show mesh\n', '< PyMOL>refresh\n', '< IsosurfVolume: Surface generated using 1747 lines.\n'] run_tests: C0080create... run_tests: C0080create.log DIFFERS over about 61 lines: ['1,121d0\n', '< PyMOL>load dat/pept.pkl\n', '< Executive: object "pept" created.\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>create cpy=(pept)\n', '< Selector: found 198 atoms.\n', '< Executive: object "cpy" created.\n', '< PyMOL>create pc1=(resi 1 and pept)\n', '< Selector: found 12 atoms.\n', '< Executive: object "pc1" created.\n', '< PyMOL>create pc2=(resi 2 and pept)\n', '< Selector: found 10 atoms.\n', '< Executive: object "pc2" created.\n', '< PyMOL>create pc3=(resi 3 and pept)\n', '< Selector: found 10 atoms.\n', '< Executive: object "pc3" created.\n', '< PyMOL>create pc4=(resi 4 and pept)\n', '< Selector: found 24 atoms.\n', '< Executive: object "pc4" created.\n', '< PyMOL>create pc5=(resi 5 and pept)\n', '< Selector: found 17 atoms.\n', '< Executive: object "pc5" created.\n', '< PyMOL>create pc6=(resi 6 and pept)\n', '< Selector: found 19 atoms.\n', '< Executive: object "pc6" created.\n', '< PyMOL>create pc7=(resi 7 and pept)\n', '< Selector: found 7 atoms.\n', '< Executive: object "pc7" created.\n', '< PyMOL>create pc8=(resi 8 and pept)\n', '< Selector: found 15 atoms.\n', '< Executive: object "pc8" created.\n', '< PyMOL>create pc9=(resi 9 and pept)\n', '< Selector: found 19 atoms.\n', '< Executive: object "pc9" created.\n', '< PyMOL>create pc10=(resi 10 and pept)\n', '< Selector: found 16 atoms.\n', '< Executive: object "pc10" created.\n', '< PyMOL>create pc11=(resi 11 and pept)\n', '< Selector: found 24 atoms.\n', '< Executive: object "pc11" created.\n', '< PyMOL>create pc12=(resi 12 and pept)\n', '< Selector: found 10 atoms.\n', '< Executive: object "pc12" created.\n', '< PyMOL>create pc13=(resi 13 and pept)\n', '< Selector: found 15 atoms.\n', '< Executive: object "pc13" created.\n', '< PyMOL>create chk = (pc1 | pc2 | pc3 | pc4 | pc5 | pc6 | pc7 | pc8 | pc9 | pc10 | pc11 | pc12 | pc13 )\n', '< Selector: found 198 atoms.\n', '< Executive: object "chk" created.\n', '< PyMOL>print cmd.get_names()\n', "< ['pept', 'cpy', 'pc1', 'pc2', 'pc3', 'pc4', 'pc5', 'pc6', 'pc7', 'pc8', 'pc9', 'pc10', 'pc11', 'pc12', 'pc13', 'chk']\n", '< PyMOL>delete pc*\n', '< PyMOL>print cmd.get_names()\n', "< ['pept', 'cpy', 'chk']\n", '< PyMOL>save cmp/C0080create.1.pdb,(cpy and resi 4:6)\n', '< Save: wrote "cmp/C0080create.1.pdb".\n', '< PyMOL>save cmp/C0080create.2.pdb,(chk and resi 4:6)\n', '< Save: wrote "cmp/C0080create.2.pdb".\n', '< PyMOL>dele all\n', '< PyMOL>load dat/ligs3d.sdf\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: "dat/ligs3d.sdf" loaded as "ligs3d", through state 10.\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>create cpy,il2\n', '< Selector: found 2084 atoms.\n', '< Executive: object "cpy" created.\n', '< PyMOL>print cmd.count_states("il2")\n', '< 1\n', '< PyMOL>print cmd.count_states("ligs3d")\n', '< 10\n', '< PyMOL>print cmd.count_states("cpy")\n', '< 1\n', '< PyMOL>create tst2,ligs3d, 5, 3\n', '< Selector: found 32 atoms.\n', '< Executive: object "tst2" created.\n', '< PyMOL>print cmd.count_states("tst2")\n', '< 3\n', '< PyMOL>print cmd.count_atoms("tst2 and state 1")\n', '< 0\n', '< PyMOL>print cmd.count_atoms("tst2 and state 2")\n', '< 0\n', '< PyMOL>print cmd.count_atoms("tst2 and state 3")\n', '< 32\n', '< PyMOL>print cmd.count_atoms("ligs3d and state 3")\n', '< 33\n', '< PyMOL>print cmd.count_atoms("ligs3d and state 5")\n', '< 32\n', '< PyMOL>print cmd.count_atoms("tst2 and state 5")\n', '< 0\n', '< PyMOL>dele all\n', '< PyMOL>load dat/ligs3d.sdf\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: "dat/ligs3d.sdf" loaded as "ligs3d", through state 10.\n', '< PyMOL>create tmp, ligs3d, 0, 4\n', '< Selector: found 337 atoms.\n', '< Executive: object "tmp" created.\n', '< PyMOL>count_states\n', '< cmd.count_states: 13 states.\n', '< PyMOL>disable\n', '< PyMOL>enable tmp\n', '< PyMOL>count_states\n', '< cmd.count_states: 13 states.\n'] run_tests: C0080create.1.pdb is missing. run_tests: C0080create.2.pdb is missing. run_tests: C0100select... run_tests: C0100select.log DIFFERS over about 90 lines: ['1,180d0\n', '< PyMOL>load dat/tiny.pdb\n', '< CmdLoad: "dat/tiny.pdb" loaded as "tiny".\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>print cmd.get_names()\n', "< ['tiny', 'il2']\n", '< PyMOL>select tst = (all)\n', '< Selector: selection "tst" defined with 2121 atoms.\n', '< PyMOL>select tst = (none)\n', '< Selector: selection "tst" defined with 0 atoms.\n', '< PyMOL>select tst = (name c)\n', '< Selector: selection "tst" defined with 129 atoms.\n', '< PyMOL>dele tst\n', '< PyMOL>select tst = (segi e)\n', '< Selector: selection "tst" defined with 9 atoms.\n', '< PyMOL>select tst = (all)\n', '< Selector: selection "tst" defined with 2121 atoms.\n', "< PyMOL>select (segi '')\n", '< Selector: selection "sel01" defined with 2112 atoms.\n', '< PyMOL>select (name ca,c,n,o)\n', '< Selector: selection "sel02" defined with 515 atoms.\n', '< PyMOL>select (n;ca,c)\n', '< Selector: selection "sel03" defined with 257 atoms.\n', '< PyMOL>select (resn pro)\n', '< Selector: selection "sel04" defined with 56 atoms.\n', '< PyMOL>select (r;pro)\n', '< Selector: selection "sel05" defined with 56 atoms.\n', '< PyMOL>select (chain c,e)\n', '< Selector: selection "sel06" defined with 36 atoms.\n', '< PyMOL>select (c;c,e)\n', '< Selector: selection "sel07" defined with 36 atoms.\n', '< PyMOL>select (resi 100)\n', '< Selector: selection "sel08" defined with 15 atoms.\n', '< PyMOL>select (i;100)\n', '< Selector: selection "sel09" defined with 15 atoms.\n', '< PyMOL>select (id 50)\n', '< Selector: selection "sel10" defined with 1 atoms.\n', '< PyMOL>select (byres id 50)\n', '< Selector: selection "sel11" defined with 22 atoms.\n', "< PyMOL>select (alt '')\n", '< Selector: selection "sel12" defined with 2121 atoms.\n', '< PyMOL>select (tiny)\n', '< Selector: selection "sel13" defined with 37 atoms.\n', '< PyMOL>select (tiny or il2)\n', '< Selector: selection "sel14" defined with 2121 atoms.\n', '< PyMOL>select (tiny | il2)\n', '< Selector: selection "sel15" defined with 2121 atoms.\n', '< PyMOL>select (vis)\n', '< Selector: selection "sel16" defined with 2121 atoms.\n', '< PyMOL>hide (tiny)\n', '< PyMOL>select (vis)\n', '< Selector: selection "sel17" defined with 2084 atoms.\n', "< PyMOL>print cmd.get_names('all')\n", "< ['tiny', 'il2', 'tst', 'sel01', 'sel02', 'sel03', 'sel04', 'sel05', 'sel06', 'sel07', 'sel08', 'sel09', 'sel10', 'sel11', 'sel12', 'sel13', 'sel14', 'sel15', 'sel16', 'sel17']\n", '< PyMOL>delete sel*\n', "< PyMOL>print cmd.get_names('all')\n", "< ['tiny', 'il2', 'tst']\n", '< PyMOL>select foo = (name c)\n', '< Selector: selection "foo" defined with 129 atoms.\n', '< PyMOL>select fie = (name n,c)\n', '< Selector: selection "fie" defined with 257 atoms.\n', '< PyMOL>select (foo and not fie)\n', '< Selector: selection "sel18" defined with 0 atoms.\n', '< PyMOL>select (fie &! foo)\n', '< Selector: selection "sel19" defined with 128 atoms.\n', '< PyMOL>select foe = (tiny a; 30)\n', '< Selector: selection "foe" defined with 105 atoms.\n', '< PyMOL>select fum = (il2 and not foe)\n', '< Selector: selection "fum" defined with 1979 atoms.\n', '< PyMOL>select (hydro)\n', '< Selector: selection "sel20" defined with 1075 atoms.\n', '< PyMOL>select (b<30 and b>0.1)\n', '< Selector: selection "sel21" defined with 362 atoms.\n', '< PyMOL>select (q=0.0)\n', '< Selector: selection "sel22" defined with 9 atoms.\n', '< PyMOL>select (q=1.0)\n', '< Selector: selection "sel23" defined with 2112 atoms.\n', '< PyMOL>select (b=0.0)\n', '< Selector: selection "sel24" defined with 1080 atoms.\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>select tst,pept within 5 of tiny\n', '< Selector: selection "tst" defined with 0 atoms.\n', '< PyMOL>select tst,pept within 50 of tiny\n', '< Selector: selection "tst" defined with 67 atoms.\n', '< PyMOL>select tst, pept w. 1 of pept\n', '< Selector: selection "tst" defined with 107 atoms.\n', '< PyMOL>print cmd.select("(none)")\n', '< 0\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb,mult\n', '< CmdLoad: "dat/pept.pdb" loaded as "mult".\n', '< PyMOL>load dat/il2.pdb,mult\n', '< CmdLoad: "dat/il2.pdb" appended into object "mult", state 2.\n', '< PyMOL>frame 1\n', '< PyMOL>select tst,mult and present\n', '< Selector: selection "tst" defined with 107 atoms.\n', '< PyMOL>frame 2\n', '< PyMOL>select tst,mult and present\n', '< Selector: selection "tst" defined with 2084 atoms.\n', '< PyMOL>select tst,state 1\n', '< Selector: selection "tst" defined with 107 atoms.\n', '< PyMOL>select tst,state 2\n', '< Selector: selection "tst" defined with 2084 atoms.\n', '< PyMOL>hide\n', '< PyMOL>show sph,name c\n', '< PyMOL>select tst,present and vis\n', '< Selector: selection "tst" defined with 126 atoms.\n', '< PyMOL>frame 1\n', '< PyMOL>select tst,present and vis\n', '< Selector: selection "tst" defined with 13 atoms.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>indicate name ca\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 13 atoms\n', '< PyMOL>indicate name *c*\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 69 atoms\n', '< PyMOL>indicate (name *c*,*n*)\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 86 atoms\n', '< PyMOL>indicate (name *c*+*n*)\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 86 atoms\n', '< PyMOL>indicate name *G\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 9 atoms\n', '< PyMOL>indicate */*G\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 9 atoms\n', '< PyMOL>indicate rank -3+5+10-23+7+40-\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 87 atoms\n', '< PyMOL>indicate id -3+5+10-23+7+40-\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 87 atoms\n', '< PyMOL>indicate index -3+5+10-23+7+40-\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 87 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load dat/1tii.pdb\n', '< HEADER ENTEROTOXIN 20-MAR-96 1TII\n', '< TITLE ESCHERICHIA COLI HEAT LABILE ENTEROTOXIN TYPE IIB\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: HEAT LABILE ENTEROTOXIN TYPE IIB;\n', '< COMPND 3 CHAIN: D, E, F, G, H, A, C;\n', '< COMPND 4 SYNONYM: LT-IIB;\n', '< COMPND 5 ENGINEERED: YES;\n', '< COMPND 6 OTHER_DETAILS: LATENT/INACTIVE FORM\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 6 symmetry operators.\n', '< CmdLoad: "dat/1tii.pdb" loaded as "1tii".\n', '< PyMOL>indicate A:C+F/10+90+100-/ca+c+n*\n', '< PyMOL>count_atoms indicate\n', '< count_atoms: 435 atoms\n', '< PyMOL>count_atoms 1TII\n', '< count_atoms: 5684 atoms\n', '< PyMOL>count_atoms 1tii\n', '< count_atoms: 5684 atoms\n', '< PyMOL>count_atoms HOH`307/ expand 5\n', '< count_atoms: 12 atoms\n', '< PyMOL>count_atoms a// c//\n', '< count_atoms: 1769 atoms\n', '< PyMOL>count_atoms a// c// d//\n', '< count_atoms: 2509 atoms\n', '< PyMOL>count_atoms (a// c//) d//\n', '< count_atoms: 2509 atoms\n', '< PyMOL>count_atoms a// c//&none\n', '< count_atoms: 1479 atoms\n', '< PyMOL>count_atoms c//&none a//\n', '< count_atoms: 1479 atoms\n', '< PyMOL>count_atoms c//&none (a//&none a//)\n', '< count_atoms: 1479 atoms\n', '< PyMOL>count_atoms (c//&none) a// (a//&none)\n', '< count_atoms: 1479 atoms\n', '< PyMOL>count_atoms (a// (d// c//)) & (e// (b// a//))\n', '< count_atoms: 1479 atoms\n'] run_tests: C0105names... run_tests: C0105names.log DIFFERS over about 27 lines: ['1,54d0\n', '< PyMOL>load dat/names.pdb\n', '< CmdLoad: "dat/names.pdb" loaded as "names".\n', "< PyMOL>select test,name O4'\n", '< Selector: selection "test" defined with 2 atoms.\n', "< PyMOL>select test,*/O4'\n", '< Selector: selection "test" defined with 2 atoms.\n', "< PyMOL>select test,*/O4'+O3'\n", '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,(*/O4',O3')\n", '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,name O4'+O3'\n", '< Selector: selection "test" defined with 4 atoms.\n', '< PyMOL>select test,name "O4\'+O3\'"\n', '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,name O4'+Na\\+\n", '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,(name Na\\+,O4')\n", '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,name Na\\++O4'\n", '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,*/Na\\++O4'\n", '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,*/O4'+O4\n", '< Selector: selection "test" defined with 3 atoms.\n', '< PyMOL>select test,*/O2\\*+O2\n', '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,*/O2\\*+O2'\n", '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,name 'O4''\n", '< Selector: selection "test" defined with 2 atoms.\n', '< PyMOL>select test,name "O4\'"+O2\'\n', '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,name 'O4''+O2'\n", '< Selector: selection "test" defined with 4 atoms.\n', "< PyMOL>select test,name O4'+C2+C4+Na\\++Cl\\-\n", '< Selector: selection "test" defined with 13 atoms.\n', "< PyMOL>select test,*/O4'+C2+C4+Na\\++Cl\\-\n", '< Selector: selection "test" defined with 13 atoms.\n', "< PyMOL>select test,names////O4'\n", '< Selector: selection "test" defined with 2 atoms.\n', "< PyMOL>select test,names and */O4'+'Na\\+'+'C2'+'C4'\n", '< Selector: selection "test" defined with 12 atoms.\n', "< PyMOL>select test,chain ''\n", '< Selector: selection "test" defined with 0 atoms.\n', "< PyMOL>select test,segi ''\n", '< Selector: selection "test" defined with 86 atoms.\n', "< PyMOL>select test,chain R+''\n", '< Selector: selection "test" defined with 82 atoms.\n', "< PyMOL>select test,chain ''+R\n", '< Selector: selection "test" defined with 82 atoms.\n', '< PyMOL>select test,name Na\\+\n', '< Selector: selection "test" defined with 2 atoms.\n', '< PyMOL>select test,name "Na\\+"\n', '< Selector: selection "test" defined with 2 atoms.\n'] run_tests: C0106order... run_tests: C0106order.log DIFFERS over about 49 lines: ['1,98d0\n', '< PyMOL>order does_not_exist\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>order *\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>order *,location=top\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>order *,location=bottom\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>order *,location=current\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>order pept\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>order *\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>order *,location=top\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>order *,location=bottom\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>order *,location=current\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>print cmd.get_names()\n', "< ['pept', 'il2']\n", '< PyMOL>order *\n', '< PyMOL>print cmd.get_names()\n', "< ['pept', 'il2']\n", '< PyMOL>order il2,location=current\n', '< PyMOL>print cmd.get_names()\n', "< ['pept', 'il2']\n", '< PyMOL>order il2,location=top\n', '< PyMOL>print cmd.get_names()\n', "< ['il2', 'pept']\n", '< PyMOL>order il2,location=bottom\n', '< PyMOL>print cmd.get_names()\n', "< ['pept', 'il2']\n", '< PyMOL>order il2 pept\n', '< PyMOL>print cmd.get_names()\n', "< ['il2', 'pept']\n", '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>print cmd.get_names()\n', "< ['il2', 'pept', 'small01']\n", '< PyMOL>order small01 pept\n', '< PyMOL>print cmd.get_names()\n', "< ['il2', 'small01', 'pept']\n", '< PyMOL>order small01 pept il2\n', '< PyMOL>print cmd.get_names()\n', "< ['small01', 'pept', 'il2']\n", '< PyMOL>order *\n', '< PyMOL>print cmd.get_names()\n', "< ['small01', 'pept', 'il2']\n", '< PyMOL>create aaa,pept\n', '< Selector: found 107 atoms.\n', '< Executive: object "aaa" created.\n', '< PyMOL>order *,sort=1\n', '< PyMOL>print cmd.get_names()\n', "< ['aaa', 'il2', 'pept', 'small01']\n", '< PyMOL>create zzz,pept\n', '< Selector: found 107 atoms.\n', '< Executive: object "zzz" created.\n', '< PyMOL>order *,sort=1\n', '< PyMOL>print cmd.get_names()\n', "< ['aaa', 'il2', 'pept', 'small01', 'zzz']\n", '< PyMOL>create pept2, pept\n', '< Selector: found 107 atoms.\n', '< Executive: object "pept2" created.\n', '< PyMOL>create pept1, pept\n', '< Selector: found 107 atoms.\n', '< Executive: object "pept1" created.\n', '< PyMOL>order pept*\n', '< PyMOL>print cmd.get_names()\n', "< ['aaa', 'il2', 'pept', 'pept2', 'pept1', 'small01', 'zzz']\n", '< PyMOL>order pept*,sort=1\n', '< PyMOL>print cmd.get_names()\n', "< ['aaa', 'il2', 'pept', 'pept1', 'pept2', 'small01', 'zzz']\n", '< PyMOL>order pept*,location=top\n', '< PyMOL>print cmd.get_names()\n', "< ['pept', 'pept1', 'pept2', 'aaa', 'il2', 'small01', 'zzz']\n", '< PyMOL>order pept*,location=bottom\n', '< PyMOL>print cmd.get_names()\n', "< ['aaa', 'il2', 'small01', 'zzz', 'pept', 'pept1', 'pept2']\n", '< PyMOL>order aaa,location=bottom\n', '< PyMOL>order zzz,location=top\n', '< PyMOL>print cmd.get_names()\n', "< ['zzz', 'il2', 'small01', 'pept', 'pept1', 'pept2', 'aaa']\n"] run_tests: C0140iterate... run_tests: C0140iterate.log DIFFERS over about 23 lines: ['1,45d0\n', '< PyMOL>load dat/tiny.pdb\n', '< CmdLoad: "dat/tiny.pdb" loaded as "tiny".\n', '< PyMOL>names = []\n', '< PyMOL>iterate (all),names.append(name)\n', '< Iterate: iterated over 37 atoms.\n', '< PyMOL>print names\n', "< ['C', 'O', 'N', 'CA', 'C', 'O', 'CB', 'CG', 'CD', 'HA', '2HB', '3HB', '2HG', '3HG', '2HD', '3HD', 'N', 'CA', 'C', 'O', 'CB', 'OG', 'H', 'HA', '2HB', '3HB', 'HG', 'O', 'O01', 'C02', 'C03', 'C04', 'C05', 'H01', 'H04', 'H05', 'H06']\n", '< PyMOL>bfct = []\n', '< PyMOL>iterate (resn pro),bfct.append(b)\n', '< Iterate: iterated over 14 atoms.\n', '< 50.7800\n', '< 48.1600\n', '< 43.9800\n', '< 44.4900\n', '< 38.5700\n', '< 54.5800\n', '< 46.5900\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', "< PyMOL>iterate (all),resn = 'NON'\n", '< Iterate: iterated over 37 atoms.\n', '< PyMOL>iterate (all),b = b + 10\n', '< Iterate: iterated over 37 atoms.\n', '< PyMOL>bfct = []\n', '< PyMOL>iterate (resn pro),bfct.append(b)\n', '< Iterate: iterated over 14 atoms.\n', '< 50.7800\n', '< 48.1600\n', '< 43.9800\n', '< 44.4900\n', '< 38.5700\n', '< 54.5800\n', '< 46.5900\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n', '< 0.0000\n'] run_tests: C0150alter... run_tests: C0150alter.1.pdb is missing. run_tests: C0150alter.log DIFFERS over about 11 lines: ['1,22d0\n', '< PyMOL>load dat/tiny.pdb\n', '< CmdLoad: "dat/tiny.pdb" loaded as "tiny".\n', '< PyMOL>alter (all),resn = name\n', '< Alter: modified 37 atoms.\n', '< PyMOL>alter (all),b = b + 10\n', '< Alter: modified 37 atoms.\n', '< PyMOL>alter (all),q = 0.95\n', '< Alter: modified 37 atoms.\n', '< PyMOL>alter (all),name = name[0:2]\n', '< Alter: modified 37 atoms.\n', "< PyMOL>alter (het),type = 'ATOM'\n", '< Alter: modified 10 atoms.\n', "< PyMOL>alter (resi 9),type ='HETATM'\n", '< Alter: modified 11 atoms.\n', "< PyMOL>alter (e;c),elem = 'X'\n", '< Alter: modified 13 atoms.\n', '< PyMOL>alter (resi 8),resi=str(int(resi)+10)\n', '< Alter: modified 14 atoms.\n', "< PyMOL>alter (resi 7),alt='B'\n", '< Alter: modified 2 atoms.\n', '< PyMOL>save cmp/C0150alter.1.pdb\n', '< Save: wrote "cmp/C0150alter.1.pdb".\n'] run_tests: C0160get... run_tests: C0160get.log DIFFERS over about 42 lines: ['1,84d0\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" appended into object "pept", state 2.\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" appended into object "pept", state 3.\n', '< PyMOL>get line_width\n', '< get: line_width = 1.49000\n', '< PyMOL>get line_width,doesnotexist\n', '< SettingGet-Error: object "doesnotexist" not found.\n', '< PyMOL>get line_width,doesnotexist,5\n', '< SettingGet-Error: object "doesnotexist" not found.\n', '< PyMOL>get line_width,pept\n', '< get: line_width = 1.49000 in object pept\n', '< PyMOL>get line_width,pept,0\n', '< get: line_width = 1.49000 in object pept\n', '< PyMOL>get line_width,pept,1\n', '< get: line_width = 1.49000 in object pept state 1\n', '< PyMOL>get line_width,pept,2\n', '< get: line_width = 1.49000 in object pept state 2\n', '< PyMOL>get line_width,pept,3\n', '< get: line_width = 1.49000 in object pept state 3\n', '< PyMOL>get line_width,pept,4\n', '< SettingGet-Error: object "pept" lacks state 4.\n', '< PyMOL>set line_width,2.0,pept\n', '< Setting: line_width set to 2.00000 in object "pept".\n', '< PyMOL>get line_width,pept\n', '< get: line_width = 2.00000 in object pept\n', '< PyMOL>get line_width,pept,1\n', '< get: line_width = 2.00000 in object pept state 1\n', '< PyMOL>get line_width,pept,2\n', '< get: line_width = 2.00000 in object pept state 2\n', '< PyMOL>get line_width,pept,3\n', '< get: line_width = 2.00000 in object pept state 3\n', '< PyMOL>set line_width,4.0,pept,1\n', '< Setting: line_width set to 4.00000 in object "pept", state 1.\n', '< PyMOL>get line_width,pept\n', '< get: line_width = 2.00000 in object pept\n', '< PyMOL>get line_width,pept,1\n', '< get: line_width = 4.00000 in object pept state 1\n', '< PyMOL>get line_width,pept,2\n', '< get: line_width = 2.00000 in object pept state 2\n', '< PyMOL>get line_width,pept,3\n', '< get: line_width = 2.00000 in object pept state 3\n', '< PyMOL>set line_width,6.0,pept,2\n', '< Setting: line_width set to 6.00000 in object "pept", state 2.\n', '< PyMOL>get line_width,pept\n', '< get: line_width = 2.00000 in object pept\n', '< PyMOL>get line_width,pept,1\n', '< get: line_width = 4.00000 in object pept state 1\n', '< PyMOL>get line_width,pept,2\n', '< get: line_width = 6.00000 in object pept state 2\n', '< PyMOL>get line_width,pept,3\n', '< get: line_width = 2.00000 in object pept state 3\n', '< PyMOL>unset line_width,pept,2\n', '< Setting: line_width unset in object "pept", state 2.\n', '< PyMOL>get line_width,pept\n', '< get: line_width = 2.00000 in object pept\n', '< PyMOL>get line_width,pept,1\n', '< get: line_width = 4.00000 in object pept state 1\n', '< PyMOL>get line_width,pept,2\n', '< get: line_width = 2.00000 in object pept state 2\n', '< PyMOL>get line_width,pept,3\n', '< get: line_width = 2.00000 in object pept state 3\n', '< PyMOL>unset line_width,pept\n', '< Setting: line_width unset in object "pept".\n', '< PyMOL>get line_width,pept\n', '< get: line_width = 1.49000 in object pept\n', '< PyMOL>get line_width,pept,1\n', '< get: line_width = 4.00000 in object pept state 1\n', '< PyMOL>get line_width,pept,2\n', '< get: line_width = 1.49000 in object pept state 2\n', '< PyMOL>get line_width,pept,3\n', '< get: line_width = 1.49000 in object pept state 3\n', '< PyMOL>unset line_width,pept,1\n', '< Setting: line_width unset in object "pept", state 1.\n', '< PyMOL>get line_width,pept\n', '< get: line_width = 1.49000 in object pept\n', '< PyMOL>get line_width,pept,1\n', '< get: line_width = 1.49000 in object pept state 1\n', '< PyMOL>get line_width,pept,2\n', '< get: line_width = 1.49000 in object pept state 2\n', '< PyMOL>get line_width,pept,3\n', '< get: line_width = 1.49000 in object pept state 3\n'] run_tests: C0170scene... run_tests: C0170scene.log DIFFERS over about 125 lines: ['1,250d0\n', '< PyMOL>scene -10\n', "< Error: unknown scene: '-10'. Choices:\n", '< PyMOL>scene 9999\n', "< Error: unknown scene: '9999'. Choices:\n", '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>scene 1,store\n', '< scene: scene stored as "1".\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>scene 2,store\n', '< scene: scene stored as "2".\n', '< PyMOL>scene 1,recall\n', '< Scene: view updated.\n', '< scene: "1" recalled.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 0 graphics primitives.\n', '< PyMOL>scene 2\n', '< Scene: view updated.\n', '< scene: "2" recalled.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>dist tst,5/ca,8/ca\n', '< Executive: object "tst" created.\n', '< PyMOL>turn x,5\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.996 0.087 0.000 -0.087 0.996\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>scene 3,store\n', '< scene: scene stored as "3".\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 180 graphics primitives.\n', '< PyMOL>hide dashes,tst\n', '< PyMOL>turn y,5\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 0.996 0.000 -0.087 0.008 0.996 0.087 0.087 -0.087 0.992\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>scene 4,store\n', '< scene: scene stored as "4".\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 172 graphics primitives.\n', '< PyMOL>scene 3\n', '< Scene: view updated.\n', '< scene: "3" recalled.\n', '< PyMOL>disable tst\n', '< PyMOL>turn z,20\n', '< PyMOL>scene 5,store\n', '< scene: scene stored as "5".\n', '< PyMOL>scene 1\n', '< Scene: view updated.\n', '< scene: "1" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 0 graphics primitives.\n', '< PyMOL>scene 2\n', '< Scene: view updated.\n', '< scene: "2" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>scene 3\n', '< Scene: view updated.\n', '< scene: "3" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.996 0.087 0.000 -0.087 0.996\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 180 graphics primitives.\n', '< PyMOL>scene 4\n', '< Scene: view updated.\n', '< scene: "4" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 0.996 0.000 -0.087 0.008 0.996 0.087 0.087 -0.087 0.992\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 172 graphics primitives.\n', '< PyMOL>scene 5\n', '< Scene: view updated.\n', '< scene: "5" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 0.940 0.342 0.000 -0.341 0.936 0.087 0.030 -0.082 0.996\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>scene 0\n', "< Error: unknown scene: '0'. Choices:\n", '< 1 2 3 4 5\n', '< PyMOL>scene 6\n', "< Error: unknown scene: '6'. Choices:\n", '< 1 2 3 4 5\n', '< PyMOL>scene 1000\n', "< Error: unknown scene: '1000'. Choices:\n", '< 1 2 3 4 5\n', '< PyMOL>scene 4,clear\n', "< scene: '4' deleted.\n", '< PyMOL>scene 4\n', "< Error: unknown scene: '4'. Choices:\n", '< 1 2 3 5\n', '< PyMOL>scene *\n', '< scene: current order:\n', '< 1 2 3 5\n', '< PyMOL>scene *,clear\n', '< PyMOL>scene *\n', '< scene: current order:\n', '< PyMOL>scene 1\n', "< Error: unknown scene: '1'. Choices:\n", '< PyMOL>hide\n', '< PyMOL>show lines\n', '< PyMOL>color red\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>scene 1, store\n', '< scene: scene stored as "1".\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 0 atoms\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 112 graphics primitives.\n', '< PyMOL>hide\n', '< PyMOL>show sticks\n', '< PyMOL>color blue\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>scene 2, store\n', '< scene: scene stored as "2".\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 107 atoms\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 112 graphics primitives.\n', '< PyMOL>scene 1\n', '< Scene: view updated.\n', '< scene: "1" recalled.\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 0 atoms\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 112 graphics primitives.\n', '< PyMOL>scene 2\n', '< Scene: view updated.\n', '< scene: "2" recalled.\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 107 atoms\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 112 graphics primitives.\n', '< PyMOL>scene 2,rename,new_key=3\n', "< scene: '2' renamed to '3'.\n", '< PyMOL>scene 1\n', '< Scene: view updated.\n', '< scene: "1" recalled.\n', '< PyMOL>count_atoms rep lines\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms rep sticks\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 0 atoms\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 112 graphics primitives.\n', '< PyMOL>scene 3\n', '< Scene: view updated.\n', '< scene: "3" recalled.\n', '< PyMOL>count_atoms rep lines\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms rep sticks\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 107 atoms\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 112 graphics primitives.\n', '< PyMOL>scene 2\n', "< Error: unknown scene: '2'. Choices:\n", '< 1 3\n', '< PyMOL>count_atoms rep lines\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms rep sticks\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 107 atoms\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 112 graphics primitives.\n', '< PyMOL>scene 3\n', '< Scene: view updated.\n', '< scene: "3" recalled.\n', '< PyMOL>hide\n', '< PyMOL>color green\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>show spheres\n', '< PyMOL>scene auto, update\n', '< scene: scene updated as "3".\n', '< PyMOL>count_atoms rep spheres\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms color green\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms rep lines\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms rep sticks\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 0 atoms\n', '< PyMOL>scene 1\n', '< Scene: view updated.\n', '< scene: "1" recalled.\n', '< PyMOL>count_atoms rep spheres\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color green\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms rep lines\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms rep sticks\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 0 atoms\n', '< PyMOL>scene 3\n', '< Scene: view updated.\n', '< scene: "3" recalled.\n', '< PyMOL>count_atoms rep spheres\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms color green\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms rep lines\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color red\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms rep sticks\n', '< count_atoms: 0 atoms\n', '< PyMOL>count_atoms color blue\n', '< count_atoms: 0 atoms\n'] run_tests: C0180embed... run_tests: C0180embed.log DIFFERS over about 45 lines: ['1,90d0\n', '< PyMOL>load dat/embed01.p1m\n', '< PyMOL>embed peptide\n', '< Embed: read 108 lines.\n', '< PyMOL>load_embedded peptide\n', '< CmdLoad: PDB-string loaded into object "peptide", state 1.\n', '< PyMOL>count_atoms\n', '< count_atoms: 107 atoms\n', '< PyMOL>hide everything, peptide\n', '< PyMOL>show sticks, peptide\n', '< PyMOL>set valence\n', '< Setting: valence set to on.\n', '< PyMOL>set ray_default_renderer,2\n', '< Setting: ray_default_renderer set to 2.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 207 graphics primitives.\n', '< PyMOL>load dat/embed02.p1m\n', '< PyMOL>embed sm, mol\n', '< Embed: read 78 lines.\n', '< PyMOL>load_embedded sm\n', '< ExecutiveLoad: content loaded into object "sm", through state 1.\n', '< PyMOL>hide everything, sm\n', '< PyMOL>show sticks, sm\n', '< PyMOL>set valence\n', '< Setting: valence set to on.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 269 graphics primitives.\n', '< PyMOL>load dat/embed03.p1m\n', '< PyMOL>embed ligands,sdf\n', '< Embed: read 923 lines.\n', '< PyMOL>load_embedded ligands\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: content loaded into object "ligands", through state 10.\n', '< PyMOL>hide everything, ligands\n', '< PyMOL>show sticks, ligands\n', '< PyMOL>set valence\n', '< Setting: valence set to on.\n', '< PyMOL>frame 5\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 343 graphics primitives.\n', '< PyMOL>load dat/embed04.p1m\n', '< PyMOL>embed m2, mol2\n', '< Embed: read 963 lines.\n', '< PyMOL>load_embedded m2\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: content loaded into object "m2", through state 16.\n', '< PyMOL>hide everything, m2\n', '< PyMOL>show sticks, m2\n', '< PyMOL>set valence\n', '< Setting: valence set to on.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 356 graphics primitives.\n', '< PyMOL>load dat/embed05.p1m\n', '< PyMOL>embed ligand, mol\n', '< Embed: read 77 lines.\n', '< PyMOL>embed protein\n', '< Embed: read 227 lines.\n', '< PyMOL>load_embedded ligand\n', '< ExecutiveLoad: content loaded into object "ligand", through state 1.\n', '< PyMOL>load_embedded protein\n', '< CmdLoad: PDB-string loaded into object "protein", state 1.\n', '< PyMOL>hide lines, ligand\n', '< PyMOL>show sticks, ligand\n', '< PyMOL>set valence\n', '< Setting: valence set to on.\n', '< PyMOL>dist hbond, protein, ligand, mode=2\n', '< Executive: object "hbond" created.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 868 graphics primitives.\n', '< PyMOL>print cmd.get_state()\n', '< 5\n', '< PyMOL>print cmd.get_names()\n', "< ['peptide', 'sm', 'ligands', 'm2', 'ligand', 'protein', 'hbond']\n"] run_tests: C0181embed... run_tests: C0181embed.log DIFFERS over about 10 lines: ['1,20d0\n', '< PyMOL>load dat/embed06.p1m\n', '< PyMOL>embed\n', '< Embed: read 108 lines.\n', '< PyMOL>load_embedded\n', '< CmdLoad: PDB-string loaded into object "embed06", state 1.\n', '< PyMOL>hide\n', '< PyMOL>show surface\n', '< PyMOL>set transparency, 0.5\n', '< Setting: transparency set to 0.50000.\n', '< PyMOL>set surface_color, white\n', '< Setting: surface_color set to white.\n', '< PyMOL>show sticks\n', '< PyMOL>set ray_default_renderer,2\n', '< Setting: ray_default_renderer set to 2.\n', '< PyMOL>ray\n', '< RepSurface: 1319 surface points.\n', '< RepSurface: 2634 triangles.\n', '< RayRenderTest: obtained 2800 graphics primitives.\n', '< PyMOL>print cmd.get_names()\n', "< ['embed06']\n"] run_tests: C0200feedback... run_tests: C0200feedback.log DIFFERS over about 127 lines: ['1,253d0\n', '< PyMOL>feedback\n', '< feedback: possible actions: \n', '< set, enable, disable\n', '< feedback: Please specify module names:\n', '< all\n', '< api\n', '< ccmd\n', '< cgo\n', '< cmd\n', '< color\n', '< coordset\n', '< distset\n', '< editor\n', '< executive\n', '< export\n', '< extrude\n', '< feedback\n', '< gadgetset\n', '< isomesh\n', '< isosurface\n', '< main\n', '< map\n', '< match\n', '< matrix\n', '< movie\n', '< mypng\n', '< nag\n', '< object\n', '< objectcallback\n', '< objectcgo\n', '< objectdist\n', '< objectgadget\n', '< objectmap\n', '< objectmesh\n', '< objectmolecule\n', '< objectslice\n', '< objectsurface\n', '< opengl\n', '< ortho\n', '< parser\n', '< python\n', '< raw\n', '< ray\n', '< rep\n', '< repangle\n', '< repcartoon\n', '< repcylbond\n', '< repdihederal\n', '< repdistdash\n', '< repdistlabel\n', '< repdot\n', '< replabel\n', '< repmesh\n', '< repnonbonded\n', '< repnonbondedsphere\n', '< repribbon\n', '< repsphere\n', '< repsurface\n', '< repwirebond\n', '< scene\n', '< sculpt\n', '< selector\n', '< setting\n', '< shaker\n', '< symmetry\n', '< threads\n', '< triangle\n', '< vfont\n', '< feedback: Please specify masks:\n', '< actions\n', '< blather\n', '< debugging\n', '< details\n', '< errors\n', '< everything\n', '< output\n', '< results\n', '< warnings\n', '< PyMOL>feedback ?\n', '< Usage: feedback [ action [, module [, mask ]]]\n', '< PyMOL>feedback enable\n', '< feedback: Please specify module names:\n', '< all\n', '< api\n', '< ccmd\n', '< cgo\n', '< cmd\n', '< color\n', '< coordset\n', '< distset\n', '< editor\n', '< executive\n', '< export\n', '< extrude\n', '< feedback\n', '< gadgetset\n', '< isomesh\n', '< isosurface\n', '< main\n', '< map\n', '< match\n', '< matrix\n', '< movie\n', '< mypng\n', '< nag\n', '< object\n', '< objectcallback\n', '< objectcgo\n', '< objectdist\n', '< objectgadget\n', '< objectmap\n', '< objectmesh\n', '< objectmolecule\n', '< objectslice\n', '< objectsurface\n', '< opengl\n', '< ortho\n', '< parser\n', '< python\n', '< raw\n', '< ray\n', '< rep\n', '< repangle\n', '< repcartoon\n', '< repcylbond\n', '< repdihederal\n', '< repdistdash\n', '< repdistlabel\n', '< repdot\n', '< replabel\n', '< repmesh\n', '< repnonbonded\n', '< repnonbondedsphere\n', '< repribbon\n', '< repsphere\n', '< repsurface\n', '< repwirebond\n', '< scene\n', '< sculpt\n', '< selector\n', '< setting\n', '< shaker\n', '< symmetry\n', '< threads\n', '< triangle\n', '< vfont\n', '< feedback: Please specify masks:\n', '< actions\n', '< blather\n', '< debugging\n', '< details\n', '< errors\n', '< everything\n', '< output\n', '< results\n', '< warnings\n', '< PyMOL>feedback enable, selector\n', '< feedback: Please specify masks:\n', '< actions\n', '< blather\n', '< debugging\n', '< details\n', '< errors\n', '< everything\n', '< output\n', '< results\n', '< warnings\n', '< PyMOL>feedback enable, selector, everything\n', '< PyMOL>feedback enable, repcartoon extrude, everything\n', '< PyMOL>load dat/pept.pdb\n', '< SelectorCreate-Debug: entered...\n', '< SelectorUpdateTableSingleObject-Debug: entered for pept...\n', '< SelectorUpdateTableSingleObject-Debug: leaving...\n', '< Selector: Embedded pept, 107 atoms.\n', '< SelectorCreate: "pept" created with 107 atoms.\n', '< SelectorUpdateTableSingleObject-Debug: entered for pept...\n', '< SelectorUpdateTableSingleObject-Debug: leaving...\n', '< SelectorUpdateTableSingleObject-Debug: entered for pept...\n', '< SelectorUpdateTableSingleObject-Debug: leaving...\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>show cartoon\n', '< SelectorGetTmp-Debug: entered with "all".\n', '< SelectorGetTmp-Debug: leaving with "all".\n', '< PyMOL>refresh\n', '< RepCartoonNew-Debug: entered.\n', '< RepCartoon: found CA in 1; a2 -1\n', '< RepCartoon: found CA in 1; a2 -1\n', '< RepCartoon: found CA in 2; a2 1\n', '< RepCartoon: found CA in 2; a2 1\n', '< RepCartoon: found CA in 3; a2 9\n', '< RepCartoon: found CA in 3; a2 9\n', '< RepCartoon: found CA in 4; a2 15\n', '< RepCartoon: found CA in 4; a2 15\n', '< RepCartoon: found CA in 5; a2 20\n', '< RepCartoon: found CA in 5; a2 20\n', '< RepCartoon: found CA in 6; a2 34\n', '< RepCartoon: found CA in 6; a2 34\n', '< RepCartoon: found CA in 7; a2 44\n', '< RepCartoon: found CA in 7; a2 44\n', '< RepCartoon: found CA in 8; a2 52\n', '< RepCartoon: found CA in 8; a2 52\n', '< RepCartoon: found CA in 9; a2 56\n', '< RepCartoon: found CA in 9; a2 56\n', '< RepCartoon: found CA in 10; a2 65\n', '< RepCartoon: found CA in 10; a2 65\n', '< RepCartoon: found CA in 11; a2 73\n', '< RepCartoon: found CA in 11; a2 73\n', '< RepCartoon: found CA in 12; a2 80\n', '< RepCartoon: found CA in 12; a2 80\n', '< RepCartoon: found CA in 13; a2 94\n', '< RepCartoon: found CA in 13; a2 94\n', '< RepCartoon-Debug: path outlined, interpolating...\n', '< RepCartoon: seg 0 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 1 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 2 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 3 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 4 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 5 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 6 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 7 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 8 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 9 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 10 *s 1 , *(s+1) 1\n', '< RepCartoon: seg 11 *s 1 , *(s+1) 1\n', '< RepCartoon-Debug: generating coordinate systems...\n', '< RepCartoon-Debug: creating 3D scaffold...\n', '< ExtrudeComputeTangents-DEBUG: entered.\n', '< ExtrudeComputeTangents-DEBUG: exiting...\n', '< ExtrudeRectangle-DEBUG: entered...\n', '< ExtrudeRectangle-DEBUG: exiting...\n', '< ExtrudeBuildNormals2f-DEBUG: entered.\n', '< ExtrudeBuildNormals2f-DEBUG: entering...\n', '< ExtrudeCGOSurfaceStrand-DEBUG: entered.\n', '< ExtrudeCGOSurfaceStrand-DEBUG: exiting...\n', '< ExtrudeComputeTangents-DEBUG: entered.\n', '< ExtrudeComputeTangents-DEBUG: exiting...\n', '< ExtrudeCircle-DEBUG: entered.\n', '< ExtrudeCircle-DEBUG: exiting...\n', '< ExtrudeBuildNormals1f-DEBUG: entered.\n', '< ExtrudeBuildNormals1f-DEBUG: exiting...\n', '< ExtrudeCGOSurfaceTube-DEBUG: entered.\n', '< ExtrudeCGOSurfaceTube-DEBUG: exiting...\n', '< ExtrudeComputeTangents-DEBUG: entered.\n', '< ExtrudeComputeTangents-DEBUG: exiting...\n', '< ExtrudeRectangle-DEBUG: entered...\n', '< ExtrudeRectangle-DEBUG: exiting...\n', '< ExtrudeBuildNormals2f-DEBUG: entered.\n', '< ExtrudeBuildNormals2f-DEBUG: entering...\n', '< ExtrudeCGOSurfaceStrand-DEBUG: entered.\n', '< ExtrudeCGOSurfaceStrand-DEBUG: exiting...\n', '< PyMOL>feedback disable, repcartoon extrude, everything\n', '< PyMOL>rebuild\n', '< PyMOL>refresh\n'] run_tests: C0201extend... run_tests: C0201extend.log DIFFERS over about 11 lines: ['1,22d0\n', '< PyMOL>def foo(moo=2): print moo\n', "< PyMOL>cmd.extend('foo',foo)\n", '< PyMOL>foo\n', '< 2\n', '< PyMOL>foo 3\n', '< 3\n', '< PyMOL>foo moo=5\n', '< 5\n', '< PyMOL>foo ?\n', '< Usage: foo [ moo ]\n', '< PyMOL>def fie(moo=3):\\\n', '< PyMOL>"help for fie" \\\n', '< PyMOL>print moo\n', '< PyMOL>print fie.__doc__\n', '< help for fie\n', '< PyMOL>help fie\n', "< Error: unknown topic: 'fie'.\n", "< PyMOL>cmd.extend('fie',fie)\n", '< PyMOL>help fie\n', '< \n', '< help for fie \n', '< \n'] run_tests: C0202help_python... run_tests: C0202help_python.log DIFFERS over about 50 lines: ['1,99d0\n', '< PyMOL>help def\n', '< \n', '< DESCRIPTION\n', '< \n', '< You have asked for help on a Python keyword which is available\n', '< from within the PyMOL command language. Please consult the\n', '< official Python documentation at http://www.python.org for\n', '< detailed information on Python keywords.\n', '< \n', '< You may include Python blocks in your PyMOL command scripts, but do\n', '< note that multi-line blocks of Python in PyMOL command files will\n', '< require explicit continuation syntax in order to execute properly\n', '< (see below).\n', '< \n', '< Generally, if you want to write Python block which span multiple\n', '< lines, you will want to use ".py" file, and then use "extend" in\n', '< order to expose your new code to the PyMOL command language. This\n', '< will give you better error checking and more predictable results.\n', '< \n', '< EXAMPLES\n', '< \n', '< a=1\n', '< while a<10: \\\n', '< print a \\\n', '< a=a+1\n', '< \n', '< SEE ALSO\n', '< \n', '< extend, run, @ \n', '< \n', "< PyMOL>cmd.python_help.__doc__='python help'\n", '< PyMOL>help for\n', '< \n', '< python help \n', '< \n', '< PyMOL>help pass\n', '< \n', '< python help \n', '< \n', '< PyMOL>help raise\n', '< \n', '< python help \n', '< \n', '< PyMOL>help return\n', '< \n', '< python help \n', '< \n', '< PyMOL>help try\n', '< \n', '< python help \n', '< \n', '< PyMOL>help except\n', '< \n', '< python help \n', '< \n', '< PyMOL>help finally\n', '< \n', '< python help \n', '< \n', '< PyMOL>help while\n', '< \n', '< python help \n', '< \n', '< PyMOL>help assert\n', '< \n', '< python help \n', '< \n', '< PyMOL>help class\n', '< \n', '< python help \n', '< \n', '< PyMOL>help continue\n', '< \n', '< python help \n', '< \n', '< PyMOL>help del\n', '< \n', '< python help \n', '< \n', '< PyMOL>help elif\n', '< \n', '< python help \n', '< \n', '< PyMOL>help else\n', '< \n', '< python help \n', '< \n', '< PyMOL>help global\n', '< \n', '< python help \n', '< \n', '< PyMOL>help if\n', '< \n', '< python help \n', '< \n', '< PyMOL>help import\n', '< \n', '< python help \n', '< \n'] run_tests: C0300session... run_tests: C0300session.log DIFFERS over about 13 lines: ['1,26d0\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>select cas,name ca\n', '< Selector: selection "cas" defined with 13 atoms.\n', '< PyMOL>set line_width,5\n', '< Setting: line_width set to 5.00000.\n', '< PyMOL>show spheres,name n\n', '< PyMOL>save tmp/session.pse\n', '< Save: wrote "tmp/session.pse".\n', '< PyMOL>reinitialize\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>get line_width\n', '< get: line_width = 1.49000\n', '< PyMOL>count_atoms rep spheres\n', '< count_atoms: 0 atoms\n', '< PyMOL>load tmp/session.pse\n', '< Executive: Loading version 1.20 session...\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>get line_width\n', '< get: line_width = 5.00000\n', '< PyMOL>count_atoms rep spheres\n', '< count_atoms: 13 atoms\n', '< PyMOL>count_atoms cas\n', '< count_atoms: 13 atoms\n'] run_tests: C0500misc... run_tests: C0500misc.log DIFFERS over about 129 lines: ['1,258d0\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>cls\n', '< \n', '< PyMOL>print cmd.count_states()\n', '< 1\n', '< PyMOL>print cmd.count_states("pept")\n', '< 1\n', '< PyMOL>cmd.do("print \'it be done\'")\n', "< PyMOL>print 'it be done'\n", '< it be done\n', '< PyMOL>viewport 200,150\n', '< PyMOL>stereo on\n', '< PyMOL>turn x,90\n', '< PyMOL>origin\n', '< PyMOL>origin (i;11)\n', '< PyMOL>origin pept\n', '< PyMOL>zoom (i;11)\n', '< PyMOL>zoom pept\n', '< PyMOL>zoom\n', '< PyMOL>frame 1\n', '< PyMOL>frame 2\n', '< PyMOL>move x,2\n', '< PyMOL>clip near,2\n', '< PyMOL>clip far,2\n', '< PyMOL>refresh\n', '< PyMOL>reset\n', '< PyMOL>meter_reset\n', '< PyMOL>mclear\n', '< PyMOL>mset 1 x10\n', '< PyMOL>mdo 1:turn x,5\n', '< PyMOL>mdo 2:turn y,10\n', '< PyMOL>rock\n', '< PyMOL>rock\n', '< PyMOL>forward\n', '< PyMOL>backward\n', '< PyMOL>rewind\n', '< PyMOL>ending\n', '< PyMOL>middle\n', '< PyMOL>mplay\n', '< PyMOL>mstop\n', '< PyMOL>color red\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>color blue,(name n)\n', '< Executive: Colored 13 atoms.\n', '< PyMOL>flag 3=(resn his)\n', '< Flag: flag 3 is set in 10 of 107 atoms.\n', '< PyMOL>set_color dude = [ 1.0,0.6,0.3]\n', '< Color: "dude" defined as [ 1.000, 0.600, 0.300 ].\n', '< PyMOL>color dude,(name o)\n', '< Executive: Colored 13 atoms.\n', '< PyMOL>show sticks,(all)\n', '< PyMOL>hide\n', '< PyMOL>show lines\n', '< PyMOL>mmatrix store\n', '< PyMOL>turn x,45\n', '< PyMOL>mmatrix recall\n', '< PyMOL>disable\n', '< PyMOL>enable\n', '< PyMOL>mmatrix clear\n', '< PyMOL>refresh\n', '< PyMOL>rebuild\n', '< PyMOL>refresh\n', '< PyMOL>set line_smooth=1\n', '< Setting: line_smooth set to on.\n', '< PyMOL>label (all),chain\n', '< Label: labelled 107 atoms.\n', "< PyMOL>label (all),''\n", '< Label: labelled 107 atoms.\n', '< PyMOL>stored.cnt = 0\n', '< PyMOL>iterate (all),stored.cnt=stored.cnt+1\n', '< Iterate: iterated over 107 atoms.\n', '< PyMOL>print stored.cnt\n', '< 107\n', '< PyMOL>stored.x = 0\n', '< PyMOL>iterate_state 1,(all),stored.x=stored.x+x\n', '< IterateState: iterated over 107 atom coordinate states.\n', '< PyMOL>print "%8.4f"%stored.x\n', '< 130.9720\n', "< PyMOL>alter (all),segi='PEPT'\n", '< Alter: modified 107 atoms.\n', '< PyMOL>alter_state 1,(all),x = x + 1.0\n', '< AlterState: modified 107 atom coordinate states.\n', '< PyMOL>print "%8.4f"%cmd.get_dihedral("(i;11&n;n)","(i;11&n;ca)","(i;11&n;cb)","(i;11&n;cg)")\n', '< -160.7909\n', '< PyMOL>edit (i;11&n;n), (i;11&n;c), pkbond=0\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< Selector: selection "pk2" defined with 1 atoms.\n', '< PyMOL>dist\n', '< Executive: object "dist01" created.\n', '< PyMOL>dist (pk1),(pk2)\n', '< Executive: object "dist02" created.\n', '< PyMOL>dist tst\n', '< Executive: object "tst" created.\n', '< PyMOL>dist tst2 = (pk1),(pk2)\n', '< Executive: object "tst2" created.\n', '< PyMOL>bond\n', '< Bond: 1 bonds added to model "pept".\n', '< PyMOL>unbond\n', '< Unbond: 1 bonds removed from model "pept".\n', '< PyMOL>bond (pk1),(pk2),2\n', '< Bond: 1 bonds added to model "pept".\n', '< PyMOL>unbond (pk1),(pk2)\n', '< Unbond: 1 bonds removed from model "pept".\n', '< PyMOL>copy cpy=pept\n', '< Executive: object "cpy" created.\n', '< Executive: object cpy created.\n', '< PyMOL>select cpy_sel = (cpy)\n', '< Selector: selection "cpy_sel" defined with 107 atoms.\n', '< PyMOL>alter_state 1,(cpy),x=x+math.cos(y+z)\n', '< AlterState: modified 107 atom coordinate states.\n', '< PyMOL>rms cpy,pept\n', '< Executive: RMS = 0.695 (107 to 107 atoms)\n', '< PyMOL>rms (cpy and name ca),pept\n', '< Executive: RMS = 0.639 (13 to 13 atoms)\n', '< PyMOL>rms (cpy and name ca),(pept &n;ca)\n', '< Executive: RMS = 0.639 (13 to 13 atoms)\n', '< PyMOL>rms_cur cpy,pept\n', '< Executive: RMS = 0.700 (107 to 107 atoms)\n', '< PyMOL>rms_cur (cpy and name ca),pept\n', '< Executive: RMS = 0.722 (13 to 13 atoms)\n', '< PyMOL>rms_cur (cpy and name ca),(pept &n;ca)\n', '< Executive: RMS = 0.722 (13 to 13 atoms)\n', '< PyMOL>fit cpy,pept\n', '< Executive: RMS = 0.695 (107 to 107 atoms)\n', '< PyMOL>fit (cpy),(pept)\n', '< Executive: RMS = 0.695 (107 to 107 atoms)\n', '< PyMOL>fit (cpy and name ca),(pept &n;ca)\n', '< Executive: RMS = 0.639 (13 to 13 atoms)\n', '< PyMOL>pair_fit (cpy&i;11&n;ca),(pept&i;11&n;ca),\\\n', '< PyMOL>(cpy&i;5&n;ca),(pept&i;5&n;ca),\\\n', '< PyMOL>(cpy&i;1&n;ca),(pept&i;1&n;ca),\\\n', '< PyMOL>(cpy&i;8&n;ca),(pept&i;8&n;ca)\n', '< ExecutiveRMS: RMS = 0.478 (4 to 4 atoms)\n', '< PyMOL>update (cpy),(pept)\n', '< Update: coordinates updated for 107 atoms.\n', '< PyMOL>remove (cpy and name c)\n', '< Remove: eliminated 13 atoms in model "cpy".\n', '< PyMOL>edit (cpy and i;11 & n;ca)\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< PyMOL>remove_picked\n', '< Remove: eliminated 1 atoms in model "cpy".\n', '< PyMOL>edit (cpy and i;5 & n;ca),(cpy and i;5 and n;cb)\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< Selector: selection "pk2" defined with 1 atoms.\n', "< PyMOL>alter (cpy),name=''\n", '< Alter: modified 93 atoms.\n', '< PyMOL>rename cpy\n', '< Rename: renamed 93 atoms.\n', '< PyMOL>rename cpy,1\n', '< Rename: renamed 93 atoms.\n', '< PyMOL>cycle_valence\n', '< PyMOL>cycle_valence\n', '< Remove: eliminated 1 atoms in model "cpy".\n', '< Remove: eliminated 1 atoms in model "cpy".\n', '< PyMOL>cycle_valence\n', '< PyMOL>remove_picked\n', '< PyMOL>edit (cpy and i;11 &n;n)\n', '< Editor-Error: Invalid input selection(s).\n', '< PyMOL>cmd.attach("H",1,1)\n', '< PyMOL>create tmp = (cpy&i;5)\n', '< Selector: found 13 atoms.\n', '< Executive: object "tmp" created.\n', '< PyMOL>fuse (cpy&i;11&n;cb),(tmp&n;cb)\n', '< PyMOL>edit (cpy and i;10 & n;n)\n', '< Editor-Error: Invalid input selection(s).\n', '< PyMOL>h_fill\n', '< PyMOL>h_fill\n', '< PyMOL>h_add (cpy)\n', '< PyMOL>edit (cpy and i;8 &n;o)\n', '< Editor-Error: Invalid input selection(s).\n', '< PyMOL>cmd.replace("S",3,1)\n', '< Error: you must first pick an atom to replace.\n', '< PyMOL>delete tmp\n', '< PyMOL>delete cpy\n', '< PyMOL>delete cpy_sel\n', '< PyMOL>edit (i;11&n;ca)\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< PyMOL>unpick\n', '< PyMOL>protect (pept and n;ca)\n', '< Protect: 13 atoms protected from movement.\n', '< PyMOL>protect pept\n', '< Protect: 107 atoms protected from movement.\n', '< PyMOL>protect\n', '< Protect: 107 atoms protected from movement.\n', '< PyMOL>deprotect (pept and n;ca)\n', '< Protect: 13 atoms deprotected.\n', '< PyMOL>deprotect\n', '< Protect: 107 atoms deprotected.\n', '< PyMOL>mask (pept and n;ca)\n', '< Mask: 13 atoms masked (cannot be picked or selected).\n', '< PyMOL>mask pept\n', '< Mask: 107 atoms masked (cannot be picked or selected).\n', '< PyMOL>mask\n', '< Mask: 107 atoms masked (cannot be picked or selected).\n', '< PyMOL>unmask (pept and n;ca)\n', '< Mask: 13 atoms unmasked.\n', '< PyMOL>unmask\n', '< Mask: 107 atoms unmasked.\n', '< PyMOL>edit (i;11&n;ca),(i;11&n;n),(i;11&n;c)\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< Selector: selection "pk2" defined with 1 atoms.\n', '< Selector: selection "pk3" defined with 1 atoms.\n', '< PyMOL>invert\n', '< Editor: Inverted atom.\n', '< PyMOL>invert\n', '< Editor: Inverted atom.\n', '< PyMOL>edit (i;11&n;ca),(i;11&n;cb)\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< Selector: selection "pk2" defined with 1 atoms.\n', '< PyMOL>torsion 10\n', '< PyMOL>torsion -10\n', '< PyMOL>torsion 180\n', '< PyMOL>torsion 180\n', '< PyMOL>print cmd.get_model().__class__\n', '< chempy.models.Indexed\n', '< PyMOL>print "%8.3f"%cmd.get_area()\n', '< 1381.186\n', '< PyMOL>print "%8.3f"%cmd.get_area("(name ca)")\n', '< 112.133\n', '< PyMOL>print cmd.get_names()\n', "< ['pept', 'dist01', 'dist02', 'tst', 'tst2']\n", "< PyMOL>print cmd.get_type('pept')\n", '< object:molecule\n', '< PyMOL>print cmd.identify("(i;7)")\n', '< [52, 53, 54, 55]\n', '< PyMOL>print "%8.4f %8.4f %8.4f %8.4f %8.4f %8.4f"%(ext[0][0],ext[0][1],ext[0][2],ext[1][0],ext[1][1],ext[1][2])\n', '< -4.1880 -20.3310 13.1570 9.9190 0.8630 27.0580\n', '< PyMOL>sort\n', '< PyMOL>sort pept\n', '< PyMOL>spheroid\n', "< Warning: 'spheroid' is experimental, incomplete, and unstable.\n", '< ObjectMolecule: computing spheroid from states 1 to 1.\n', '< PyMOL>spheroid pept\n', "< Warning: 'spheroid' is experimental, incomplete, and unstable.\n", '< ObjectMolecule: computing spheroid from states 1 to 1.\n', '< PyMOL>cmd.config_mouse(quiet=0)\n', '< config_mouse: three_button\n', '< PyMOL>rewind\n', '< PyMOL>dele all\n', '< PyMOL>load dat/ligs3d.sdf\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: "dat/ligs3d.sdf" loaded as "ligs3d", through state 10.\n', '< PyMOL>split_states ligs3d\n', '< PyMOL>print cmd.get_names()\n', "< ['ligs3d', 'MFCD02681585', 'MFCD01567969', 'MFCD00023789', 'MFCD02579443', 'MFCD02579410', 'MFCD02579135', 'MFCD02681468', 'MFCD00141070', 'MFCD02983625', 'MFCD00115818']\n", '< PyMOL>rewind\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 564 graphics primitives.\n'] run_tests: C0550pseudo... run_tests: C0550pseudo.log DIFFERS over about 36 lines: ['1,72d0\n', '< PyMOL>pseudoatom test\n', '< ObjMol: created test/PSDO/P/PSD`1/PS1\n', '< PyMOL>move x,10\n', '< PyMOL>pseudoatom test\n', '< ObjMol: created test/PSDO/P/PSD`1/PS2\n', '< PyMOL>count_atoms\n', '< count_atoms: 2 atoms\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 6 graphics primitives.\n', '< PyMOL>iterate all,print name+ " %0.2f"%vdw\n', '< PS1 1.00\n', '< PS2 1.00\n', '< Iterate: iterated over 2 atoms.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>pseudoatom test, pept and resi 1\n', '< ObjMol: created test/PSDO/P/PSD`1/PS1\n', '< PyMOL>pseudoatom test, pept and resi 2\n', '< ObjMol: created test/PSDO/P/PSD`1/PS2\n', '< PyMOL>pseudoatom test, pept and resi 10\n', '< ObjMol: created test/PSDO/P/PSD`1/PS3\n', '< PyMOL>iterate name PS*, print name+ " %0.2f"%vdw\n', '< PS1 1.81\n', '< PS2 1.79\n', '< PS3 1.81\n', '< Iterate: iterated over 3 atoms.\n', '< PyMOL>hide\n', '< PyMOL>as spheres, test\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 3 graphics primitives.\n', '< PyMOL>bond name PS2, name PS3\n', '< Bond: 1 bonds added to model "test".\n', '< PyMOL>show sticks, test\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 4 graphics primitives.\n', '< PyMOL>pseudoatom test, vdw=5.0\n', '< ObjMol: created test/PSDO/P/PSD`1/PS4\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 7 graphics primitives.\n', '< PyMOL>pseudoatom test, color=blue\n', '< ObjMol: created test/PSDO/P/PSD`1/PS5\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 10 graphics primitives.\n', '< PyMOL>pseudoatom test, label=Hello world\n', '< ObjMol: created test/PSDO/P/PSD`1/PS6\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 32 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>pseudoatom pept, pept and resi 1\n', '< ObjMol: created pept/PSDO/P/PSD`1/PS1\n', '< PyMOL>pseudoatom pept, pept and resi 2\n', '< ObjMol: created pept/PSDO/P/PSD`1/PS2\n', '< PyMOL>pseudoatom pept, pept and resi 10\n', '< ObjMol: created pept/PSDO/P/PSD`1/PS3\n', '< PyMOL>count_atoms pept\n', '< count_atoms: 110 atoms\n', '< PyMOL>bond name PS2, name PS3\n', '< Bond: 1 bonds added to model "pept".\n', '< PyMOL>hide nonbonded\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 167 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', "< PyMOL>pseudoatom test, all, b=1.5, q=1.6, resn=abc, resi=10, name=ilk, elem=s, vdw=5, segi=asdf, chain=''\n", '< ObjMol: created test/asdf//abc`10/ilk\n', '< PyMOL>iterate name ilk,print "%8.3f %8.3f %8.3f"%(b,q,vdw)\n', '< 1.500 1.600 5.000\n', '< Iterate: iterated over 1 atoms.\n'] run_tests: C0600util... run_tests: C0600util.log DIFFERS over about 27 lines: ['1,54d0\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>load dat/3al1.pdb\n', '< HEADER STRUCTURAL PROTEIN 26-OCT-98 3AL1\n', '< TITLE DESIGNED PEPTIDE ALPHA-1, RACEMIC P1BAR FORM\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: D, L-ALPHA-1;\n', '< COMPND 3 CHAIN: A, B;\n', '< COMPND 4 ENGINEERED: YES;\n', '< COMPND 5 OTHER_DETAILS: N TERMINI ARE ACETYLATED\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 2 symmetry operators.\n', '< CmdLoad: "dat/3al1.pdb" loaded as "3al1".\n', '< PyMOL>util.ss\n', '< util.ss: WARNING: This is not a "correct" secondary structure\n', '< util.ss: assignment algorithm! Please use only as a last resort.\n', '< util.ss: initiating secondary structure assignment on 163 residues.\n', '< util.ss: extracting sequence and relationships...\n', '< util.ss: analyzing phi/psi angles (slow)...\n', '< util.ss: finding hydrogen bonds...\n', '< util.ss: verifying beta sheets...\n', '< util.ss: assignment complete.\n', '< PyMOL>util.cbac\n', '< Executive: Colored 1948 atoms.\n', '< Executive: Colored 922 atoms.\n', '< PyMOL>util.cbay\n', '< Executive: Colored 1948 atoms.\n', '< Executive: Colored 922 atoms.\n', '< PyMOL>util.cbaw\n', '< Executive: Colored 1948 atoms.\n', '< Executive: Colored 922 atoms.\n', '< PyMOL>util.cbas\n', '< Executive: Colored 1948 atoms.\n', '< Executive: Colored 922 atoms.\n', '< PyMOL>util.cbc\n', '< util.cbc: color 26,(chain A)\n', '< Executive: Colored 279 atoms.\n', '< util.cbc: color 5,(chain B)\n', '< Executive: Colored 310 atoms.\n', '< util.cbc: color 154,(chain E)\n', '< Executive: Colored 107 atoms.\n', "< util.cbc: color 6,(chain '')\n", '< Executive: Colored 2174 atoms.\n', '< PyMOL>hide\n', '< PyMOL>show car\n', '< PyMOL>zoom\n', '< PyMOL>set ray_default_renderer=2\n', '< Setting: ray_default_renderer set to 2.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 19492 graphics primitives.\n', '< PyMOL>util.rainbow("pept")\n'] run_tests: C0700odd... run_tests: C0700odd.1.pdb is missing. run_tests: C0700odd.7.pdb is missing. run_tests: C0700odd.F.pdb is missing. run_tests: C0700odd.8.pdb is missing. run_tests: C0700odd.5.pdb is missing. run_tests: C0700odd.B.pdb is missing. run_tests: C0700odd.log DIFFERS over about 204 lines: ['1,408d0\n', '< PyMOL>unset pdb_hetatm_guess_valences\n', '< Setting: pdb_hetatm_guess_valences set to off.\n', '< PyMOL>reinitialize store_defaults\n', '< PyMOL>load dat/odd01.pdb\n', '< CmdLoad: "dat/odd01.pdb" loaded as "odd01".\n', '< PyMOL>iterate all, print name\n', '< CZ\n', '< NH1\n', '< NH2\n', '< HE\n', '< HH11\n', '< HH12\n', '< HH21\n', '< HH22\n', '< CA\n', '< CA\n', '< OA22\n', '< OA23\n', '< ABCD\n', '< LMN\n', '< XYZ\n', '< PE\n', '< O1B\n', '< AC5\n', '< Iterate: iterated over 18 atoms.\n', '< PyMOL>save cmp/C0700odd.1.pdb\n', '< Save: wrote "cmp/C0700odd.1.pdb".\n', '< PyMOL>set retain_order\n', '< Setting: retain_order set to 1.\n', '< PyMOL>iterate all, print name\n', '< HE\n', '< CZ\n', '< NH1\n', '< HH11\n', '< HH12\n', '< NH2\n', '< HH21\n', '< HH22\n', '< CA\n', '< CA\n', '< OA22\n', '< OA23\n', '< ABCD\n', '< XYZ\n', '< LMN\n', '< PE\n', '< O1B\n', '< AC5\n', '< Iterate: iterated over 18 atoms.\n', '< PyMOL>save cmp/C0700odd.2.pdb\n', '< Save: wrote "cmp/C0700odd.2.pdb".\n', '< PyMOL>set pdb_no_end_record\n', '< Setting: pdb_no_end_record set to on.\n', '< PyMOL>save cmp/C0700odd.3.pdb\n', '< Save: wrote "cmp/C0700odd.3.pdb".\n', '< PyMOL>set pdb_retain_ids\n', '< Setting: pdb_retain_ids set to on.\n', '< PyMOL>save cmp/C0700odd.4.pdb\n', '< Save: wrote "cmp/C0700odd.4.pdb".\n', '< PyMOL>reinit\n', '< PyMOL>set retain_order\n', '< Setting: retain_order set to 1.\n', '< PyMOL>load dat/odd01.pdb\n', '< CmdLoad: "dat/odd01.pdb" loaded as "odd01".\n', '< PyMOL>iterate all,print name\n', '< HE\n', '< CZ\n', '< NH1\n', '< HH11\n', '< HH12\n', '< NH2\n', '< HH21\n', '< HH22\n', '< CA\n', '< CA\n', '< OA22\n', '< OA23\n', '< ABCD\n', '< XYZ\n', '< LMN\n', '< PE\n', '< O1B\n', '< AC5\n', '< Iterate: iterated over 18 atoms.\n', '< PyMOL>set pdb_reformat_names_mode, 1\n', '< Setting: pdb_reformat_names_mode set to 1.\n', '< PyMOL>save cmp/C0700odd.5.pdb\n', '< Save: wrote "cmp/C0700odd.5.pdb".\n', '< PyMOL>dele all\n', '< PyMOL>load cmp/C0700odd.3.pdb\n', '< CmdLoad: "cmp/C0700odd.3.pdb" loaded as "C0700odd.3".\n', '< PyMOL>set pdb_reformat_names_mode, 0\n', '< Setting: pdb_reformat_names_mode set to 0.\n', '< PyMOL>save cmp/C0700odd.6.pdb\n', '< Save: wrote "cmp/C0700odd.6.pdb".\n', '< PyMOL>iterate all,print name\n', '< HE\n', '< CZ\n', '< NH1\n', '< 1HH1\n', '< 2HH1\n', '< NH2\n', '< 1HH2\n', '< 2HH2\n', '< CA\n', '< CA\n', '< 2OA2\n', '< 3OA2\n', '< ABCD\n', '< XYZ\n', '< LMN\n', '< PE\n', '< O1B\n', '< AC5\n', '< Iterate: iterated over 18 atoms.\n', '< PyMOL>reinit\n', '< PyMOL>set pdb_reformat_names_mode, 1\n', '< Setting: pdb_reformat_names_mode set to 1.\n', '< PyMOL>load cmp/C0700odd.3.pdb\n', '< CmdLoad: "cmp/C0700odd.3.pdb" loaded as "C0700odd.3".\n', '< PyMOL>iterate all,print name\n', '< CZ\n', '< NH1\n', '< NH2\n', '< HE\n', '< 1HH1\n', '< 2HH1\n', '< 1HH2\n', '< 2HH2\n', '< CA\n', '< CA\n', '< 2OA2\n', '< 3OA2\n', '< ABCD\n', '< LMN\n', '< XYZ\n', '< PE\n', '< O1B\n', '< AC5\n', '< Iterate: iterated over 18 atoms.\n', '< PyMOL>save cmp/C0700odd.7.pdb\n', '< Save: wrote "cmp/C0700odd.7.pdb".\n', '< PyMOL>set pdb_reformat_names_mode,2\n', '< Setting: pdb_reformat_names_mode set to 2.\n', '< PyMOL>save cmp/C0700odd.8.pdb\n', '< Save: wrote "cmp/C0700odd.8.pdb".\n', '< PyMOL>dele all\n', '< PyMOL>load cmp/C0700odd.5.pdb\n', '< CmdLoad: "cmp/C0700odd.5.pdb" loaded as "C0700odd.5".\n', '< PyMOL>iterate all,print name\n', '< CZ\n', '< NH1\n', '< NH2\n', '< HE\n', '< HH11\n', '< HH12\n', '< HH21\n', '< HH22\n', '< CA\n', '< CA\n', '< OA22\n', '< OA23\n', '< ABCD\n', '< LMN\n', '< XYZ\n', '< PE\n', '< O1B\n', '< AC5\n', '< Iterate: iterated over 18 atoms.\n', '< PyMOL>set pdb_reformat_names_mode,0\n', '< Setting: pdb_reformat_names_mode set to 0.\n', '< PyMOL>save cmp/C0700odd.9.pdb\n', '< Save: wrote "cmp/C0700odd.9.pdb".\n', '< PyMOL>set pdb_reformat_names_mode,1\n', '< Setting: pdb_reformat_names_mode set to 1.\n', '< PyMOL>save cmp/C0700odd.A.pdb\n', '< Save: wrote "cmp/C0700odd.A.pdb".\n', '< PyMOL>set pdb_literal_names, 1\n', '< Setting: pdb_literal_names set to on.\n', '< PyMOL>save cmp/C0700odd.B.pdb\n', '< Save: wrote "cmp/C0700odd.B.pdb".\n', '< PyMOL>dele all\n', '< PyMOL>load cmp/C0700odd.3.pdb\n', '< CmdLoad: "cmp/C0700odd.3.pdb" loaded as "C0700odd.3".\n', '< PyMOL>iterate all,print name\n', '< CZ \n', '< HE \n', '< NH1\n', '< NH2\n', '< HH11\n', '< HH12\n', '< HH21\n', '< HH22\n', '< CA \n', '< CA \n', '< OA22\n', '< OA23\n', '< LMN\n', '< XYZ\n', '< ABCD\n', '< O1B\n', '< PE \n', '< AC5 \n', '< Iterate: iterated over 18 atoms.\n', '< PyMOL>dele all\n', '< PyMOL>load cmp/C0700odd.5.pdb\n', '< CmdLoad: "cmp/C0700odd.5.pdb" loaded as "C0700odd.5".\n', '< PyMOL>iterate all,print name\n', '< CZ \n', '< HE \n', '< NH1\n', '< NH2\n', '< 1HH1\n', '< 2HH1\n', '< 1HH2\n', '< 2HH2\n', '< CA \n', '< CA \n', '< 2OA2\n', '< 3OA2\n', '< LMN\n', '< XYZ\n', '< ABCD\n', '< O1B\n', '< PE \n', '< AC5 \n', '< Iterate: iterated over 18 atoms.\n', '< PyMOL>reinit\n', '< PyMOL>load dat/small02.pdb\n', '< CmdLoad: "dat/small02.pdb" loaded as "small02".\n', '< PyMOL>save cmp/C0700odd.C.pdb\n', '< Save: wrote "cmp/C0700odd.C.pdb".\n', '< PyMOL>reinit\n', '< PyMOL>set pdb_reformat_names_mode, 1\n', '< Setting: pdb_reformat_names_mode set to 1.\n', '< PyMOL>load dat/small02.pdb\n', '< CmdLoad: "dat/small02.pdb" loaded as "small02".\n', '< PyMOL>iterate all, print name\n', '< CL16\n', '< C1\n', '< C4\n', '< C6\n', '< C9\n', '< N12\n', '< C13\n', '< C17\n', '< C19\n', '< C20\n', '< C22\n', '< C25\n', '< C28\n', '< C29\n', '< C30\n', '< N32\n', '< C33\n', '< C35\n', '< C39\n', '< C40\n', '< C41\n', '< C42\n', '< C43\n', '< C46\n', '< C49\n', '< C51\n', '< N54\n', '< C55\n', '< N56\n', '< O57\n', '< C58\n', '< C61\n', '< O64\n', '< C65\n', '< BR37\n', '< BR38\n', '< Iterate: iterated over 36 atoms.\n', '< PyMOL>save cmp/C0700odd.D.pdb\n', '< Save: wrote "cmp/C0700odd.D.pdb".\n', '< PyMOL>set pdb_reformat_names_mode, 2\n', '< Setting: pdb_reformat_names_mode set to 2.\n', '< PyMOL>load dat/small02.pdb\n', '< CmdLoad: "dat/small02.pdb" appended into object "small02", state 2.\n', '< PyMOL>iterate all, print name\n', '< CL16\n', '< C1\n', '< C4\n', '< C6\n', '< C9\n', '< N12\n', '< C13\n', '< C17\n', '< C19\n', '< C20\n', '< C22\n', '< C25\n', '< C28\n', '< C29\n', '< C30\n', '< N32\n', '< C33\n', '< C35\n', '< C39\n', '< C40\n', '< C41\n', '< C42\n', '< C43\n', '< C46\n', '< C49\n', '< C51\n', '< N54\n', '< C55\n', '< N56\n', '< O57\n', '< C58\n', '< C61\n', '< O64\n', '< C65\n', '< BR37\n', '< BR38\n', '< Iterate: iterated over 36 atoms.\n', '< PyMOL>save cmp/C0700odd.E.pdb\n', '< Save: wrote "cmp/C0700odd.E.pdb".\n', '< PyMOL>reinit\n', '< PyMOL>set pdb_literal_names\n', '< Setting: pdb_literal_names set to on.\n', '< PyMOL>set retain_order\n', '< Setting: retain_order set to 1.\n', '< PyMOL>set pdb_retain_ids\n', '< Setting: pdb_retain_ids set to on.\n', '< PyMOL>set pdb_no_end_record\n', '< Setting: pdb_no_end_record set to on.\n', '< PyMOL>unset pdb_use_ter_records\n', '< Setting: pdb_use_ter_records set to 0.\n', '< PyMOL>load dat/odd01.pdb\n', '< CmdLoad: "dat/odd01.pdb" loaded as "odd01".\n', '< PyMOL>save cmp/C0700odd.F.pdb\n', '< Save: wrote "cmp/C0700odd.F.pdb".\n', '< PyMOL>reinit\n', '< PyMOL>load dat/helix_amber.pdb\n', '< CmdLoad: "dat/helix_amber.pdb" loaded as "helix_amber".\n', '< PyMOL>iterate resi 2, print name, elem\n', '< N N\n', '< CA C\n', '< C C\n', '< O O\n', '< CB C\n', '< SG S\n', '< H H\n', '< HA H\n', '< HB2 H\n', '< HB3 H\n', '< N N\n', '< CA C\n', '< C C\n', '< O O\n', '< CB C\n', '< H H\n', '< HA H\n', '< HB1 H\n', '< HB2 H\n', '< HB3 H\n', '< Iterate: iterated over 20 atoms.\n', '< PyMOL>reinit\n', '< PyMOL>load dat/odd02.pdb\n', '< CmdLoad: "dat/odd02.pdb" loaded as "odd02".\n', '< PyMOL>iterate all, print name, elem\n', '< C C\n', '< O O\n', '< CG C\n', '< CD C\n', '< NE N\n', '< CZ C\n', '< NH1 N\n', '< NH2 N\n', '< HG1 H\n', '< HG2 H\n', '< HD1 H\n', '< HD2 H\n', '< HE H\n', '< HH11 H\n', '< HH12 H\n', '< HH21 H\n', '< Hh22 Hh\n', '< N N\n', '< CA C\n', '< C C\n', '< O O\n', '< CB C\n', '< CG1 C\n', '< CG2 C\n', '< HN H\n', '< HA H\n', '< HB H\n', '< HG11 H\n', '< HG12 H\n', '< HG21 H\n', '< HG22 H\n', '< HG23 H\n', '< Hg13 Hg\n', '< N N\n', '< CA C\n', '< HN H\n', '< Iterate: iterated over 36 atoms.\n', '< PyMOL>save cmp/C0700.odd.G.pdb\n', '< Save: wrote "cmp/C0700.odd.G.pdb".\n', '< PyMOL>set pdb_reformat_names_mode,1\n', '< Setting: pdb_reformat_names_mode set to 1.\n', '< PyMOL>save cmp/C0700.odd.H.pdb\n', '< Save: wrote "cmp/C0700.odd.H.pdb".\n'] run_tests: C0700odd.9.pdb is missing. run_tests: C0700odd.6.pdb is missing. run_tests: C0700odd.3.pdb is missing. run_tests: C0700odd.E.pdb is missing. run_tests: C0700odd.A.pdb is missing. run_tests: C0700odd.2.pdb is missing. run_tests: C0700odd.D.pdb is missing. run_tests: C0700odd.4.pdb is missing. run_tests: C0700odd.C.pdb is missing. run_tests: C0740multipdb... run_tests: C0740multipdb.log DIFFERS over about 45 lines: ['1,89d0\n', '< PyMOL>ATOM 1 N GLY A 252 39.368 46.327 27.875 1.00 46.28 N \\\n', '< PyMOL>ATOM 2 CA GLY A 252 39.565 46.477 29.344 1.00 46.89 C \\\n', '< PyMOL>ATOM 3 C GLY A 252 40.602 45.521 29.907 1.00 48.55 C \\\n', '< PyMOL>ATOM 4 O GLY A 252 40.907 44.497 29.293 1.00 46.16 O \\\n', '< PyMOL>ATOM 5 N SER A 253 41.144 45.862 31.078 1.00 45.72 N \\\n', '< PyMOL>ATOM 6 CA SER A 253 42.152 45.043 31.757 1.00 46.42 C \\\n', '< PyMOL>ATOM 7 C SER A 253 41.824 44.945 33.254 1.00 47.72 C \\\n', '< PyMOL>ATOM 8 O SER A 253 41.053 45.756 33.778 1.00 46.62 O \\\n', '< PyMOL>ATOM 9 CB SER A 253 43.543 45.667 31.587 1.00 45.55 C \\\n', '< PyMOL>HEADER STEP\\\n', '< PyMOL>ATOM 1 N SER E 258 55.863 54.272 24.437 1.00 37.51 N \\\n', '< PyMOL>ATOM 2 CA SER E 258 56.590 54.677 23.240 1.00 36.33 C \\\n', '< PyMOL>ATOM 3 C SER E 258 58.022 54.180 23.260 1.00 35.14 C \\\n', '< PyMOL>ATOM 4 O SER E 258 58.647 54.090 24.306 1.00 34.89 O \\\n', '< PyMOL>ATOM 5 CB SER E 258 56.566 56.199 23.083 1.00 35.95 C \\\n', '< PyMOL>ATOM 6 OG SER E 258 57.340 56.607 21.975 1.00 36.25 O \\\n', '< PyMOL>ATOM 7 N ARG E 259 58.546 53.842 22.088 1.00 34.24 N """\n', '< PyMOL>cmd.read_pdbstr(pdbstr,"test")\n', '< PyMOL>print cmd.get_names()\n', "< ['PTPBR7', 'STEP']\n", '< PyMOL>count_atoms\n', '< count_atoms: 16 atoms\n', '< PyMOL>reinit\n', '< PyMOL>cmd.read_pdbstr("""\\\n', '< PyMOL>HEADER OXIDOREDUCTASE 13-JUL-94 3MDD 3MDD 2\\\n', '< PyMOL>ATOM 1 N GLY A 11 22.422 32.842 -15.744 1.00 24.74 3MDD 172\\\n', '< PyMOL>ATOM 2 CA GLY A 11 21.837 32.022 -14.672 1.00 24.52 3MDD 173\\\n', '< PyMOL>ATOM 3 C GLY A 11 21.575 30.609 -15.194 1.00 24.62 3MDD 174\\\n', '< PyMOL>ATOM 4 O GLY A 11 22.036 30.238 -16.285 1.00 24.99 3MDD 175\\\n', '< PyMOL>ATOM 5 N PHE A 12 20.843 29.864 -14.390 1.00 24.29 3MDD 176\\\n', '< PyMOL>ATOM 6 CA PHE A 12 20.481 28.469 -14.679 1.00 24.00 3MDD 177\\\n', '< PyMOL>ATOM 7 C PHE A 12 19.514 28.397 -15.861 1.00 23.38 3MDD 178\\\n', '< PyMOL>ATOM 6017 NZ LYS B 395 -4.299 -6.687 15.377 1.00 35.83 3MDD6188\\\n', '< PyMOL>ATOM 6018 OXT LYS B 395 -0.899 -11.439 20.683 1.00 35.32 3MDD6189\\\n', '< PyMOL>END 3MDD6517\\\n', '< PyMOL>HEADER ELECTRON TRANSPORT 02-MAR-92 1MDA 1MDA 2\\\n', '< PyMOL>ATOM 1 N GLU H 1 15.906 81.036 72.025 1.00 50.00 1MDA 307\\\n', '< PyMOL>ATOM 2 CA GLU H 1 17.350 81.236 71.880 1.00 50.00 1MDA 308\\\n', '< PyMOL>ATOM 3 C GLU H 1 17.854 81.695 70.506 1.00 50.00 1MDA 309\\\n', '< PyMOL>ATOM 4 O GLU H 1 17.668 80.983 69.518 1.00 50.00 1MDA 310\\\n', '< PyMOL>ATOM 5 CB GLU H 1 18.222 80.229 72.680 1.00 50.00 1MDA 311\\\n', '< PyMOL>ATOM 6 CG GLU H 1 17.540 78.863 72.954 1.00 50.00 1MDA 312\\\n', '< PyMOL>ATOM 7 CD GLU H 1 17.831 77.718 72.017 1.00 43.59 1MDA 313\\\n', '< PyMOL>ATOM 8 OE1 GLU H 1 18.953 77.453 71.614 1.00 47.42 1MDA 314\\\n', '< PyMOL>ATOM 9 OE2 GLU H 1 16.759 77.049 71.674 1.00 37.68 1MDA 315\\\n', '< PyMOL>ATOM 8568 CG GLU B 105 37.556 38.617 32.271 1.00 15.99 1MDA8874\\\n', '< PyMOL>ATOM 8569 CD GLU B 105 36.485 37.572 32.282 1.00 36.23 1MDA8875\\\n', '< PyMOL>ATOM 8570 OE1 GLU B 105 36.488 36.782 31.231 1.00 50.00 1MDA8876\\\n', '< PyMOL>ATOM 8571 OE2 GLU B 105 35.647 37.508 33.152 1.00 50.00 1MDA8877\\\n', '< PyMOL>ATOM 8572 OXT GLU B 105 41.453 38.354 30.968 1.00 50.00 1MDA8878\\\n', '< PyMOL>END 1MDA8924\\\n', '< PyMOL>""","test")\n', '< PyMOL>print cmd.get_names()\n', "< ['3MDD', '1MDA']\n", '< PyMOL>count_atoms\n', '< count_atoms: 23 atoms\n', '< PyMOL>reinit\n', '< PyMOL>cmd.read_pdbstr("""\\\n', '< PyMOL>ATOM 1 N GLY A 11 22.422 32.842 -15.744 1.00 24.74 3MDD 172\\\n', '< PyMOL>ATOM 2 CA GLY A 11 21.837 32.022 -14.672 1.00 24.52 3MDD 173\\\n', '< PyMOL>ATOM 3 C GLY A 11 21.575 30.609 -15.194 1.00 24.62 3MDD 174\\\n', '< PyMOL>ATOM 4 O GLY A 11 22.036 30.238 -16.285 1.00 24.99 3MDD 175\\\n', '< PyMOL>ATOM 5 N PHE A 12 20.843 29.864 -14.390 1.00 24.29 3MDD 176\\\n', '< PyMOL>ATOM 6 CA PHE A 12 20.481 28.469 -14.679 1.00 24.00 3MDD 177\\\n', '< PyMOL>ATOM 7 C PHE A 12 19.514 28.397 -15.861 1.00 23.38 3MDD 178\\\n', '< PyMOL>ATOM 6017 NZ LYS B 395 -4.299 -6.687 15.377 1.00 35.83 3MDD6188\\\n', '< PyMOL>ATOM 6018 OXT LYS B 395 -0.899 -11.439 20.683 1.00 35.32 3MDD6189\\\n', '< PyMOL>END 3MDD6517\\\n', '< PyMOL>ATOM 1 N GLU H 1 15.906 81.036 72.025 1.00 50.00 1MDA 307\\\n', '< PyMOL>ATOM 2 CA GLU H 1 17.350 81.236 71.880 1.00 50.00 1MDA 308\\\n', '< PyMOL>ATOM 3 C GLU H 1 17.854 81.695 70.506 1.00 50.00 1MDA 309\\\n', '< PyMOL>ATOM 4 O GLU H 1 17.668 80.983 69.518 1.00 50.00 1MDA 310\\\n', '< PyMOL>ATOM 5 CB GLU H 1 18.222 80.229 72.680 1.00 50.00 1MDA 311\\\n', '< PyMOL>ATOM 6 CG GLU H 1 17.540 78.863 72.954 1.00 50.00 1MDA 312\\\n', '< PyMOL>ATOM 7 CD GLU H 1 17.831 77.718 72.017 1.00 43.59 1MDA 313\\\n', '< PyMOL>ATOM 8 OE1 GLU H 1 18.953 77.453 71.614 1.00 47.42 1MDA 314\\\n', '< PyMOL>ATOM 9 OE2 GLU H 1 16.759 77.049 71.674 1.00 37.68 1MDA 315\\\n', '< PyMOL>ATOM 8568 CG GLU B 105 37.556 38.617 32.271 1.00 15.99 1MDA8874\\\n', '< PyMOL>ATOM 8569 CD GLU B 105 36.485 37.572 32.282 1.00 36.23 1MDA8875\\\n', '< PyMOL>ATOM 8570 OE1 GLU B 105 36.488 36.782 31.231 1.00 50.00 1MDA8876\\\n', '< PyMOL>ATOM 8571 OE2 GLU B 105 35.647 37.508 33.152 1.00 50.00 1MDA8877\\\n', '< PyMOL>ATOM 8572 OXT GLU B 105 41.453 38.354 30.968 1.00 50.00 1MDA8878\\\n', '< PyMOL>END 1MDA8924\\\n', '< PyMOL>""","test")\n', '< PyMOL>print cmd.get_names()\n', "< ['test_0001', 'test_0002']\n", '< PyMOL>count_atoms\n', '< count_atoms: 23 atoms\n', '< PyMOL>reinit\n'] run_tests: C0800matrices... run_tests: C0800matrices.log DIFFERS over about 141 lines: ['1,282d0\n', '< PyMOL>load dat/pept.pdb, mol1\n', '< CmdLoad: "dat/pept.pdb" loaded as "mol1".\n', '< PyMOL>load dat/pept.pdb, mol2\n', '< CmdLoad: "dat/pept.pdb" loaded as "mol2".\n', '< PyMOL>load dat/pept.pdb, mol3\n', '< CmdLoad: "dat/pept.pdb" loaded as "mol3".\n', '< PyMOL>dump_lst((cmd.get_distance("mol1///5/ca","mol2///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol1///5/ca","mol3///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol2///5/ca","mol3///5/ca")))\n', '< [ 0.00 0.00 0.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol1"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol2"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol3"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>translate [2,3,4], object=mol2, object_mode=1\n', '< PyMOL>dump_lst((cmd.get_distance("mol1///5/ca","mol2///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol1///5/ca","mol3///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol2///5/ca","mol3///5/ca")))\n', '< [ 5.38 0.00 5.38 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol1"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol2"))\n', '< [ 1.00 0.00 0.00 2.00 \n', '< 0.00 1.00 0.00 3.00 \n', '< 0.00 0.00 1.00 4.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol3"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>matrix= cmd.get_object_matrix("mol2")\n', '< PyMOL>cmd.transform_object("mol3",matrix, homogenous=1)\n', '< PyMOL>dump_lst((cmd.get_distance("mol1///5/ca","mol2///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol1///5/ca","mol3///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol2///5/ca","mol3///5/ca")))\n', '< [ 5.38 5.38 0.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol1"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol2"))\n', '< [ 1.00 0.00 0.00 2.00 \n', '< 0.00 1.00 0.00 3.00 \n', '< 0.00 0.00 1.00 4.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol3"))\n', '< [ 1.00 0.00 0.00 2.00 \n', '< 0.00 1.00 0.00 3.00 \n', '< 0.00 0.00 1.00 4.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dele mol3\n', '< PyMOL>load dat/pept.pdb,mol3\n', '< CmdLoad: "dat/pept.pdb" loaded as "mol3".\n', '< PyMOL>dump_lst((cmd.get_distance("mol1///5/ca","mol2///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol1///5/ca","mol3///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol2///5/ca","mol3///5/ca")))\n', '< [ 5.38 0.00 5.38 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol1"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol2"))\n', '< [ 1.00 0.00 0.00 2.00 \n', '< 0.00 1.00 0.00 3.00 \n', '< 0.00 0.00 1.00 4.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol3"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>matrix_transfer mol1, mol3\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol1"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol2"))\n', '< [ 1.00 0.00 0.00 2.00 \n', '< 0.00 1.00 0.00 3.00 \n', '< 0.00 0.00 1.00 4.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol3"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_lst((cmd.get_distance("mol1///5/ca","mol2///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol1///5/ca","mol3///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol2///5/ca","mol3///5/ca")))\n', '< [ 5.38 0.00 5.38 ]\n', '< PyMOL>matrix_transfer mol2, mol3\n', '< PyMOL>dump_lst((cmd.get_distance("mol1///5/ca","mol2///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol1///5/ca","mol3///5/ca"), \\\n', '< PyMOL>cmd.get_distance("mol2///5/ca","mol3///5/ca")))\n', '< [ 5.38 5.38 0.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol1"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol2"))\n', '< [ 1.00 0.00 0.00 2.00 \n', '< 0.00 1.00 0.00 3.00 \n', '< 0.00 0.00 1.00 4.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("mol3"))\n', '< [ 1.00 0.00 0.00 2.00 \n', '< 0.00 1.00 0.00 3.00 \n', '< 0.00 0.00 1.00 4.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dele all\n', '< PyMOL>load ../data/tut/1hpv.pdb\n', '< HEADER HYDROLASE (ACID PROTEINASE) 18-NOV-94 1HPV 1HPV 2\n', '< COMPND HIV-1 PROTEASE (E.C.3.4.23.-) COMPLEXED WITH VX-478 1HPV 3\n', '< COMPND 2 (3(S)-N-(3-TETRAHYDROFURANYLOXYCARBONYL) AMINO-1- 1HPV 4\n', '< COMPND 3 (N,N-ISOBUTYL,4-AMINOBENZENESULFONYL) AMINO-2-(S)-HYDROXY- 1HPV 5\n', '< COMPND 4 4-PHENYLBUTANE) 1HPV 6\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 6 symmetry operators.\n', '< CmdLoad: "../data/tut/1hpv.pdb" loaded as "1hpv".\n', '< PyMOL>create ligand, organic\n', '< Selector: found 35 atoms.\n', '< Executive: object "ligand" created.\n', '< PyMOL>create protein, polymer\n', '< Selector: found 1516 atoms.\n', '< Executive: object "protein" created.\n', '< PyMOL>delete 1hpv\n', '< PyMOL>dump_lst((cmd.get_distance("ligand////s1","/protein/1HPV/B/ILE`84/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/C4","/protein/1HPV/B/ILE`50/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/O3"," /protein/1HPV/B/VAL`82/CB")))\n', '< [ 6.86 5.47 8.86 ]\n', '< PyMOL>translate [2,3,4], object=protein, object_mode=1\n', '< PyMOL>rotate x, 20, object=protein, object_mode=1\n', '< PyMOL>rotate y, 40, object=protein, object_mode=1\n', '< PyMOL>rotate z, 90, object=protein, object_mode=1\n', '< PyMOL>translate [4,5,6], object=protein, object_mode=1\n', '< PyMOL>dump_lst((cmd.get_distance("ligand////s1","/protein/1HPV/B/ILE`84/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/C4","/protein/1HPV/B/ILE`50/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/O3"," /protein/1HPV/B/VAL`82/CB")))\n', '< [ 22.69 18.69 18.07 ]\n', '< PyMOL>matrix_transfer protein, ligand\n', '< PyMOL>dump_mat(cmd.get_object_matrix("protein"))\n', '< [ 0.00 -0.94 0.34 30.89 \n', '< 0.77 0.22 0.60 11.28 \n', '< -0.64 0.26 0.72 13.10 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("ligand"))\n', '< [ 0.00 -0.94 0.34 30.89 \n', '< 0.77 0.22 0.60 11.28 \n', '< -0.64 0.26 0.72 13.10 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_lst((cmd.get_distance("ligand////s1","/protein/1HPV/B/ILE`84/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/C4","/protein/1HPV/B/ILE`50/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/O3"," /protein/1HPV/B/VAL`82/CB")))\n', '< [ 6.86 5.47 8.86 ]\n', '< PyMOL>load ../data/tut/1hpv.pdb, copy\n', '< HEADER HYDROLASE (ACID PROTEINASE) 18-NOV-94 1HPV 1HPV 2\n', '< COMPND HIV-1 PROTEASE (E.C.3.4.23.-) COMPLEXED WITH VX-478 1HPV 3\n', '< COMPND 2 (3(S)-N-(3-TETRAHYDROFURANYLOXYCARBONYL) AMINO-1- 1HPV 4\n', '< COMPND 3 (N,N-ISOBUTYL,4-AMINOBENZENESULFONYL) AMINO-2-(S)-HYDROXY- 1HPV 5\n', '< COMPND 4 4-PHENYLBUTANE) 1HPV 6\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 6 symmetry operators.\n', '< CmdLoad: "../data/tut/1hpv.pdb" loaded as "copy".\n', '< PyMOL>create copy_ligand, copy and organic\n', '< Selector: found 35 atoms.\n', '< Executive: object "copy_ligand" created.\n', '< PyMOL>create copy_protein, copy and polymer\n', '< Selector: found 1516 atoms.\n', '< Executive: object "copy_protein" created.\n', '< PyMOL>create copy_protein2, copy and polymer\n', '< Selector: found 1516 atoms.\n', '< Executive: object "copy_protein2" created.\n', '< PyMOL>delete copy\n', '< PyMOL>matrix_transfer protein, copy_protein2\n', '< PyMOL>fit copy_protein, protein\n', '< Executive: RMS = 0.000 (1516 to 1516 atoms)\n', '< PyMOL>dump_mat(cmd.get_object_matrix("protein"))\n', '< [ 0.00 -0.94 0.34 30.89 \n', '< 0.77 0.22 0.60 11.28 \n', '< -0.64 0.26 0.72 13.10 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("copy_protein"))\n', '< [ 0.00 -0.94 0.34 30.89 \n', '< 0.77 0.22 0.60 11.28 \n', '< -0.64 0.26 0.72 13.10 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("copy_protein2"))\n', '< [ 0.00 -0.94 0.34 30.89 \n', '< 0.77 0.22 0.60 11.28 \n', '< -0.64 0.26 0.72 13.10 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>load ../data/tut/1hpv.pdb, target\n', '< HEADER HYDROLASE (ACID PROTEINASE) 18-NOV-94 1HPV 1HPV 2\n', '< COMPND HIV-1 PROTEASE (E.C.3.4.23.-) COMPLEXED WITH VX-478 1HPV 3\n', '< COMPND 2 (3(S)-N-(3-TETRAHYDROFURANYLOXYCARBONYL) AMINO-1- 1HPV 4\n', '< COMPND 3 (N,N-ISOBUTYL,4-AMINOBENZENESULFONYL) AMINO-2-(S)-HYDROXY- 1HPV 5\n', '< COMPND 4 4-PHENYLBUTANE) 1HPV 6\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 6 symmetry operators.\n', '< CmdLoad: "../data/tut/1hpv.pdb" loaded as "target".\n', '< PyMOL>dump_lst((cmd.get_distance("ligand////s1","/target/1HPV/B/ILE`84/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/C4","/target/1HPV/B/ILE`50/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/O3"," /target/1HPV/B/VAL`82/CB")))\n', '< [ 14.32 17.77 18.33 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("ligand"))\n', '< [ 0.00 -0.94 0.34 30.89 \n', '< 0.77 0.22 0.60 11.28 \n', '< -0.64 0.26 0.72 13.10 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>matrix_transfer target, ligand\n', '< PyMOL>dump_mat(cmd.get_object_matrix("ligand"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_lst((cmd.get_distance("ligand////s1","/target/1HPV/B/ILE`84/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/C4","/target/1HPV/B/ILE`50/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/O3"," /target/1HPV/B/VAL`82/CB")))\n', '< [ 6.86 5.47 8.86 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("protein"))\n', '< [ 0.00 -0.94 0.34 30.89 \n', '< 0.77 0.22 0.60 11.28 \n', '< -0.64 0.26 0.72 13.10 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>fit protein, target\n', '< Executive: RMS = 0.000 (1516 to 1516 atoms)\n', '< PyMOL>dump_mat(cmd.get_object_matrix("protein"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("ligand"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_lst((cmd.get_distance("ligand////s1","/protein/1HPV/B/ILE`84/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/C4","/protein/1HPV/B/ILE`50/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/O3"," /protein/1HPV/B/VAL`82/CB")))\n', '< [ 6.86 5.47 8.86 ]\n', '< PyMOL>matrix_transfer protein, ligand\n', '< PyMOL>dump_lst((cmd.get_distance("ligand////s1","/protein/1HPV/B/ILE`84/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/C4","/protein/1HPV/B/ILE`50/CB"), \\\n', '< PyMOL>cmd.get_distance("/ligand/1HPV//478`200/O3"," /protein/1HPV/B/VAL`82/CB")))\n', '< [ 6.86 5.47 8.86 ]\n', '< PyMOL>dump_lst((cmd.get_distance("/target/1HPV/B/ILE`84/CB","/copy_protein2/1HPV/B/ILE`84/CB"),))\n', '< [ 19.55 ]\n', '< PyMOL>dump_mat(cmd.get_object_matrix("copy_protein2"))\n', '< [ 0.00 -0.94 0.34 30.89 \n', '< 0.77 0.22 0.60 11.28 \n', '< -0.64 0.26 0.72 13.10 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>matrix_reset copy_protein2\n', '< PyMOL>dump_mat(cmd.get_object_matrix("copy_protein2"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>dump_lst((cmd.get_distance("/target/1HPV/B/ILE`84/CB","/copy_protein2/1HPV/B/ILE`84/CB"),))\n', '< [ 0.00 ]\n'] run_tests: C1000viewing... run_tests: C1000viewing.log DIFFERS over about 264 lines: ['1,527d0\n', '< PyMOL>bg white\n', '< PyMOL>bg_color black\n', '< PyMOL>bg_color 0\n', '< PyMOL>bg_color 1\n', '< PyMOL>bg_color blue\n', '< PyMOL>bg_color -28374283\n', '< Color-Error: Bad color name.\n', '< PyMOL>bg_color 239283498\n', '< Color-Error: Bad color name.\n', '< PyMOL>bg_color asdfasdf\n', '< Color-Error: Bad color name.\n', '< PyMOL>dele all\n', '< PyMOL>reset\n', '< PyMOL>clip\n', '< Parsing-Error: missing required argument: mode\n', '< PyMOL>clip near\n', '< Parsing-Error: missing required argument: distance\n', '< PyMOL>clip near,-5\n', '< PyMOL>clip far,10\n', '< PyMOL>clip near,2\n', '< PyMOL>clip far,-3\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 43.000 93.000 -20.000\n', '< PyMOL>dele all\n', '< PyMOL>load dat/1tii.pdb\n', '< HEADER ENTEROTOXIN 20-MAR-96 1TII\n', '< TITLE ESCHERICHIA COLI HEAT LABILE ENTEROTOXIN TYPE IIB\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: HEAT LABILE ENTEROTOXIN TYPE IIB;\n', '< COMPND 3 CHAIN: D, E, F, G, H, A, C;\n', '< COMPND 4 SYNONYM: LT-IIB;\n', '< COMPND 5 ENGINEERED: YES;\n', '< COMPND 6 OTHER_DETAILS: LATENT/INACTIVE FORM\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 6 symmetry operators.\n', '< CmdLoad: "dat/1tii.pdb" loaded as "1tii".\n', '< PyMOL>hide\n', '< PyMOL>show cartoon\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 67216 graphics primitives.\n', '< PyMOL>cartoon rect\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 39552 graphics primitives.\n', '< PyMOL>cartoon loop\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 59232 graphics primitives.\n', '< PyMOL>cartoon tube\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 88720 graphics primitives.\n', '< PyMOL>cartoon oval\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 98720 graphics primitives.\n', '< PyMOL>cartoon arrow\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 39552 graphics primitives.\n', '< PyMOL>cartoon dumbbell\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 138176 graphics primitives.\n', '< PyMOL>cartoon automatic\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 67216 graphics primitives.\n', '< PyMOL>cartoon loop,ss h\n', '< PyMOL>cartoon tube,ss s\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 66876 graphics primitives.\n', '< PyMOL>cartoon skip,resi 1-100\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 10678 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>color\n', '< Parsing-Error: missing required argument: color\n', '< PyMOL>color -123454\n', '< Color-Error: Unknown color.\n', '< PyMOL>color 1023912\n', '< Color-Error: Unknown color.\n', '< PyMOL>color blue\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>color red\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>color 99\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>color blue,pept\n', '< Executive: Colored 107 atoms and 1 object.\n', '< PyMOL>color green,cgo\n', '< Executive: Colored 1 object.\n', '< PyMOL>color red,(all)\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>dele all\n', '< PyMOL>cgo_tuple = (SPHERE, 0.0, 0.0, 0.0, 1.0)\n', "< PyMOL>cmd.load_cgo(cgo_tuple,'cgo')\n", '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 1 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>load dat/3al1.pdb\n', '< HEADER STRUCTURAL PROTEIN 26-OCT-98 3AL1\n', '< TITLE DESIGNED PEPTIDE ALPHA-1, RACEMIC P1BAR FORM\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: D, L-ALPHA-1;\n', '< COMPND 3 CHAIN: A, B;\n', '< COMPND 4 ENGINEERED: YES;\n', '< COMPND 5 OTHER_DETAILS: N TERMINI ARE ACETYLATED\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 2 symmetry operators.\n', '< CmdLoad: "dat/3al1.pdb" loaded as "3al1".\n', '< PyMOL>disable\n', '< PyMOL>enable pept\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>enable 3al1\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 1266 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>enable\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 1432 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>enable all\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 1432 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>enable 3al1\n', '< PyMOL>enable pept\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 1432 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>reset\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>hide\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 0 graphics primitives.\n', '< PyMOL>show (name ca)\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 0 graphics primitives.\n', '< PyMOL>show (name c)\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 13 graphics primitives.\n', '< PyMOL>show (all)\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>hide (name ca)\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 115 graphics primitives.\n', '< PyMOL>hide\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 0 graphics primitives.\n', '< PyMOL>show sticks\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>show spheres,(name ca)\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 179 graphics primitives.\n', '< PyMOL>show surface,(not name n)\n', '< PyMOL>hide (name o)\n', '< PyMOL>ray\n', '< RepSurface: 1319 surface points.\n', '< RepSurface: 2634 triangles.\n', '< RayRenderTest: obtained 2412 graphics primitives.\n', '< PyMOL>hide surf\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 153 graphics primitives.\n', '< PyMOL>hide sph\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 140 graphics primitives.\n', '< PyMOL>hide sticks\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 0 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>label (all),resi\n', '< Label: labelled 107 atoms.\n', '< PyMOL>label (name ca),"ca"\n', '< Label: labelled 13 atoms.\n', '< PyMOL>label (name n),"%s-%s-%s"%(chain,resi,resn)\n', '< Label: labelled 13 atoms.\n', "< PyMOL>label (all),''\n", '< Label: labelled 107 atoms.\n', '< PyMOL>label (all)\n', '< Label: labelled 107 atoms.\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>reset\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>move\n', '< Parsing-Error: missing required argument: axis\n', '< PyMOL>move x\n', '< Parsing-Error: missing required argument: distance\n', '< PyMOL>move y\n', '< Parsing-Error: missing required argument: distance\n', '< PyMOL>move z\n', '< Parsing-Error: missing required argument: distance\n', '< PyMOL>move x,10\n', '< PyMOL>move y,5\n', '< PyMOL>move z,2\n', '< PyMOL>move z,-1\n', '< PyMOL>move x,-10\n', '< PyMOL>move y,2\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 7.000 -49.000 0.000 0.000 0.000 39.000 99.000 -20.000\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>orient\n', '< PyMOL>orient (none)\n', '< PyMOL>orient (name ca)\n', '< PyMOL>orient (resi 10)\n', '< PyMOL>orient (name ca and i. 10)\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>origin\n', '< PyMOL>origin (none)\n', '< PyMOL>origin (name ca)\n', '< PyMOL>origin (resi 10)\n', '< PyMOL>origin (name ca and i. 10)\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>show dots\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 6837 graphics primitives.\n', '< PyMOL>alter (all),vdw=5.0\n', '< Alter: modified 107 atoms.\n', '< PyMOL>refresh\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 6837 graphics primitives.\n', '< PyMOL>rebuild\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 1960 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>color shoot\n', '< Color-Error: Unknown color.\n', '< PyMOL>set_color shoot,[1.0,0.9,1.0]\n', '< Color: "shoot" defined as [ 1.000, 0.900, 1.000 ].\n', '< PyMOL>color shoot\n', '< Executive: Colored 107 atoms.\n', '< PyMOL>refresh\n', '< PyMOL>set_color shoot,[1.0,0.0,1.0]\n', '< Color: "shoot" defined as [ 1.000, 0.000, 1.000 ].\n', '< PyMOL>recolor\n', '< PyMOL>refresh\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>reset\n', '< PyMOL>cmd._dump_floats(v1)\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>reset\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>turn\n', '< Parsing-Error: missing required argument: axis\n', '< PyMOL>turn x\n', '< Parsing-Error: missing required argument: angle\n', '< PyMOL>turn y\n', '< Parsing-Error: missing required argument: angle\n', '< PyMOL>turn z\n', '< Parsing-Error: missing required argument: angle\n', '< PyMOL>turn x,10\n', '< PyMOL>turn y,5\n', '< PyMOL>turn z,2\n', '< PyMOL>turn z,-1\n', '< PyMOL>turn x,-10\n', '< PyMOL>turn y,2\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 0.992 0.002 -0.124 -0.002 1.000 -0.001 0.124 0.001 0.992\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>reset\n', '< PyMOL>view\n', '< Parsing-Error: missing required argument: key\n', '< PyMOL>view 1,store\n', '< view: view stored as "1".\n', '< PyMOL>view 2,store\n', '< view: view stored as "2".\n', '< PyMOL>move x,10\n', '< PyMOL>view 2,st\n', '< view: view stored as "2".\n', '< PyMOL>reset\n', '< PyMOL>move y,-10\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 -10.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>view 1,recall\n', '< view: "1" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 0.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>view 2,rec\n', '< view: "2" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 1.000 0.000 0.000 0.000 1.000\n', '< 10.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>turn x,10\n', '< PyMOL>view test,store\n', '< view: view stored as "test".\n', '< PyMOL>turn x,20\n', '< PyMOL>view rest,store\n', '< view: view stored as "rest".\n', '< PyMOL>view test\n', '< view: "test" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 10.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>view rest\n', '< view: "rest" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.866 0.500 0.000 -0.500 0.866\n', '< 10.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>view rest,clear\n', "< view: 'rest' deleted.\n", '< PyMOL>view rest\n', "< Error: unknown view: 'rest'. Choices:\n", '< 1 2 test\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.866 0.500 0.000 -0.500 0.866\n', '< 10.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>view test\n', '< view: "test" recalled.\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 10.000 0.000 -50.000 0.000 0.000 0.000 40.000 100.000 -20.000\n', '< PyMOL>viewport\n', '< PyMOL>viewport 300\n', '< PyMOL>viewport 100,100\n', '< PyMOL>viewport 300,300\n', '< PyMOL>viewport 640,480\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>zoom\n', '< PyMOL>zoom resi 10\n', '< PyMOL>zoom resi 4,5,6\n', "< ExecutiveWindowZoom-Warning: selection doesn't specify any coordinates.\n", '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -14.178 2.395 -9.290 18.016 11.178 17.178 -20.000\n', '< PyMOL>dele all\n', '< PyMOL>load dat/1tii.pdb,m1\n', '< HEADER ENTEROTOXIN 20-MAR-96 1TII\n', '< TITLE ESCHERICHIA COLI HEAT LABILE ENTEROTOXIN TYPE IIB\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: HEAT LABILE ENTEROTOXIN TYPE IIB;\n', '< COMPND 3 CHAIN: D, E, F, G, H, A, C;\n', '< COMPND 4 SYNONYM: LT-IIB;\n', '< COMPND 5 ENGINEERED: YES;\n', '< COMPND 6 OTHER_DETAILS: LATENT/INACTIVE FORM\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 6 symmetry operators.\n', '< CmdLoad: "dat/1tii.pdb" loaded as "m1".\n', '< PyMOL>load dat/il2.pdb,m1\n', '< CmdLoad: "dat/il2.pdb" appended into object "m1", state 2.\n', '< PyMOL>load dat/pept.pdb,m1\n', '< CmdLoad: "dat/pept.pdb" appended into object "m1", state 3.\n', '< PyMOL>zoom m1\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -269.487 39.950 5.709 13.189 212.466 326.509 -20.000\n', '< PyMOL>zoom m1,state=0\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -269.487 39.950 5.709 13.189 212.466 326.509 -20.000\n', '< PyMOL>zoom m1,state=1\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -227.278 51.665 11.519 10.196 179.188 275.368 -20.000\n', '< PyMOL>zoom m1,state=2\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -149.541 9.985 -9.318 20.976 117.899 181.182 -20.000\n', '< PyMOL>zoom m1,state=3\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>zoom m1,state=4\n', "< ExecutiveWindowZoom-Warning: selection doesn't specify any coordinates.\n", '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>origin m1\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 38.726 17.022 -67.659 39.950 5.709 13.189 49.820 76.561 -20.000\n', '< PyMOL>origin m1,state=0\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 38.726 17.022 -67.659 39.950 5.709 13.189 49.820 76.561 -20.000\n', '< PyMOL>origin m1,state=1\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 50.441 23.264 -69.598 51.665 11.519 10.196 49.820 76.561 -20.000\n', '< PyMOL>origin m1,state=2\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 8.761 0.872 -62.600 9.985 -9.318 20.976 49.820 76.561 -20.000\n', '< PyMOL>origin m1,state=3\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>origin m1,state=4\n', '< PyMOL>cmd._dump_floats(cmd.get_view(0))\n', '< 1.000 0.000 0.000 0.000 0.985 0.174 0.000 -0.174 0.985\n', '< 0.000 0.000 -63.191 1.224 -10.279 20.545 49.820 76.561 -20.000\n', '< PyMOL>orient m1\n', '< PyMOL>cmd._dump_ufloats(cmd.get_view(0))\n', '< 0.924 0.347 0.160 0.338 0.550 0.763 0.177 0.760 0.626\n', '< 0.000 0.000 269.487 39.950 5.709 13.189 212.466 326.509 20.000\n', '< PyMOL>orient m1,state=0\n', '< PyMOL>cmd._dump_ufloats(cmd.get_view(0))\n', '< 0.924 0.347 0.160 0.338 0.550 0.763 0.177 0.760 0.626\n', '< 0.000 0.000 269.487 39.950 5.709 13.189 212.466 326.509 20.000\n', '< PyMOL>orient m1,state=1\n', '< PyMOL>cmd._dump_ufloats(cmd.get_view(0))\n', '< 0.899 0.239 0.366 0.288 0.306 0.907 0.329 0.921 0.206\n', '< 0.000 0.000 227.278 51.665 11.519 10.196 179.188 275.368 20.000\n', '< PyMOL>orient m1,state=2\n', '< PyMOL>cmd._dump_ufloats(cmd.get_view(0))\n', '< 0.288 0.019 0.958 0.301 0.951 0.072 0.909 0.309 0.279\n', '< 0.000 0.000 149.541 9.985 9.318 20.976 117.899 181.182 20.000\n', '< PyMOL>orient m1,state=3\n', '< PyMOL>cmd._dump_ufloats(cmd.get_view(0))\n', '< 0.537 0.312 0.784 0.841 0.118 0.529 0.072 0.943 0.325\n', '< 0.000 0.000 63.191 1.224 10.279 20.545 49.820 76.561 20.000\n', '< PyMOL>orient m1,state=4\n', '< PyMOL>cmd._dump_ufloats(cmd.get_view(0))\n', '< 0.537 0.312 0.784 0.841 0.118 0.529 0.072 0.943 0.325\n', '< 0.000 0.000 63.191 1.224 10.279 20.545 49.820 76.561 20.000\n', '< PyMOL>zoom m1,state=-5000\n', '< PyMOL>zoom (none),state=5\n', "< ExecutiveWindowZoom-Warning: selection doesn't specify any coordinates.\n", '< PyMOL>zoom (all),state=-1\n', '< PyMOL>zoom (all),state=0\n', '< PyMOL>cmd._dump_ufloats(cmd.get_view(0))\n', '< 0.537 0.312 0.784 0.841 0.118 0.529 0.072 0.943 0.325\n', '< 0.000 0.000 269.487 39.950 5.709 13.189 212.466 326.509 20.000\n', '< PyMOL>dele all\n', '< PyMOL>load dat/1tii.pdb\n', '< HEADER ENTEROTOXIN 20-MAR-96 1TII\n', '< TITLE ESCHERICHIA COLI HEAT LABILE ENTEROTOXIN TYPE IIB\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: HEAT LABILE ENTEROTOXIN TYPE IIB;\n', '< COMPND 3 CHAIN: D, E, F, G, H, A, C;\n', '< COMPND 4 SYNONYM: LT-IIB;\n', '< COMPND 5 ENGINEERED: YES;\n', '< COMPND 6 OTHER_DETAILS: LATENT/INACTIVE FORM\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 6 symmetry operators.\n', '< CmdLoad: "dat/1tii.pdb" loaded as "1tii".\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1tii")[0])\n', '< 11.590 -22.877 -28.270\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1tii")[1])\n', '< 84.681 40.101 47.233\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1TII")[0])\n', '< 11.590 -22.877 -28.270\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1TII")[1])\n', '< 84.681 40.101 47.233\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1Tii")[0])\n', '< 11.590 -22.877 -28.270\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1Tii")[1])\n', '< 84.681 40.101 47.233\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1tii////cA")[0])\n', '< 12.578 -21.622 -23.339\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1tii////ca")[1])\n', '< 81.195 38.760 45.050\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1TII////cA")[0])\n', '< 12.578 -21.622 -23.339\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1TII////ca")[1])\n', '< 81.195 38.760 45.050\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1Tii////cA")[0])\n', '< 12.578 -21.622 -23.339\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("1Tii////ca")[1])\n', '< 81.195 38.760 45.050\n', '< PyMOL>dist TSt,/1tii//A/TYR`3/CD1, /1tii//F/ARG`12/NE\n', '< Executive: object "TSt" created.\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("tst")[0])\n', '< 35.306 24.391 -8.737\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("tst")[1])\n', '< 77.385 25.286 6.130\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("TST")[0])\n', '< 35.306 24.391 -8.737\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("TST")[1])\n', '< 77.385 25.286 6.130\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("tSt")[0])\n', '< 35.306 24.391 -8.737\n', '< PyMOL>cmd._dump_floats(cmd.get_extent("tSt")[1])\n', '< 77.385 25.286 6.130\n'] run_tests: C1010helping... run_tests: C1010helping.log DIFFERS over about 27 lines: ['1,53d0\n', '< PyMOL>help\n', '< \n', '< COMMANDS\n', '< \n', '< INPUT/OUTPUT load save delete quit\n', '< VIEW turn move clip rock\n', '< show hide enable disable\n', '< reset refresh rebuild \n', '< zoom origin orient \n', '< view get_view set_view\n', '< MOVIES mplay mstop mset mdo\n', '< mpng mmatrix frame\n', '< rewind middle ending\n', '< forward backward\n', '< IMAGING png mpng\n', '< RAY TRACING ray \n', '< MAPS isomesh isodot\n', '< DISPLAY cls viewport splash \n', '< SELECTIONS select mask \n', '< SETTINGS set button\n', '< ATOMS alter alter_state \n', '< EDITING create replace remove h_fill remove_picked\n', '< edit bond unbond h_add fuse \n', '< undo redo protect cycle_valence attach\n', '< FITTING fit rms rms_cur pair_fit \n', '< intra_fit intra_rms intra_rms_cur \n', '< COLORS color set_color\n', '< HELP help commands\n', '< DISTANCES dist \n', '< STEREO stereo\n', '< SYMMETRY symexp\n', '< SCRIPTS @ run\n', '< LANGUAGE alias extend\n', '< \n', '< Try "help ". Also see the following extra topics:\n', '< \n', '< "movies", "keyboard", "mouse", "selections",\n', '< "examples", "launching", "editing", and "api". \n', '< \n', '< PyMOL>help dummy\n', '< \n', '< DESCRIPTION\n', '< \n', '< This is a dummy function which returns None. \n', '< \n', "< PyMOL>cmd.show_help('dummy')\n", '< PyMOL>help dummy\n', '< \n', '< DESCRIPTION\n', '< \n', '< This is a dummy function which returns None. \n', '< \n', '< (Hit ESC to hide)\n'] run_tests: C1020querying... run_tests: C1020querying.log DIFFERS over about 123 lines: ['1,245d0\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>count_atoms\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms name ca\n', '< count_atoms: 13 atoms\n', '< PyMOL>count_states\n', '< cmd.count_states: 1 states.\n', '< PyMOL>create pept,(all),1,2\n', '< Selector: found 107 atoms.\n', '< PyMOL>create pept,(all),1,3\n', '< Selector: found 107 atoms.\n', '< PyMOL>create pept,(none),1,2\n', '< Selector: found 0 atoms.\n', '< PyMOL>create cpy,(all),1,1\n', '< Selector: found 107 atoms.\n', '< Executive: object "cpy" created.\n', '< PyMOL>count_states\n', '< cmd.count_states: 3 states.\n', '< PyMOL>count_states pept\n', '< cmd.count_states: 3 states.\n', '< PyMOL>count_states cpy\n', '< cmd.count_states: 1 states.\n', '< PyMOL>count_frames\n', '< cmd.count_frames: 3 frames\n', '< PyMOL>mset 1 x10\n', '< PyMOL>count_frames\n', '< cmd.count_frames: 10 frames\n', '< PyMOL>cmd.count_frames()\n', '< PyMOL>cmd.count_states()\n', '< PyMOL>cmd.count_atoms()\n', '< PyMOL>dist\n', "< cmd-Error: The 'pk1' selection is undefined.\n", "< cmd-Error: The 'pk2' selection is undefined.\n", '< PyMOL>distance\n', "< cmd-Error: The 'pk1' selection is undefined.\n", "< cmd-Error: The 'pk2' selection is undefined.\n", '< PyMOL>select lb,resi 5 and name ca\n', '< Selector: selection "lb" defined with 2 atoms.\n', '< PyMOL>dist\n', "< cmd-Error: The 'pk1' selection is undefined.\n", "< cmd-Error: The 'pk2' selection is undefined.\n", '< PyMOL>select rb,resi 8 and name ca\n', '< Selector: selection "rb" defined with 2 atoms.\n', '< PyMOL>dist\n', "< cmd-Error: The 'pk1' selection is undefined.\n", "< cmd-Error: The 'pk2' selection is undefined.\n", '< PyMOL>dist (lb),resi 10 and name ca\n', '< Executive: object "dist01" created.\n', '< PyMOL>distance resi 6 and name n,resi 9\n', '< Executive: object "dist02" created.\n', '< PyMOL>distance resi 7 and name ca,all,3.0,zoom=1\n', '< Executive: object "dist03" created.\n', '< PyMOL>print "%6.3f"%cmd.distance("resi 1 and name ca","resi 13 and name ca")\n', '< 5.762\n', '< PyMOL>print "%6.3f"%cmd.distance("resi 1 and name ca","resi 14 and name ca")\n', '< -1.000\n', '< PyMOL>print cmd.find_pairs("name o","name n",mode=1,cutoff=3.4)\n', "< [(('cpy', 103), ('pept', 1)), (('pept', 103), ('pept', 1)), (('cpy', 83), ('pept', 15)), (('pept', 83), ('pept', 15)), (('cpy', 59), ('pept', 34)), (('pept', 59), ('pept', 34)), (('cpy', 47), ('pept', 56)), (('cpy', 37), ('pept', 56)), (('pept', 47), ('pept', 56)), (('pept', 37), ('pept', 56)), (('cpy', 18), ('pept', 73)), (('pept', 18), ('pept', 73)), (('cpy', 4), ('pept', 100)), (('pept', 4), ('pept', 100)), (('cpy', 103), ('cpy', 1)), (('pept', 103), ('cpy', 1)), (('cpy', 83), ('cpy', 15)), (('pept', 83), ('cpy', 15)), (('cpy', 59), ('cpy', 34)), (('pept', 59), ('cpy', 34)), (('cpy', 47), ('cpy', 56)), (('cpy', 37), ('cpy', 56)), (('pept', 47), ('cpy', 56)), (('pept', 37), ('cpy', 56)), (('cpy', 18), ('cpy', 73)), (('pept', 18), ('cpy', 73)), (('cpy', 4), ('cpy', 100)), (('pept', 4), ('cpy', 100))]\n", '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>get_area (none)\n', '< cmd.get_area: 0.000 Angstroms^2.\n', '< PyMOL>get_area\n', '< cmd.get_area: 1381.186 Angstroms^2.\n', '< PyMOL>get_area state=2\n', '< Area-Error: Invalid state.\n', '< PyMOL>get_area name ca\n', '< cmd.get_area: 112.133 Angstroms^2.\n', '< PyMOL>load dat/3al1.pdb\n', '< HEADER STRUCTURAL PROTEIN 26-OCT-98 3AL1\n', '< TITLE DESIGNED PEPTIDE ALPHA-1, RACEMIC P1BAR FORM\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: D, L-ALPHA-1;\n', '< COMPND 3 CHAIN: A, B;\n', '< COMPND 4 ENGINEERED: YES;\n', '< COMPND 5 OTHER_DETAILS: N TERMINI ARE ACETYLATED\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 2 symmetry operators.\n', '< CmdLoad: "dat/3al1.pdb" loaded as "3al1".\n', '< PyMOL>get_area\n', '< Area-Error: Selection must be within a single object.\n', '< PyMOL>dele all\n', '< PyMOL>print lst\n', "< [('white', 0), ('black', 1), ('blue', 2), ('green', 3), ('red', 4), ('cyan', 5), ('yellow', 6), ('dash', 7), ('magenta', 8), ('salmon', 9)]\n", '< PyMOL>print cmd.get_color_tuple("red")\n', '< (1.0, 0.0, 0.0)\n', '< PyMOL>print cmd.get_color_tuple("blue")\n', '< (0.0, 0.0, 1.0)\n', '< PyMOL>print cmd.get_color_tuple("green")\n', '< (0.0, 1.0, 0.0)\n', '< PyMOL>print cmd.get_color_tuple("white")\n', '< (1.0, 1.0, 1.0)\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>get_dihedral 1/n,1/ca,1/c,1/o\n', '< cmd.get_dihedral: -8.586 degrees.\n', '< -5.188 -20.331 13.157 8.919 0.863 27.058\n', '< -5.063 -17.973 17.858 7.053 -2.295 25.698\n', '< PyMOL>print len(cmd.get_model().atom)\n', '< 107\n', '< PyMOL>print len(cmd.get_model("resi 1").bond)\n', '< 7\n', '< PyMOL>dele all\n', '< PyMOL>print cmd.get_names()\n', '< []\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>print cmd.get_names()\n', "< ['pept']\n", '< PyMOL>edit 4/ca\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< PyMOL>print cmd.get_names("all")\n', "< ['pept', 'pk1', '_pkbase1', '_pkfrag1', '_pkbase2', '_pkfrag2', 'pkmol']\n", '< PyMOL>print cmd.get_names("selections")\n', "< ['pk1', '_pkbase1', '_pkfrag1', '_pkbase2', '_pkfrag2', 'pkmol']\n", '< PyMOL>print cmd.get_names("objects")\n', "< ['pept']\n", '< PyMOL>print cmd.get_names_of_type("object:molecule")\n', "< ['pept']\n", '< PyMOL>print cmd.get_names_of_type("object:map")\n', '< []\n', '< PyMOL>kee = pp.keys()[0]\n', '< PyMOL>print kee\n', "< ('pept', 10)\n", '< PyMOL>cmd._dump_floats(pp[kee])\n', '< -124.163 170.604\n', '< PyMOL>reset\n', '< PyMOL>get_position\n', '< cmd.get_position: [ 1.224, -10.279, 20.545]\n', '< PyMOL>zoom resi 10\n', '< PyMOL>get_position\n', '< cmd.get_position: [ 2.395, -9.290, 18.016]\n', '< PyMOL>get_type\n', '< Parsing-Error: missing required argument: name\n', '< PyMOL>get_type nonexistent\n', '< cmd-Error: unrecognized name.\n', '< PyMOL>get_type pept\n', '< object:molecule\n', '< PyMOL>id_atom none\n', '< cmd-Error: atom none not found by id_atom.\n', '< PyMOL>id_atom all\n', '< cmd-Error: multiple atoms all found by id_atom.\n', '< PyMOL>id_atom 5/ca\n', '< cmd.id_atom: (id 35)\n', '< PyMOL>identify name ca\n', '< cmd.identify: (id 2)\n', '< cmd.identify: (id 10)\n', '< cmd.identify: (id 16)\n', '< cmd.identify: (id 21)\n', '< cmd.identify: (id 35)\n', '< cmd.identify: (id 45)\n', '< cmd.identify: (id 53)\n', '< cmd.identify: (id 57)\n', '< cmd.identify: (id 66)\n', '< cmd.identify: (id 74)\n', '< cmd.identify: (id 81)\n', '< cmd.identify: (id 95)\n', '< cmd.identify: (id 101)\n', '< PyMOL>index name ca\n', '< cmd.index: (pept`2)\n', '< cmd.index: (pept`10)\n', '< cmd.index: (pept`16)\n', '< cmd.index: (pept`21)\n', '< cmd.index: (pept`35)\n', '< cmd.index: (pept`45)\n', '< cmd.index: (pept`53)\n', '< cmd.index: (pept`57)\n', '< cmd.index: (pept`66)\n', '< cmd.index: (pept`74)\n', '< cmd.index: (pept`81)\n', '< cmd.index: (pept`95)\n', '< cmd.index: (pept`101)\n', '< PyMOL>overlap pept,pept\n', '< cmd.overlap: 549.083 Angstroms.\n', '< PyMOL>alter (all),vdw=0.0\n', '< Alter: modified 107 atoms.\n', '< PyMOL>overlap pept,pept\n', '< cmd.overlap: 0.000 Angstroms.\n', '< PyMOL>alter (all),vdw=0.5\n', '< Alter: modified 107 atoms.\n', '< PyMOL>overlap pept,pept\n', '< cmd.overlap: 53.500 Angstroms.\n', '< PyMOL>phi_psi all\n', '< CYS-2: ( -124.2, 170.6 )\n', '< ALA-3: ( -128.4, 140.0 )\n', '< TRP-4: ( -128.5, 135.2 )\n', '< HIS-5: ( -114.1, 109.1 )\n', '< LEU-6: ( 53.9, 41.8 )\n', '< GLY-7: ( 90.4, -28.0 )\n', '< GLU-8: ( -75.5, 138.7 )\n', '< LEU-9: ( -73.5, 125.3 )\n', '< VAL-10: ( -91.9, -61.0 )\n', '< TRP-11: ( -168.2, 159.0 )\n', '< CYS-12: ( -138.9, 133.5 )\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>get_symmetry\n', '< get_symmetry: No symmetry defined.\n', '< PyMOL>get_symmetry pept\n', '< get_symmetry: No symmetry defined.\n', '< PyMOL>get_symmetry none\n', '< Error: selection must refer to exactly one object.\n', '< PyMOL>load dat/3al1.pdb\n', '< HEADER STRUCTURAL PROTEIN 26-OCT-98 3AL1\n', '< TITLE DESIGNED PEPTIDE ALPHA-1, RACEMIC P1BAR FORM\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: D, L-ALPHA-1;\n', '< COMPND 3 CHAIN: A, B;\n', '< COMPND 4 ENGINEERED: YES;\n', '< COMPND 5 OTHER_DETAILS: N TERMINI ARE ACETYLATED\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 2 symmetry operators.\n', '< CmdLoad: "dat/3al1.pdb" loaded as "3al1".\n', '< PyMOL>get_symmetry\n', '< Error: selection must refer to exactly one object.\n', '< PyMOL>get_symmetry 3al1\n', '< get_symmetry: A = 20.544 B = 20.859 C = 26.055\n', '< get_symmetry: Alpha = 101.160 Beta = 97.030 Gamma = 118.060\n', '< get_symmetry: SpaceGroup = P -1\n', '< PyMOL>get_symmetry pept\n', '< get_symmetry: No symmetry defined.\n', '< PyMOL>hide\n', '< PyMOL>show cell,pept\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 0 graphics primitives.\n', '< PyMOL>apply(cmd.set_symmetry,["pept"]+cmd.get_symmetry("3al1"))\n', '< Symmetry: Found 2 symmetry operators.\n', '< PyMOL>get_symmetry pept\n', '< get_symmetry: A = 20.544 B = 20.859 C = 26.055\n', '< get_symmetry: Alpha = 101.160 Beta = 97.030 Gamma = 118.060\n', '< get_symmetry: SpaceGroup = P -1\n', '< PyMOL>get_symmetry 3al1\n', '< get_symmetry: A = 20.544 B = 20.859 C = 26.055\n', '< get_symmetry: Alpha = 101.160 Beta = 97.030 Gamma = 118.060\n', '< get_symmetry: SpaceGroup = P -1\n', '< PyMOL>show cell,pept\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 12 graphics primitives.\n'] run_tests: C1030selecting... run_tests: C1030selecting.log DIFFERS over about 62 lines: ['1,123d0\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>select (resi trp)\n', '< Selector: selection "sel01" defined with 0 atoms.\n', '< PyMOL>indicate (name ca)\n', '< PyMOL>deselect\n', '< PyMOL>select 1/o\n', '< Selector: selection "sel02" defined with 1 atoms.\n', '< PyMOL>select 1/o+ca+n\n', '< Selector: selection "sel03" defined with 3 atoms.\n', '< PyMOL>select /pept\n', '< Selector: selection "sel04" defined with 107 atoms.\n', '< PyMOL>select bb = (name ca or name c or name n)\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = (name ca,c,n)\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = */ca+c+n\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = (*/ca,c,n)\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = (not (not (name ca or name c or name n)))\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = (not (not (n. c|n. ca|n. n)))\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = (not (not (not (not (not (not (not (not (not (not (not (not (not (not (*/ca,c,n)))))))))))))))\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = (all and all and all and (not (not all)) and (not none) and all and not (not (n;ca,c,n)))\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb,(name ca or (n;c | (n. n) | (*/n)))\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb, \\\n', '< PyMOL>name ca \\\n', '< PyMOL>or name c \\\n', '< PyMOL>or name n\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = bb\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select bb = not not bb\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>select cc = not bb\n', '< Selector: selection "cc" defined with 68 atoms.\n', '< PyMOL>select bb = not cc\n', '< Selector: selection "bb" defined with 39 atoms.\n', '< PyMOL>enable\n', '< PyMOL>enable bb\n', '< PyMOL>enable cc\n', '< PyMOL>disable cc\n', '< PyMOL>hide lines,cc\n', '< PyMOL>hide lines,bb\n', '< PyMOL>show (bb)\n', '< PyMOL>set ray_default_renderer=2\n', '< Setting: ray_default_renderer set to 2.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 63 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/1tii.pdb\n', '< HEADER ENTEROTOXIN 20-MAR-96 1TII\n', '< TITLE ESCHERICHIA COLI HEAT LABILE ENTEROTOXIN TYPE IIB\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: HEAT LABILE ENTEROTOXIN TYPE IIB;\n', '< COMPND 3 CHAIN: D, E, F, G, H, A, C;\n', '< COMPND 4 SYNONYM: LT-IIB;\n', '< COMPND 5 ENGINEERED: YES;\n', '< COMPND 6 OTHER_DETAILS: LATENT/INACTIVE FORM\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 6 symmetry operators.\n', '< CmdLoad: "dat/1tii.pdb" loaded as "1tii".\n', '< PyMOL>count_atoms 1+2+3+4+5+6+7+8+9+10+11+12+13+14+15+16+17+18+19+20+21+22+23+24+25+26+27+28+29+30+31+32+33+34+35+36+37+38+39+40+41+42+43+44+45+46+47+48+49+50+51+52+53+54+55+56+57+58+59+60+61+62+63+64+65+66+67+68+69+70+71+72+73+74+75+76+77+78+79+80+81+82+83+84+85+86+87+88+89+90+91+92+93+94+95+96+97+98+99+100+101+102+103+104+105+106+107+108+109+110+111+112+113+114+115+116+117+118+119+120+121+122+123+124+125+126+127+128+129+130+131+132+133+134+135+136+137+138+139+140+141+142+143+144+145+146+147+148+149+150+151+152+153+154+155+156+157+158+159+160+161+162+163+164+165+166+167+168+169+170+171+172+173+174+175+176+177+178+179+180+181+182+183+184+185+186+187+195+196+197+198+199+200+201+202+203+204+205+206+207+208+209+210+211+212+213+214+215+216+217+218+219+220+221+222+223+224+225+226+227+228+229+230/\n', '< count_atoms: 5655 atoms\n', '< PyMOL>print cmd.count_atoms("resi 1+2+3+4+5+6+7+8+9+10+11+12+13+14+15+16+17+18+19+20+21+22+23+24+25+26+27+28+29+30+31+32+33+34+35+36+37+38+39+40+41+42+43+44+45+46+47+48+49+50+51+52+53+54+55+56+57+58+59+60+61+62+63+64+65+66+67+68+69+70+71+72+73+74+75+76+77+78+79+80+81+82+83+84+85+86+87+88+89+90+91+92+93+94+95+96+97+98+99+100+101+102+103+104+105+106+107+108+109+110+111+112+113+114+115+116+117+118+119+120+121+122+123+124+125+126+127+128+129+130+131+132+133+134+135+136+137+138+139+140+141+142+143+144+145+146+147+148+149+150+151+152+153+154+155+156+157+158+159+160+161+162+163+164+165+166+167+168+169+170+171+172+173+174+175+176+177+178+179+180+181+182+183+184+185+186+187+195+196+197+198+199+200+201+202+203+204+205+206+207+208+209+210+211+212+213+214+215+216+217+218+219+220+221+222+223+224+225+226+227+228+229+230")\n', '< 5655\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>load dat/tiny.pdb, model\n', '< Executive-Warning: name "model" collides with a selection language keyword.\n', '< CmdLoad: "dat/tiny.pdb" loaded as "model".\n', '< PyMOL>load dat/small01.mol, test+me\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "test+me", through state 1.\n', '< PyMOL>load dat/small02.pdb, mymodel\n', '< CmdLoad: "dat/small02.pdb" loaded as "mymodel".\n', '< PyMOL>load dat/small03.mol2, model2\n', '< ObjectMoleculeReadStr: read through molecule 1.\n', '< ObjectMoleculeReadStr: read through molecule 2.\n', '< ObjectMoleculeReadStr: read through molecule 3.\n', '< ObjectMoleculeReadStr: read through molecule 4.\n', '< ObjectMoleculeReadStr: read through molecule 5.\n', '< ObjectMoleculeReadStr: read through molecule 6.\n', '< ObjectMoleculeReadStr: read through molecule 7.\n', '< ObjectMoleculeReadStr: read through molecule 8.\n', '< ObjectMoleculeReadStr: read through molecule 9.\n', '< ObjectMoleculeReadStr: read through molecule 10.\n', '< ExecutiveLoad: "dat/small03.mol2" loaded as "model2", through state 16.\n', '< PyMOL>count_atoms model\n', '< Selector-Error: Misplaced ).\n', '< Selector-Error: Malformed selection.\n', '< ( model )<--\n', '< count_atoms: -1 atoms\n', '< PyMOL>count_atoms model model\n', '< count_atoms: 37 atoms\n', '< PyMOL>count_atoms /model\n', '< count_atoms: 37 atoms\n', '< PyMOL>count_atoms pept\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms model model pept\n', '< count_atoms: 144 atoms\n', '< PyMOL>count_atoms /model+pept\n', '< count_atoms: 144 atoms\n', '< PyMOL>count_atoms /pept+model\n', '< count_atoms: 144 atoms\n', '< PyMOL>count_atoms /test+\\me\n', '< count_atoms: 36 atoms\n', '< PyMOL>count_atoms /pept+model+test\\+me\n', '< count_atoms: 180 atoms\n', '< PyMOL>count_atoms test+me\n', '< count_atoms: 36 atoms\n', '< PyMOL>count_atoms test+me model model\n', '< count_atoms: 73 atoms\n', '< PyMOL>count_atoms mymodel\n', '< count_atoms: 36 atoms\n', '< PyMOL>count_atoms model2\n', '< count_atoms: 389 atoms\n'] run_tests: C1035wildcards... run_tests: C1035wildcards.log DIFFERS over about 53 lines: ['1,106d0\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>count_atoms name C*\n', '< count_atoms: 69 atoms\n', '< PyMOL>count_atoms */C*\n', '< count_atoms: 69 atoms\n', '< PyMOL>count_atoms A*/\n', '< count_atoms: 13 atoms\n', '< PyMOL>count_atoms A*/O*\n', '< count_atoms: 4 atoms\n', "< PyMOL>alter all,segi='FOUR'\n", '< Alter: modified 107 atoms.\n', "< PyMOL>alter 1-5/,segi='FIRE'\n", '< Alter: modified 43 atoms.\n', "< PyMOL>alter 6-7/,segi='SORE'\n", '< Alter: modified 12 atoms.\n', '< PyMOL>count_atoms F*///\n', '< count_atoms: 95 atoms\n', '< PyMOL>count_atoms F*R*///\n', '< count_atoms: 95 atoms\n', '< PyMOL>count_atoms F*R///\n', '< count_atoms: 52 atoms\n', '< PyMOL>count_atoms *R*///\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms *IRE///\n', '< count_atoms: 43 atoms\n', '< PyMOL>count_atoms *RE///\n', '< count_atoms: 55 atoms\n', '< PyMOL>count_atoms *E///\n', '< count_atoms: 55 atoms\n', '< PyMOL>count_atoms *O*///\n', '< count_atoms: 64 atoms\n', '< PyMOL>count_atoms chain E\n', '< count_atoms: 107 atoms\n', "< PyMOL>alter 1-3/,chain='A'\n", '< Alter: modified 19 atoms.\n', "< PyMOL>alter 6-9/,chain='B'\n", '< Alter: modified 29 atoms.\n', "< PyMOL>alter 10-11/,chain='G'\n", '< Alter: modified 21 atoms.\n', '< PyMOL>count_atoms chain A\n', '< count_atoms: 19 atoms\n', '< PyMOL>count_atoms chain A:B\n', '< count_atoms: 48 atoms\n', '< PyMOL>count_atoms chain B:F\n', '< count_atoms: 67 atoms\n', '< PyMOL>count_atoms chain A:Z\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms chain A+E\n', '< count_atoms: 57 atoms\n', '< PyMOL>count_atoms chain A+F\n', '< count_atoms: 19 atoms\n', '< PyMOL>count_atoms */*/*/*/*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms */*/*/*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms */*/*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms */*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms *\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms /*/*/*/*/*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms /*/*/*/*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms /*/*/*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms /*/*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms /*\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atom /*/*RE\n', '< count_atoms: 55 atoms\n', '< PyMOL>count_atom /*////ca\n', '< count_atoms: 13 atoms\n', '< PyMOL>count_atom *////ca\n', '< count_atoms: 13 atoms\n', '< PyMOL>count_atom /////ca\n', '< count_atoms: 13 atoms\n', '< PyMOL>create pap,pept and not elem o\n', '< Selector: found 88 atoms.\n', '< Executive: object "pap" created.\n', '< PyMOL>create abt,pept and not elem n\n', '< Selector: found 90 atoms.\n', '< Executive: object "abt" created.\n', '< PyMOL>count_atoms p*\n', '< count_atoms: 195 atoms\n', '< PyMOL>count_atoms *t\n', '< count_atoms: 197 atoms\n', '< PyMOL>count_atoms *pt\n', '< count_atoms: 107 atoms\n', '< PyMOL>count_atoms p*p\n', '< count_atoms: 88 atoms\n', '< PyMOL>count_atoms p*p*\n', '< count_atoms: 195 atoms\n', '< PyMOL>count_atoms a*\n', '< count_atoms: 90 atoms\n', '< PyMOL>count_atoms /p*/*RE\n', '< count_atoms: 101 atoms\n', '< PyMOL>count_atoms /*t/*O*\n', '< count_atoms: 119 atoms\n', '< PyMOL>count_atoms /*pt//A:E\n', '< count_atoms: 86 atoms\n', '< PyMOL>count_atoms /p*/*RE/E/h*/c*\n', '< count_atoms: 12 atoms\n'] run_tests: C1040editing... run_tests: C1040editing.log DIFFERS over about 260 lines: ['1,519d0\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>alter (elem n,o),vdw=4.0\n', '< Alter: modified 36 atoms.\n', '< PyMOL>show dots\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 2032 graphics primitives.\n', '< PyMOL>alter_state 1,(all),x=x+y\n', '< AlterState: modified 107 atom coordinate states.\n', '< PyMOL>hide\n', '< PyMOL>show lines\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" appended into object "pept", state 2.\n', '< PyMOL>alter_state -1,(all),x=x+y\n', '< AlterState: modified 107 atom coordinate states.\n', '< PyMOL>alter_state 0,(all), x=x+y\n', '< AlterState: modified 214 atom coordinate states.\n', '< PyMOL>alter_state 1,(all), x=x+y\n', '< AlterState: modified 107 atom coordinate states.\n', '< PyMOL>alter_state 2,(all), x=x+y\n', '< AlterState: modified 107 atom coordinate states.\n', '< PyMOL>alter_state 3,(all), x=x+y\n', '< AlterState: modified 0 atom coordinate states.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>remove hydro\n', '< Remove: eliminated 20 atoms in model "small01".\n', '< PyMOL>h_add\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>remove id 17\n', '< Remove: eliminated 1 atoms in model "small01".\n', '< PyMOL>count_atoms\n', '< count_atoms: 35 atoms\n', '< PyMOL>edit id 3\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< PyMOL>attach X,4,2\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>edit elem X\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< PyMOL>remove_picked\n', '< Remove: eliminated 1 atoms in model "small01".\n', '< PyMOL>unpick\n', '< PyMOL>print cmd.get_names()\n', "< ['small01']\n", '< PyMOL>count_atoms\n', '< count_atoms: 35 atoms\n', '< PyMOL>h_add\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>unbond id 1,id 2\n', '< Unbond: 1 bonds removed from model "small01".\n', '< PyMOL>h_add\n', '< PyMOL>count_atoms\n', '< count_atoms: 38 atoms\n', '< PyMOL>remove hydro\n', '< Remove: eliminated 22 atoms in model "small01".\n', '< PyMOL>bond id 1,id 2\n', '< Bond: 1 bonds added to model "small01".\n', '< PyMOL>h_add\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>edit id 6,id 10\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< Selector: selection "pk2" defined with 1 atoms.\n', '< PyMOL>cycle_valence\n', '< Remove: eliminated 2 atoms in model "small01".\n', '< Remove: eliminated 2 atoms in model "small01".\n', '< PyMOL>count_atoms\n', '< count_atoms: 34 atoms\n', '< PyMOL>cycle_valence\n', '< Remove: eliminated 1 atoms in model "small01".\n', '< Remove: eliminated 1 atoms in model "small01".\n', '< PyMOL>count_atoms\n', '< count_atoms: 32 atoms\n', '< PyMOL>remove_picked\n', '< PyMOL>bond id 6,id 10,2\n', '< Bond: 1 bonds added to model "small01".\n', '< PyMOL>h_add\n', '< PyMOL>set valence=0.05\n', '< Setting: valence set to on.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 59 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n', '< PyMOL>protect resi 1-6\n', '< Protect: 51 atoms protected from movement.\n', '< PyMOL>edit 2/sg,12/sg\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< Selector: selection "pk2" defined with 1 atoms.\n', '< PyMOL>torsion 90\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -10.445, -22.170, 11.965]\n', '< cmd.extent: max: [ 6.787, 0.863, 27.058]\n', '< PyMOL>undo\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n', '< PyMOL>redo\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -10.445, -22.170, 11.965]\n', '< cmd.extent: max: [ 6.787, 0.863, 27.058]\n', '< PyMOL>undo\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n', '< PyMOL>deprotect\n', '< Protect: 107 atoms deprotected.\n', '< PyMOL>edit 2/sg,12/sg\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< Selector: selection "pk2" defined with 1 atoms.\n', '< PyMOL>torsion 90\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -15.562, -22.170, 11.965]\n', '< cmd.extent: max: [ 5.893, -8.073, 25.808]\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>flag ignore,(!*/ca,c,n,o,cb)\n', '< Flag: flag 25 is set in 43 of 107 atoms.\n', '< PyMOL>flag exfoliate,(*/cb)\n', '< Flag: flag 24 is set in 12 of 107 atoms.\n', '< PyMOL>show surf\n', '< PyMOL>ray\n', '< RepSurface: 921 surface points.\n', '< RepSurface: 1838 triangles.\n', '< RayRenderTest: obtained 1529 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol,m1\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "m1", through state 1.\n', '< PyMOL>load dat/small01.mol,m2\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "m2", through state 1.\n', '< PyMOL>fuse m1 and id 31,m2 and id 31\n', '< PyMOL>dele m1\n', '< PyMOL>zoom\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 144 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol,m1\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "m1", through state 1.\n', '< PyMOL>load dat/small01.mol,m2\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "m2", through state 1.\n', '< PyMOL>remove id 30\n', '< Remove: eliminated 1 atoms in model "m1".\n', '< Remove: eliminated 1 atoms in model "m2".\n', '< PyMOL>fuse m1 and id 12,m2 and id 12\n', '< PyMOL>dele m1\n', '< PyMOL>zoom\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 144 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>edit id 2,id 6, id 5\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< Selector: selection "pk2" defined with 1 atoms.\n', '< Selector: selection "pk3" defined with 1 atoms.\n', '< PyMOL>invert\n', '< Editor: Inverted atom.\n', '< PyMOL>print "%8.3f"%cmd.dist("id 28","id 17")\n', '< 1.957\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>iterate (name n),print resi\n', '< 1\n', '< 2\n', '< 3\n', '< 4\n', '< 5\n', '< 6\n', '< 7\n', '< 8\n', '< 9\n', '< 10\n', '< 11\n', '< 12\n', '< 13\n', '< Iterate: iterated over 13 atoms.\n', '< PyMOL>iterate_state 1,(name o),print "%8.3f %8.3f %8.3f"%(x,y,z)\n', '< 4.456 -15.889 23.517\n', '< 3.025 -12.039 25.188\n', '< 1.332 -9.867 21.362\n', '< 0.752 -5.592 23.297\n', '< -2.092 -3.870 19.914\n', '< -5.181 -3.100 20.933\n', '< -5.188 -7.669 21.049\n', '< -1.643 -7.529 19.691\n', '< -0.699 -9.660 16.692\n', '< 2.708 -11.019 16.296\n', '< 3.449 -13.097 20.534\n', '< 5.278 -17.322 18.998\n', '< 5.962 -19.432 22.570\n', '< IterateState: iterated over 13 atom coordinate states.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>stored.sum = 0\n', '< PyMOL>iterate_state 1,(il2),stored.sum=stored.sum+x\n', '< IterateState: iterated over 2084 atom coordinate states.\n', '< PyMOL>print "%8.3f"%stored.sum\n', '< 20809.421\n', '< PyMOL>push_undo (il2)\n', '< PyMOL>alter_state 1,(il2),x=0.0\n', '< AlterState: modified 2084 atom coordinate states.\n', '< PyMOL>rebuild\n', '< PyMOL>stored.sum = 0\n', '< PyMOL>iterate_state 1,(il2),stored.sum=stored.sum+x\n', '< IterateState: iterated over 2084 atom coordinate states.\n', '< PyMOL>print "%8.3f"%stored.sum\n', '< 0.000\n', '< PyMOL>edit il2`1\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< PyMOL>undo\n', '< PyMOL>stored.sum = 0\n', '< PyMOL>iterate_state 1,(il2),stored.sum=stored.sum+x\n', '< IterateState: iterated over 2084 atom coordinate states.\n', '< PyMOL>print "%8.3f"%stored.sum\n', '< 20809.421\n', '< PyMOL>rebuild\n', '< PyMOL>show dots\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 111433 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>iterate (all),print name\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< C\n', '< O\n', '< O\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< H\n', '< Iterate: iterated over 36 atoms.\n', '< PyMOL>rename small01\n', '< Rename: renamed 33 atoms.\n', '< PyMOL>iterate (all),print name\n', '< C01\n', '< C02\n', '< C03\n', '< C04\n', '< C05\n', '< C06\n', '< C07\n', '< C08\n', '< C09\n', '< C10\n', '< C11\n', '< C12\n', '< C13\n', '< C\n', '< O14\n', '< O\n', '< H15\n', '< H16\n', '< H17\n', '< H18\n', '< H19\n', '< H20\n', '< H21\n', '< H22\n', '< H23\n', '< H24\n', '< H25\n', '< H26\n', '< H27\n', '< H28\n', '< H29\n', '< H30\n', '< H31\n', '< H32\n', '< H33\n', '< H\n', '< Iterate: iterated over 36 atoms.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>edit id 3\n', '< Selector: selection "pk1" defined with 1 atoms.\n', '< PyMOL>replace N,3,3\n', '< Remove: eliminated 1 atoms in model "small01".\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n', '< PyMOL>origin pept,object=pept\n', '< PyMOL>rotate x,-45,object=pept\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -18.391, 12.126]\n', '< cmd.extent: max: [ 8.919, -1.236, 29.153]\n', '< PyMOL>reset\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -18.391, 12.126]\n', '< cmd.extent: max: [ 8.919, -1.236, 29.153]\n', '< PyMOL>rotate x,45,pept\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>get_dihedral 1/n,1/ca,1/c,1/o\n', '< cmd.get_dihedral: -8.586 degrees.\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n', '< PyMOL>set_dihedral 1/n,1/ca,1/c,1/o,180\n', '< SetDihedral: adjusted to 180.000\n', '< PyMOL>get_dihedral 1/n,1/ca,1/c,1/o\n', '< cmd.get_dihedral: 180.000 degrees.\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -1.282, -17.809, 6.314]\n', '< cmd.extent: max: [ 10.270, -4.939, 29.070]\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>remove not id 3\n', '< Remove: eliminated 35 atoms in model "small01".\n', '< PyMOL>zoom\n', '< PyMOL>count_atoms\n', '< count_atoms: 1 atoms\n', '< PyMOL>set_geometry (id 3),4,4\n', '< PyMOL>h_add\n', '< PyMOL>count_atoms\n', '< count_atoms: 5 atoms\n', '< PyMOL>remove hydro\n', '< Remove: eliminated 4 atoms in model "small01".\n', '< PyMOL>set_geometry (id 3),3,3\n', '< PyMOL>h_add\n', '< PyMOL>count_atoms\n', '< count_atoms: 4 atoms\n', '< PyMOL>remove hydro\n', '< Remove: eliminated 3 atoms in model "small01".\n', '< PyMOL>set_geometry (id 3),2,2\n', '< PyMOL>h_add\n', '< PyMOL>count_atoms\n', '< count_atoms: 3 atoms\n', '< PyMOL>remove hydro\n', '< Remove: eliminated 2 atoms in model "small01".\n', '< PyMOL>set_geometry (id 3),4,2\n', '< PyMOL>h_add\n', '< PyMOL>count_atoms\n', '< count_atoms: 3 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>alter (all),resi = (999-int(resi)-ID/4)\n', '< Alter: modified 107 atoms.\n', '< PyMOL>sort\n', '< PyMOL>show sph,(byres id 10)\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 210 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n', '< PyMOL>cmd.edit("(pept`95)",pkresi=1)\n', '< PyMOL>cmd.push_undo("pept",1)\n', '< PyMOL>cmd.edit("(pept`10)",pkresi=1)\n', '< PyMOL>cmd.push_undo("pept",1)\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.124, -31.391, 12.760]\n', '< cmd.extent: max: [ 8.919, -12.759, 27.469]\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>cmd.edit("(small01`3)",pkresi=1)\n', '< PyMOL>cmd.edit_mode()\n', '< PyMOL>cmd.push_undo("small01",1)\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -15.344, -2.159, -3.683]\n', '< cmd.extent: max: [ -3.585, 2.683, 3.171]\n', '< PyMOL>undo\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -8.369, -2.595, -4.337]\n', '< cmd.extent: max: [ 2.256, 2.247, 2.517]\n', '< PyMOL>dele all\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -8.369, -2.595, -4.337]\n', '< cmd.extent: max: [ 2.256, 2.247, 2.517]\n', "< PyMOL>cmd.set('valence','0.0500')\n", '< PyMOL>cmd.edit_mode()\n', '< PyMOL>cmd.push_undo("small01",1)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.020101367, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.020101367, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.060304098, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.020101367, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.020101367, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.020101367, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.020101367, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202733, -0.120608196, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202755, -0.160811022, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.060304098, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202733, -0.120608196, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202755, -0.160811022, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202733, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.060304098, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.060304098, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202733, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.060304098, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202733, -0.120608196, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.060304098, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.020101367, -0.020101367, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.060304098, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.060304098, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202733, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.040202733, -0.160810933, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.000000000, -0.040202733, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", -0.020101367, 0.000000000, 0.000000000,1,1,0)\n', '< PyMOL>cmd.translate_atom("/small01////C`", 0.020101367, 0.000000000, 0.000000000,1,1,0)\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -8.369, -3.896, -4.337]\n', '< cmd.extent: max: [ 2.256, 2.247, 2.517]\n', '< PyMOL>undo\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -8.369, -2.595, -4.337]\n', '< cmd.extent: max: [ 2.256, 2.247, 2.517]\n', '< PyMOL>dele all\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>get_extent\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n', '< PyMOL>load dat/pept.pdb,sav\n', '< CmdLoad: "dat/pept.pdb" loaded as "sav".\n', '< PyMOL>alter_state 1,(pept),x=1;y=2;z=3;\n', '< AlterState: modified 107 atom coordinate states.\n', '< PyMOL>rebuild\n', '< PyMOL>get_extent pept\n', '< cmd.extent: min: [ 1.000, 2.000, 3.000]\n', '< cmd.extent: max: [ 1.000, 2.000, 3.000]\n', '< PyMOL>update pept,sav\n', '< Update: coordinates updated for 107 atoms.\n', '< PyMOL>get_extent pept\n', '< cmd.extent: min: [ -5.188, -20.331, 13.157]\n', '< cmd.extent: max: [ 8.919, 0.863, 27.058]\n'] run_tests: C1050fitting... run_tests: C1050fitting.log DIFFERS over about 77 lines: ['1,153d0\n', '< the 1st random number should be 0.052\n', '< otherwise the rest of the test is meaningless...\n', '< \n', '< Selector: found 107 atoms.\n', '< Executive: object "trg" created.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< Selector: found 107 atoms.\n', '< AlterState: modified 107 atom coordinate states.\n', '< 0.080\n', '< 1 0.073 0.080 0.198\n', '< 2 0.058 0.080 0.220\n', '< 3 0.053 0.080 0.320\n', '< 4 0.088 0.080 0.105\n', '< 5 0.052 0.080 0.138\n', '< 6 0.081 0.080 0.147\n', '< 7 0.035 0.080 1.396\n', '< 8 0.059 0.080 0.108\n', '< 9 0.098 0.080 0.113\n', '< 10 0.072 0.080 0.121\n', '< 11 0.056 0.080 0.119\n', '< 12 0.075 0.080 0.203\n', '< 13 0.078 0.080 0.341\n', '< 0.080\n', '< 1 0.073 0.080 0.198\n', '< 2 0.058 0.080 0.220\n', '< 3 0.053 0.080 0.320\n', '< 4 0.088 0.080 0.105\n', '< 5 0.052 0.080 0.138\n', '< 6 0.081 0.080 0.147\n', '< 7 0.035 0.080 1.396\n', '< 8 0.059 0.080 0.108\n', '< 9 0.098 0.080 0.113\n', '< 10 0.072 0.080 0.121\n', '< 11 0.056 0.080 0.119\n', '< 12 0.075 0.080 0.203\n', '< 13 0.078 0.080 0.341\n', '< 0.080\n', '< -1.000 0.274 0.302 0.275 0.256 0.305 0.351 0.266 0.260\n', '< 0.329\n', '< -1.000 0.372 0.356 0.340 0.338 0.346 0.346 0.355 0.354\n', '< 0.358\n', '< -1.000 1.672 1.481 0.691 1.952 2.292 1.546 1.670 1.143\n', '< 1.372\n', '< 0.274 -1.000 0.305 0.308 0.227 0.329 0.320 0.309 0.269\n', '< 0.266\n', '< 0.372 -1.000 0.355 0.364 0.357 0.341 0.346 0.358 0.358\n', '< 0.357\n', '< 1.672 -1.000 0.740 1.325 0.924 0.842 1.237 0.692 0.872\n', '< 0.853\n', '< 0.302 0.305 -1.000 0.223 0.254 0.289 0.376 0.329 0.303\n', '< 0.355\n', '< 0.356 0.355 -1.000 0.363 0.338 0.343 0.331 0.362 0.343\n', '< 0.348\n', '< 1.481 0.740 -1.000 1.077 0.487 1.003 0.555 0.982 0.837\n', '< 0.963\n', '< 0.275 0.308 0.223 -1.000 0.211 0.325 0.358 0.303 0.271\n', '< 0.359\n', '< 0.340 0.364 0.363 -1.000 0.344 0.355 0.366 0.361 0.353\n', '< 0.356\n', '< 0.691 1.325 1.077 -1.000 1.309 1.795 0.834 1.378 0.874\n', '< 1.113\n', '< 0.256 0.227 0.254 0.211 -1.000 0.259 0.234 0.263 0.240\n', '< 0.300\n', '< 0.338 0.357 0.338 0.344 -1.000 0.346 0.334 0.344 0.338\n', '< 0.341\n', '< 1.952 0.924 0.487 1.309 -1.000 0.802 0.783 1.259 1.299\n', '< 1.292\n', '< 0.305 0.329 0.289 0.325 0.259 -1.000 0.280 0.359 0.292\n', '< 0.304\n', '< 0.346 0.341 0.343 0.355 0.346 -1.000 0.334 0.356 0.340\n', '< 0.346\n', '< 2.292 0.842 1.003 1.795 0.802 -1.000 1.352 1.063 1.420\n', '< 1.249\n', '< 0.351 0.320 0.376 0.358 0.234 0.280 -1.000 0.365 0.321\n', '< 0.301\n', '< 0.346 0.346 0.331 0.366 0.334 0.334 -1.000 0.352 0.357\n', '< 0.350\n', '< 1.546 1.237 0.555 0.834 0.783 1.352 -1.000 1.471 1.244\n', '< 1.364\n', '< 0.266 0.309 0.329 0.303 0.263 0.359 0.365 -1.000 0.262\n', '< 0.342\n', '< 0.355 0.358 0.362 0.361 0.344 0.356 0.352 -1.000 0.351\n', '< 0.350\n', '< 1.670 0.692 0.982 1.378 1.259 1.063 1.471 -1.000 0.748\n', '< 0.473\n', '< 0.260 0.269 0.303 0.271 0.240 0.292 0.321 0.262 -1.000\n', '< 0.354\n', '< 0.354 0.358 0.343 0.353 0.338 0.340 0.357 0.351 -1.000\n', '< 0.354\n', '< 1.143 0.872 0.837 0.874 1.299 1.420 1.244 0.748 -1.000\n', '< 0.526\n', '< 0.329 0.266 0.355 0.359 0.300 0.304 0.301 0.342 0.354\n', '< -1.000\n', '< 0.358 0.357 0.348 0.356 0.341 0.346 0.350 0.350 0.354\n', '< -1.000\n', '< 1.372 0.853 0.963 1.113 1.292 1.249 1.364 0.473 0.526\n', '< -1.000\n', '< PyMOL>intra_fit (trg),10\n', '< cmd.intra_fit: 0.358 in state 1 vs state 10\n', '< cmd.intra_fit: 0.357 in state 2 vs state 10\n', '< cmd.intra_fit: 0.348 in state 3 vs state 10\n', '< cmd.intra_fit: 0.356 in state 4 vs state 10\n', '< cmd.intra_fit: 0.341 in state 5 vs state 10\n', '< cmd.intra_fit: 0.346 in state 6 vs state 10\n', '< cmd.intra_fit: 0.350 in state 7 vs state 10\n', '< cmd.intra_fit: 0.350 in state 8 vs state 10\n', '< cmd.intra_fit: 0.354 in state 9 vs state 10\n', '< PyMOL>intra_fit (trg and resi 1),10\n', '< cmd.intra_fit: 0.329 in state 1 vs state 10\n', '< cmd.intra_fit: 0.266 in state 2 vs state 10\n', '< cmd.intra_fit: 0.355 in state 3 vs state 10\n', '< cmd.intra_fit: 0.359 in state 4 vs state 10\n', '< cmd.intra_fit: 0.300 in state 5 vs state 10\n', '< cmd.intra_fit: 0.304 in state 6 vs state 10\n', '< cmd.intra_fit: 0.301 in state 7 vs state 10\n', '< cmd.intra_fit: 0.342 in state 8 vs state 10\n', '< cmd.intra_fit: 0.354 in state 9 vs state 10\n', '< PyMOL>intra_rms (trg),10\n', '< cmd.intra_rms: 0.358 in state 1 vs state 10\n', '< cmd.intra_rms: 0.357 in state 2 vs state 10\n', '< cmd.intra_rms: 0.348 in state 3 vs state 10\n', '< cmd.intra_rms: 0.356 in state 4 vs state 10\n', '< cmd.intra_rms: 0.341 in state 5 vs state 10\n', '< cmd.intra_rms: 0.346 in state 6 vs state 10\n', '< cmd.intra_rms: 0.350 in state 7 vs state 10\n', '< cmd.intra_rms: 0.350 in state 8 vs state 10\n', '< cmd.intra_rms: 0.354 in state 9 vs state 10\n', '< PyMOL>intra_rms_cur (trg),10\n', '< cmd.intra_rms_cur: 1.372 in state 1 vs state 10\n', '< cmd.intra_rms_cur: 0.853 in state 2 vs state 10\n', '< cmd.intra_rms_cur: 0.963 in state 3 vs state 10\n', '< cmd.intra_rms_cur: 1.113 in state 4 vs state 10\n', '< cmd.intra_rms_cur: 1.292 in state 5 vs state 10\n', '< cmd.intra_rms_cur: 1.249 in state 6 vs state 10\n', '< cmd.intra_rms_cur: 1.364 in state 7 vs state 10\n', '< cmd.intra_rms_cur: 0.473 in state 8 vs state 10\n', '< cmd.intra_rms_cur: 0.526 in state 9 vs state 10\n'] run_tests: C1060controlling... run_tests: C1060controlling.log DIFFERS over about 7 lines: ['1,13d0\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n', '< None\n'] run_tests: C1070exporting... run_tests: C1070exporting.log DIFFERS over about 29 lines: ['1,58d0\n', '< PyMOL>load dat/small01.mol\n', '< ExecutiveLoad: "dat/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>save tmp/small01.mol\n', '< chempy: writing "tmp/small01.mol".\n', '< Save: wrote "tmp/small01.mol".\n', '< PyMOL>save tmp/small01.pkl\n', '< Save: wrote "tmp/small01.pkl".\n', '< PyMOL>save tmp/small02.pkl,format=pkla\n', '< Save: wrote "tmp/small02.pkl".\n', '< PyMOL>save tmp/small01.mmod\n', '< chempy: writing "tmp/small01.mmod".\n', '< Save: wrote "tmp/small01.mmod".\n', '< PyMOL>save tmp/small01.mmd\n', '< chempy: writing "tmp/small01.mmd".\n', '< Save: wrote "tmp/small01.mmd".\n', '< PyMOL>save tmp/small01.pdb\n', '< Save: wrote "tmp/small01.pdb".\n', '< PyMOL>multisave tmp/small01.pmo,small01\n', "< Multisave: wrote 1 object(s) to 'tmp/small01.pmo'.\n", '< PyMOL>dele all\n', '< PyMOL>load tmp/small01.pmo\n', '< CmdLoad: "tmp/small01.pmo" loaded as "small01".\n', '< PyMOL>dele all\n', '< PyMOL>load tmp/small01.pdb\n', '< CmdLoad: "tmp/small01.pdb" loaded as "small01".\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load tmp/small01.mmd\n', '< CmdLoad: "tmp/small01.mmd" loaded as "small01".\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load tmp/small01.mmod\n', '< CmdLoad: "tmp/small01.mmod" loaded as "small01".\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load tmp/small01.pkl\n', '< Executive: object "small01" created.\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load tmp/small02.pkl\n', '< Executive: object "small02" created.\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>dele all\n', '< PyMOL>load tmp/small01.mol\n', '< ExecutiveLoad: "tmp/small01.mol" loaded as "small01", through state 1.\n', '< PyMOL>count_atoms\n', '< count_atoms: 36 atoms\n', '< PyMOL>feedback disable,ray,details\n', '< PyMOL>ray\n', '< PyMOL>png tmp/tmp.png\n', '< ScenePNG: wrote 640x480 pixel image to file "tmp/tmp.png".\n', '< PyMOL>load_png tmp/tmp.png\n', "< Scene: loaded image from 'tmp/tmp.png'.\n"] run_tests: C1080isomore... run_tests: C1080isomore.log DIFFERS over about 142 lines: ['1,283d0\n', '< PyMOL>load dat/pept.pdb,obj\n', '< CmdLoad: "dat/pept.pdb" loaded as "obj".\n', '< PyMOL>load dat/il2.pdb,obj\n', '< CmdLoad: "dat/il2.pdb" appended into object "obj", state 2.\n', '< PyMOL>load dat/3al1.pdb,obj,state=4\n', '< HEADER STRUCTURAL PROTEIN 26-OCT-98 3AL1\n', '< TITLE DESIGNED PEPTIDE ALPHA-1, RACEMIC P1BAR FORM\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: D, L-ALPHA-1;\n', '< COMPND 3 CHAIN: A, B;\n', '< COMPND 4 ENGINEERED: YES;\n', '< COMPND 5 OTHER_DETAILS: N TERMINI ARE ACETYLATED\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 2 symmetry operators.\n', '< CmdLoad: "dat/3al1.pdb" appended into object "obj", state 4.\n', '< PyMOL>map_new tst1,gaussian,1.0,state=-3\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 2870 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.049654 & stdev = 0.212673.\n', '< Executive: object "tst1" created.\n', '< PyMOL>map_new tst2,gaussian,1.0,state=2\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 2084 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.074412 & stdev = 0.213934.\n', '< Executive: object "tst2" created.\n', '< PyMOL>map_new tst2,gaussian,1.0,state=4\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 679 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.076772 & stdev = 0.351954.\n', '< PyMOL>map_new tst3,gaussian,1.0,state=-4\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 107 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.003829 & stdev = 0.054910.\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 2084 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.036107 & stdev = 0.153608.\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 0 atom positions.\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 679 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.009718 & stdev = 0.133319.\n', '< Executive: object "tst3" created.\n', '< PyMOL>map_new tst4,gaussian,1.0,state=3\n', '< Executive: object "tst4" created.\n', '< PyMOL>map_new tst5,gaussian,1.0,state=4\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 679 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.076772 & stdev = 0.351954.\n', '< Executive: object "tst5" created.\n', '< PyMOL>map_new tst6,gaussian,1.0\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 107 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.079928 & stdev = 0.237612.\n', '< Executive: object "tst6" created.\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 2084 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.074412 & stdev = 0.213934.\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 679 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.076772 & stdev = 0.351954.\n', '< PyMOL>frame 4\n', '< PyMOL>isomesh m8,tst2,state=-1\n', '< Executive: object "m8" created.\n', '< Isomesh: created "m8", setting level to 1.000\n', '< PyMOL>frame 3\n', '< PyMOL>isomesh m9,tst1,state=-1,source_state=1\n', '< Executive: object "m9" created.\n', '< Isomesh: created "m9", setting level to 1.000\n', '< PyMOL>isomesh m7,tst1,state=4,source_state=1\n', '< Executive: object "m7" created.\n', '< Isomesh: created "m7", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m8".\n', '< IsosurfVolume: Surface generated using 6969 lines.\n', '< ObjectMesh: updating "m9".\n', '< IsosurfVolume: Surface generated using 37701 lines.\n', '< ObjectMesh: updating "m7".\n', '< IsosurfVolume: Surface generated using 37701 lines.\n', '< PyMOL>isomesh m7,tst6,state=3,source_state=1\n', '< Isomesh: created "m7", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m7".\n', '< IsosurfVolume: Surface generated using 2975 lines.\n', '< PyMOL>isomesh m7,tst5,state=2,source_state=4\n', '< Isomesh: created "m7", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m7".\n', '< IsosurfVolume: Surface generated using 6969 lines.\n', '< PyMOL>isomesh m7,tst2,state=1,source_state=2\n', '< Isomesh: created "m7", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m7".\n', '< IsosurfVolume: Surface generated using 29064 lines.\n', '< PyMOL>isomesh m1,tst1\n', '< Executive: object "m1" created.\n', '< Isomesh: created "m1", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m1".\n', '< IsosurfVolume: Surface generated using 37701 lines.\n', '< PyMOL>isomesh m2,tst2\n', '< Executive: object "m2" created.\n', '< Isomesh: created "m2", setting level to 1.000\n', '< Isomesh: created "m2", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m2".\n', '< IsosurfVolume: Surface generated using 29064 lines.\n', '< ObjectMesh: updating "m2".\n', '< IsosurfVolume: Surface generated using 6969 lines.\n', '< PyMOL>isomesh m3,tst3\n', '< Executive: object "m3" created.\n', '< Isomesh: created "m3", setting level to 1.000\n', '< Isomesh: created "m3", setting level to 1.000\n', '< Isomesh: created "m3", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m3".\n', '< IsosurfVolume: Surface generated using 3487 lines.\n', '< ObjectMesh: updating "m3".\n', '< IsosurfVolume: Surface generated using 29781 lines.\n', '< ObjectMesh: updating "m3".\n', '< IsosurfVolume: Surface generated using 9095 lines.\n', '< PyMOL>isomesh m4,tst4\n', '< PyMOL>refresh\n', '< PyMOL>isomesh m5a,tst5,source_state=1\n', '< Isomesh-Warning: state 1 not present in map "tst5".\n', '< PyMOL>refresh\n', '< PyMOL>isomesh m5b,tst5\n', '< Executive: object "m5b" created.\n', '< Isomesh: created "m5b", setting level to 1.000\n', '< PyMOL>isomesh m6,tst6\n', '< Executive: object "m6" created.\n', '< Isomesh: created "m6", setting level to 1.000\n', '< Isomesh: created "m6", setting level to 1.000\n', '< Isomesh: created "m6", setting level to 1.000\n', '< PyMOL>isosurface s1,tst1\n', '< Executive: object "s1" created.\n', '< Isosurface: created "s1", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m5b".\n', '< IsosurfVolume: Surface generated using 6969 lines.\n', '< ObjectMesh: updating "m6".\n', '< IsosurfVolume: Surface generated using 2975 lines.\n', '< ObjectMesh: updating "m6".\n', '< IsosurfVolume: Surface generated using 29064 lines.\n', '< ObjectMesh: updating "m6".\n', '< IsosurfVolume: Surface generated using 6969 lines.\n', '< ObjectSurface: updating "s1".\n', '< TetsurfVolume: Surface generated using 106172 triangles.\n', '< PyMOL>isosurface s2,tst2\n', '< Executive: object "s2" created.\n', '< Isosurface: created "s2", setting level to 1.000\n', '< Isosurface: created "s2", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectSurface: updating "s2".\n', '< TetsurfVolume: Surface generated using 82044 triangles.\n', '< ObjectSurface: updating "s2".\n', '< TetsurfVolume: Surface generated using 18780 triangles.\n', '< PyMOL>isosurface s3,tst3\n', '< Executive: object "s3" created.\n', '< Isosurface: created "s3", setting level to 1.000\n', '< Isosurface: created "s3", setting level to 1.000\n', '< Isosurface: created "s3", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectSurface: updating "s3".\n', '< TetsurfVolume: Surface generated using 10220 triangles.\n', '< ObjectSurface: updating "s3".\n', '< TetsurfVolume: Surface generated using 84672 triangles.\n', '< ObjectSurface: updating "s3".\n', '< TetsurfVolume: Surface generated using 25480 triangles.\n', '< PyMOL>isosurface s4,tst4\n', '< PyMOL>refresh\n', '< PyMOL>isosurface s4,tst5\n', '< Executive: object "s4" created.\n', '< Isosurface: created "s4", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectSurface: updating "s4".\n', '< TetsurfVolume: Surface generated using 18780 triangles.\n', '< PyMOL>isosurface s5a,tst5,source_state=1\n', '< Isosurface-Warning: state 1 not present in map "tst5".\n', '< PyMOL>refresh\n', '< PyMOL>isosurface s5b,tst5\n', '< Executive: object "s5b" created.\n', '< Isosurface: created "s5b", setting level to 1.000\n', '< PyMOL>isosurface s6,tst6\n', '< Executive: object "s6" created.\n', '< Isosurface: created "s6", setting level to 1.000\n', '< Isosurface: created "s6", setting level to 1.000\n', '< Isosurface: created "s6", setting level to 1.000\n', '< PyMOL>isosurface s7,tst1,state=4,source_state=1\n', '< Executive: object "s7" created.\n', '< Isosurface: created "s7", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectSurface: updating "s5b".\n', '< TetsurfVolume: Surface generated using 18780 triangles.\n', '< ObjectSurface: updating "s6".\n', '< TetsurfVolume: Surface generated using 8492 triangles.\n', '< ObjectSurface: updating "s6".\n', '< TetsurfVolume: Surface generated using 82044 triangles.\n', '< ObjectSurface: updating "s6".\n', '< TetsurfVolume: Surface generated using 18780 triangles.\n', '< ObjectSurface: updating "s7".\n', '< TetsurfVolume: Surface generated using 106172 triangles.\n', '< PyMOL>isosurface s7,tst6,state=3,source_state=1\n', '< Isosurface: created "s7", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectSurface: updating "s7".\n', '< TetsurfVolume: Surface generated using 8492 triangles.\n', '< PyMOL>isosurface s7,tst5,state=2,source_state=4\n', '< Isosurface: created "s7", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectSurface: updating "s7".\n', '< TetsurfVolume: Surface generated using 18780 triangles.\n', '< PyMOL>isosurface s7,tst2,state=1,source_state=2\n', '< Isosurface: created "s7", setting level to 1.000\n', '< PyMOL>refresh\n', '< ObjectSurface: updating "s7".\n', '< TetsurfVolume: Surface generated using 82044 triangles.\n', '< PyMOL>frame 4\n', '< PyMOL>isosurface s8,tst2,state=-1\n', '< Executive: object "s8" created.\n', '< Isosurface: created "s8", setting level to 1.000\n', '< PyMOL>frame 3\n', '< PyMOL>isosurface s9,tst1,state=-1,source_state=1\n', '< Executive: object "s9" created.\n', '< Isosurface: created "s9", setting level to 1.000\n', '< PyMOL>reinit\n', '< PyMOL>load dat/pept.pdb,obj\n', '< CmdLoad: "dat/pept.pdb" loaded as "obj".\n', '< PyMOL>alter all, b=10\n', '< Alter: modified 107 atoms.\n', '< PyMOL>map_new m1, gaussian, 1.0, obj\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 107 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.079569 & stdev = 0.336150.\n', '< Executive: object "m1" created.\n', '< PyMOL>map_new m2, gaussian, 1.0, obj, clamp=[-5, 5]\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 107 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.079569 & stdev = 0.336150.\n', '< Executive: object "m2" created.\n', '< PyMOL>map_new m3, gaussian, 1.0, obj, clamp=[-3, 3]\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 107 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.079569 & stdev = 0.336150.\n', '< Executive: object "m3" created.\n', '< PyMOL>map_new m4, gaussian, 1.0, obj, clamp=[-2, 2]\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 107 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.079569 & stdev = 0.336150.\n', '< Executive: object "m4" created.\n', '< PyMOL>map_new m5, gaussian, 1.0, obj, clamp=[-0.9, 0.9]\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 107 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.079569 & stdev = 0.336150.\n', '< Executive: object "m5" created.\n', '< PyMOL>isosurface s1, m1\n', '< Executive: object "s1" created.\n', '< Isosurface: created "s1", setting level to 1.000\n', '< PyMOL>isosurface s2, m2\n', '< Executive: object "s2" created.\n', '< Isosurface: created "s2", setting level to 1.000\n', '< PyMOL>isosurface s3, m3\n', '< Executive: object "s3" created.\n', '< Isosurface: created "s3", setting level to 1.000\n', '< PyMOL>isosurface s4, m4\n', '< Executive: object "s4" created.\n', '< Isosurface: created "s4", setting level to 1.000\n', '< PyMOL>isosurface s5, m5\n', '< Executive: object "s5" created.\n', '< Isosurface: created "s5", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< ObjectSurface: updating "s1".\n', '< TetsurfVolume: Surface generated using 7120 triangles.\n', '< ObjectSurface: updating "s2".\n', '< TetsurfVolume: Surface generated using 7120 triangles.\n', '< ObjectSurface: updating "s3".\n', '< TetsurfVolume: Surface generated using 7120 triangles.\n', '< ObjectSurface: updating "s4".\n', '< TetsurfVolume: Surface generated using 7120 triangles.\n', '< ObjectSurface: updating "s5".\n', '< TetsurfVolume: Surface generated using 0 triangles.\n', '< RayRenderTest: obtained 28646 graphics primitives.\n', '< PyMOL>print "END-LOG"\n'] run_tests: C1090coulomb... run_tests: C1090coulomb.log DIFFERS over about 23 lines: ['1,45d0\n', '< PyMOL>set auto_zoom,0\n', '< Setting: auto_zoom set to 0.\n', '< PyMOL>fragment phe\n', '< Executive: object "phe" created.\n', '< PyMOL>map_new t1,coulomb,0.5,phe,5\n', '< ObjectMap: Map created.\n', '< SelectorMapCoulomb: Total charge is 0.000 for 20 points (20 atoms).\n', '< SelectorMapCoulomb: Evaluating Coulomb potential for grid (no cutoff)...\n', '< Executive: object "t1" created.\n', '< PyMOL>fragment phe,phe\n', '< CmdLoad: ChemPy-model appended into object "phe", state 2.\n', '< PyMOL>map_new t2,coulomb,0.5,phe,5\n', '< ObjectMap: Map created.\n', '< SelectorMapCoulomb: Total charge is 0.000 for 20 points (20 atoms).\n', '< SelectorMapCoulomb: Evaluating Coulomb potential for grid (no cutoff)...\n', '< Executive: object "t2" created.\n', '< ObjectMap: Map created.\n', '< SelectorMapCoulomb: Total charge is 0.000 for 20 points (20 atoms).\n', '< SelectorMapCoulomb: Evaluating Coulomb potential for grid (no cutoff)...\n', '< PyMOL>map_new t3,coulomb,0.5,phe,5,state=-3\n', '< ObjectMap: Map created.\n', '< SelectorMapCoulomb: Total charge is 0.000 for 40 points (40 atoms).\n', '< SelectorMapCoulomb: Evaluating Coulomb potential for grid (no cutoff)...\n', '< Executive: object "t3" created.\n', '< PyMOL>isomesh m1,t1,5\n', '< Executive: object "m1" created.\n', '< Isomesh: created "m1", setting level to 5.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m1".\n', '< IsosurfVolume: Surface generated using 3351 lines.\n', '< PyMOL>isomesh m2,t2,5\n', '< Executive: object "m2" created.\n', '< Isomesh: created "m2", setting level to 5.000\n', '< Isomesh: created "m2", setting level to 5.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m2".\n', '< IsosurfVolume: Surface generated using 3351 lines.\n', '< ObjectMesh: updating "m2".\n', '< IsosurfVolume: Surface generated using 3351 lines.\n', '< PyMOL>isomesh m3,t3,5\n', '< Executive: object "m3" created.\n', '< Isomesh: created "m3", setting level to 5.000\n', '< PyMOL>refresh\n', '< ObjectMesh: updating "m3".\n', '< IsosurfVolume: Surface generated using 3351 lines.\n'] run_tests: C1095slice... run_tests: C1095slice.log DIFFERS over about 33 lines: ['1,65d0\n', '< PyMOL>set auto_zoom,0\n', '< Setting: auto_zoom set to 0.\n', '< PyMOL>fragment phe\n', '< Executive: object "phe" created.\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 31 graphics primitives.\n', '< PyMOL>map_new pot,coulomb,0.5,phe,5\n', '< ObjectMap: Map created.\n', '< SelectorMapCoulomb: Total charge is 0.000 for 20 points (20 atoms).\n', '< SelectorMapCoulomb: Evaluating Coulomb potential for grid (no cutoff)...\n', '< Executive: object "pot" created.\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 31 graphics primitives.\n', '< PyMOL>ramp_new ramp, pot\n', '< Executive: object "ramp" created.\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 116 graphics primitives.\n', '< PyMOL>slice_new slice, pot\n', '< Executive: object "slice" created.\n', '< SliceMap: created "slice".\n', '< PyMOL>color ramp,slice\n', '< Executive: Colored 1 object.\n', '< PyMOL>set ray_default_renderer,2\n', '< Setting: ray_default_renderer set to 2.\n', '< PyMOL>refresh\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 5780 graphics primitives.\n', '< PyMOL>set slice_track_camera, on\n', '< Setting: slice_track_camera set to on.\n', '< PyMOL>turn x,45\n', '< PyMOL>turn z,45\n', '< PyMOL>refresh\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 7337 graphics primitives.\n', '< PyMOL>set slice_track_camera,off\n', '< Setting: slice_track_camera set to off.\n', '< PyMOL>refresh\n', '< PyMOL>reset\n', '< PyMOL>turn y,45\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 7337 graphics primitives.\n', '< PyMOL>set slice_height_map\n', '< Setting: slice_height_map set to on.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 7337 graphics primitives.\n', '< PyMOL>set slice_grid, 1\n', '< Setting: slice_grid set to 1.00000.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 716 graphics primitives.\n', '< PyMOL>set slice_grid, 0.2\n', '< Setting: slice_grid set to 0.20000.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 16622 graphics primitives.\n', '< PyMOL>ramp_new ramp, pot, color=sludge\n', '< Executive: object "ramp" created.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 16656 graphics primitives.\n', '< PyMOL>ramp_new ramp, pot, color=rainbow\n', '< Executive: object "ramp" created.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 16656 graphics primitives.\n', '< PyMOL>ramp_new ramp, pot, color=rainbow, selection=none\n', '< Executive: object "ramp" created.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 16642 graphics primitives.\n'] run_tests: C1100do... run_tests: C1100do.log DIFFERS over about 40 lines: ['1,79d0\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>show sticks,pept\n', '< PyMOL>set ray_default_renderer=2\n', '< Setting: ray_default_renderer set to 2.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 166 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/il2.pdb\n', '< CmdLoad: "dat/il2.pdb" loaded as "il2".\n', '< PyMOL>show dots,il2\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 111078 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>load dat/3al1.pdb\n', '< HEADER STRUCTURAL PROTEIN 26-OCT-98 3AL1\n', '< TITLE DESIGNED PEPTIDE ALPHA-1, RACEMIC P1BAR FORM\n', '< COMPND MOL_ID: 1;\n', '< COMPND 2 MOLECULE: D, L-ALPHA-1;\n', '< COMPND 3 CHAIN: A, B;\n', '< COMPND 4 ENGINEERED: YES;\n', '< COMPND 5 OTHER_DETAILS: N TERMINI ARE ACETYLATED\n', '< ObjectMolecule: Read secondary structure assignments.\n', '< ObjectMolecule: Read crystal symmetry information.\n', '< Symmetry: Found 2 symmetry operators.\n', '< CmdLoad: "dat/3al1.pdb" loaded as "3al1".\n', '< PyMOL>show sph,3al1\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 1945 graphics primitives.\n', '< PyMOL>dele all\n', '< PyMOL>fragment arg\n', '< Executive: object "arg" created.\n', '< PyMOL>ray\n', '< RayRenderTest: obtained 42 graphics primitives.\n', '< PyMOL>for a in range(1,10):\\\n', '< PyMOL> print a\\\n', '< PyMOL> print a+10\n', '< 1\n', '< 11\n', '< 2\n', '< 12\n', '< 3\n', '< 13\n', '< 4\n', '< 14\n', '< 5\n', '< 15\n', '< 6\n', '< 16\n', '< 7\n', '< 17\n', '< 8\n', '< 18\n', '< 9\n', '< 19\n', '< PyMOL>for a in range(11,21):\\\n', '< PyMOL> print a\\\n', '< PyMOL> print a+10\n', '< 11\n', '< 21\n', '< 12\n', '< 22\n', '< 13\n', '< 23\n', '< 14\n', '< 24\n', '< 15\n', '< 25\n', '< 16\n', '< 26\n', '< 17\n', '< 27\n', '< 18\n', '< 28\n', '< 19\n', '< 29\n', '< 20\n', '< 30\n', '< PyMOL> \n'] run_tests: C1110matrix_mode... run_tests: C1110matrix_mode.log DIFFERS over about 127 lines: ['1,253d0\n', '< PyMOL>reinit\n', '< PyMOL>set matrix_mode, 0\n', '< Setting: matrix_mode set to 0.\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>remove not resi 5\n', '< Remove: eliminated 97 atoms in model "pept".\n', '< PyMOL>iterate_state 1,all,print "%8.3f %8.3f %8.3f"%(x,y,z)\n', '< -0.135 -5.634 21.235\n', '< -0.006 -4.205 21.043\n', '< -1.408 -3.636 20.918\n', '< -2.092 -3.870 19.914\n', '< 0.791 -3.871 19.783\n', '< 0.939 -2.396 19.549\n', '< 0.582 -1.619 18.499\n', '< 1.470 -1.542 20.495\n', '< 1.431 -0.303 20.038\n', '< 0.896 -0.322 18.831\n', '< IterateState: iterated over 10 atom coordinate states.\n', '< PyMOL>rotate x, 53, object=pept\n', '< PyMOL>rotate y, 27, object=pept\n', '< PyMOL>rotate z, 6, object=pept\n', '< PyMOL>translate [1,2,3], object=pept\n', '< PyMOL>save tmp/C1110a.pdb\n', '< Save: wrote "tmp/C1110a.pdb".\n', '< PyMOL>for a in open("tmp/C1110a.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 2.647 -5.977 27.838 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 3.119 -4.909 28.693 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 2.002 -4.582 29.667 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 0.969 -4.026 29.273 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 3.477 -3.657 27.893 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 3.964 -2.526 28.750 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 3.506 -1.261 28.902 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 5.025 -2.657 29.624 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 5.197 -1.522 30.278 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 4.288 -0.660 29.860 1.00 29.87 E N \n', '< END\n', '< PyMOL>save tmp/C1110b.pdb, ref=pept\n', '< Save: wrote "tmp/C1110b.pdb".\n', '< PyMOL>for a in open("tmp/C1110b.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 -0.135 -5.634 21.235 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 -0.006 -4.205 21.043 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 -1.408 -3.636 20.918 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 -2.092 -3.870 19.914 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 0.791 -3.871 19.783 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 0.939 -2.396 19.549 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 0.582 -1.619 18.499 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 1.470 -1.542 20.495 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 1.431 -0.303 20.038 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 0.896 -0.322 18.831 1.00 29.87 E N \n', '< END\n', '< PyMOL>load dat/pept.pdb, tmp\n', '< CmdLoad: "dat/pept.pdb" loaded as "tmp".\n', '< PyMOL>remove tmp and not resi 5\n', '< Remove: eliminated 97 atoms in model "tmp".\n', '< PyMOL>matrix_transfer pept, tmp\n', '< PyMOL>save tmp/C1110c.pdb, tmp,\n', '< Save: wrote "tmp/C1110c.pdb".\n', '< PyMOL>for a in open("tmp/C1110c.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 2.647 -5.977 27.838 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 3.119 -4.909 28.693 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 2.002 -4.582 29.667 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 0.969 -4.026 29.273 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 3.477 -3.657 27.893 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 3.964 -2.526 28.750 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 3.506 -1.261 28.902 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 5.025 -2.657 29.624 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 5.197 -1.522 30.278 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 4.288 -0.660 29.860 1.00 29.87 E N \n', '< END\n', '< PyMOL>save tmp/C1110d.pdb, tmp, ref=tmp\n', '< Save: wrote "tmp/C1110d.pdb".\n', '< PyMOL>for a in open("tmp/C1110d.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 -0.135 -5.634 21.235 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 -0.006 -4.205 21.043 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 -1.408 -3.636 20.918 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 -2.092 -3.870 19.914 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 0.791 -3.871 19.783 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 0.939 -2.396 19.549 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 0.582 -1.619 18.499 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 1.470 -1.542 20.495 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 1.431 -0.303 20.038 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 0.896 -0.322 18.831 1.00 29.87 E N \n', '< END\n', '< PyMOL>reinit\n', '< PyMOL>set matrix_mode, 1\n', '< Setting: matrix_mode set to 1.\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>remove not resi 5\n', '< Remove: eliminated 97 atoms in model "pept".\n', '< PyMOL>iterate_state 1,all,print "%8.3f %8.3f %8.3f"%(x,y,z)\n', '< -0.135 -5.634 21.235\n', '< -0.006 -4.205 21.043\n', '< -1.408 -3.636 20.918\n', '< -2.092 -3.870 19.914\n', '< 0.791 -3.871 19.783\n', '< 0.939 -2.396 19.549\n', '< 0.582 -1.619 18.499\n', '< 1.470 -1.542 20.495\n', '< 1.431 -0.303 20.038\n', '< 0.896 -0.322 18.831\n', '< IterateState: iterated over 10 atom coordinate states.\n', '< PyMOL>rotate x, 53, object=pept\n', '< PyMOL>rotate y, 27, object=pept\n', '< PyMOL>rotate z, 6, object=pept\n', '< PyMOL>translate [1,2,3], object=pept\n', '< PyMOL>save tmp/C1110a.pdb\n', '< Save: wrote "tmp/C1110a.pdb".\n', '< PyMOL>for a in open("tmp/C1110a.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 2.647 -5.977 27.838 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 3.119 -4.909 28.693 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 2.002 -4.582 29.667 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 0.969 -4.026 29.273 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 3.477 -3.657 27.893 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 3.964 -2.526 28.750 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 3.506 -1.261 28.902 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 5.025 -2.657 29.624 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 5.197 -1.522 30.278 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 4.288 -0.660 29.860 1.00 29.87 E N \n', '< END\n', '< PyMOL>save tmp/C1110b.pdb, ref=pept\n', '< Save: wrote "tmp/C1110b.pdb".\n', '< PyMOL>for a in open("tmp/C1110b.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 -0.135 -5.634 21.235 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 -0.006 -4.205 21.043 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 -1.408 -3.636 20.918 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 -2.092 -3.870 19.914 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 0.791 -3.871 19.783 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 0.939 -2.396 19.549 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 0.582 -1.619 18.499 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 1.470 -1.542 20.495 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 1.431 -0.303 20.038 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 0.896 -0.322 18.831 1.00 29.87 E N \n', '< END\n', '< PyMOL>load dat/pept.pdb, tmp\n', '< CmdLoad: "dat/pept.pdb" loaded as "tmp".\n', '< PyMOL>remove tmp and not resi 5\n', '< Remove: eliminated 97 atoms in model "tmp".\n', '< PyMOL>matrix_transfer pept, tmp\n', '< PyMOL>save tmp/C1110c.pdb, tmp,\n', '< Save: wrote "tmp/C1110c.pdb".\n', '< PyMOL>for a in open("tmp/C1110c.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 2.647 -5.977 27.838 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 3.119 -4.909 28.693 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 2.002 -4.582 29.667 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 0.969 -4.026 29.273 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 3.477 -3.657 27.893 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 3.964 -2.526 28.750 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 3.506 -1.261 28.902 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 5.025 -2.657 29.624 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 5.197 -1.522 30.278 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 4.288 -0.660 29.860 1.00 29.87 E N \n', '< END\n', '< PyMOL>save tmp/C1110d.pdb, tmp, ref=tmp\n', '< Save: wrote "tmp/C1110d.pdb".\n', '< PyMOL>for a in open("tmp/C1110d.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 -0.135 -5.634 21.235 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 -0.006 -4.205 21.043 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 -1.408 -3.636 20.918 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 -2.092 -3.870 19.914 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 0.791 -3.871 19.783 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 0.939 -2.396 19.549 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 0.582 -1.619 18.499 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 1.470 -1.542 20.495 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 1.431 -0.303 20.038 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 0.896 -0.322 18.831 1.00 29.87 E N \n', '< END\n', '< PyMOL>reinit\n', '< PyMOL>set matrix_mode, 2\n', '< Setting: matrix_mode set to 2.\n', '< PyMOL>load dat/pept.pdb\n', '< CmdLoad: "dat/pept.pdb" loaded as "pept".\n', '< PyMOL>remove not resi 5\n', '< Remove: eliminated 97 atoms in model "pept".\n', '< PyMOL>iterate_state 1,all,print "%8.3f %8.3f %8.3f"%(x,y,z)\n', '< -0.135 -5.634 21.235\n', '< -0.006 -4.205 21.043\n', '< -1.408 -3.636 20.918\n', '< -2.092 -3.870 19.914\n', '< 0.791 -3.871 19.783\n', '< 0.939 -2.396 19.549\n', '< 0.582 -1.619 18.499\n', '< 1.470 -1.542 20.495\n', '< 1.431 -0.303 20.038\n', '< 0.896 -0.322 18.831\n', '< IterateState: iterated over 10 atom coordinate states.\n', '< PyMOL>rotate x, 53, object=pept, object_mode=1\n', '< PyMOL>rotate y, 27, object=pept, object_mode=1\n', '< PyMOL>rotate z, 6, object=pept, object_mode=1\n', '< PyMOL>translate [1,2,3], object=pept, object_mode=1\n', '< PyMOL>save tmp/C1110a.pdb\n', '< Save: wrote "tmp/C1110a.pdb".\n', '< PyMOL>for a in open("tmp/C1110a.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 2.647 -5.977 27.838 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 3.119 -4.909 28.693 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 2.002 -4.582 29.667 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 0.969 -4.026 29.273 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 3.477 -3.657 27.893 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 3.964 -2.526 28.750 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 3.506 -1.261 28.902 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 5.025 -2.657 29.624 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 5.197 -1.522 30.278 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 4.288 -0.660 29.860 1.00 29.87 E N \n', '< END\n', '< PyMOL>save tmp/C1110b.pdb, ref=pept\n', '< Save: wrote "tmp/C1110b.pdb".\n', '< PyMOL>for a in open("tmp/C1110b.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 -0.135 -5.634 21.235 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 -0.006 -4.205 21.043 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 -1.408 -3.636 20.918 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 -2.092 -3.870 19.914 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 0.791 -3.871 19.783 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 0.939 -2.396 19.549 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 0.582 -1.619 18.499 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 1.470 -1.542 20.495 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 1.431 -0.303 20.038 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 0.896 -0.322 18.831 1.00 29.87 E N \n', '< END\n', '< PyMOL>load dat/pept.pdb, tmp\n', '< CmdLoad: "dat/pept.pdb" loaded as "tmp".\n', '< PyMOL>remove tmp and not resi 5\n', '< Remove: eliminated 97 atoms in model "tmp".\n', '< PyMOL>matrix_transfer pept, tmp\n', '< PyMOL>save tmp/C1110c.pdb, tmp,\n', '< Save: wrote "tmp/C1110c.pdb".\n', '< PyMOL>for a in open("tmp/C1110c.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 2.647 -5.977 27.838 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 3.119 -4.909 28.693 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 2.002 -4.582 29.667 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 0.969 -4.026 29.273 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 3.477 -3.657 27.893 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 3.964 -2.526 28.750 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 3.506 -1.261 28.902 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 5.025 -2.657 29.624 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 5.197 -1.522 30.278 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 4.288 -0.660 29.860 1.00 29.87 E N \n', '< END\n', '< PyMOL>save tmp/C1110d.pdb, tmp, ref=tmp\n', '< Save: wrote "tmp/C1110d.pdb".\n', '< PyMOL>for a in open("tmp/C1110d.pdb").readlines(): print a,\n', '< ATOM 1 N HIS E 5 -0.135 -5.634 21.235 1.00 32.18 E N \n', '< ATOM 2 CA HIS E 5 -0.006 -4.205 21.043 1.00 32.91 E C \n', '< ATOM 3 C HIS E 5 -1.408 -3.636 20.918 1.00 34.58 E C \n', '< ATOM 4 O HIS E 5 -2.092 -3.870 19.914 1.00 35.87 E O \n', '< ATOM 5 CB HIS E 5 0.791 -3.871 19.783 1.00 33.02 E C \n', '< ATOM 6 CG HIS E 5 0.939 -2.396 19.549 1.00 32.86 E C \n', '< ATOM 7 CD2 HIS E 5 0.582 -1.619 18.499 1.00 31.48 E C \n', '< ATOM 8 ND1 HIS E 5 1.470 -1.542 20.495 1.00 29.87 E N \n', '< ATOM 9 CE1 HIS E 5 1.431 -0.303 20.038 1.00 29.68 E C \n', '< ATOM 10 NE2 HIS E 5 0.896 -0.322 18.831 1.00 29.87 E N \n', '< END\n', '< PyMOL>print "END-LOG"\n'] run_tests: C1200matrix_maps... run_tests: C1200matrix_maps.log DIFFERS over about 60 lines: ['1,119d0\n', '< PyMOL>load dat/pept.pdb,prot\n', '< CmdLoad: "dat/pept.pdb" loaded as "prot".\n', '< PyMOL>map_new map1,gaussian,1.0,state=-3\n', '< ObjectMap: Map created.\n', '< ObjectMap: Computing Gaussian map for 107 atom positions.\n', '< ObjectMap: Normalizing: mean = 0.079928 & stdev = 0.237612.\n', '< Executive: object "map1" created.\n', '< PyMOL>translate [10,20,30], object=prot, object_mode=1\n', '< PyMOL>rotate x,30,prot,object=prot,object_mode=1\n', '< PyMOL>rotate y,30,prot,object=prot,object_mode=1\n', '< PyMOL>rotate z,30,prot,object=prot,object_mode=1\n', '< PyMOL>zoom prot\n', '< PyMOL>dump44(cmd.get_object_matrix("map1"))\n', '< [ 1.00 0.00 0.00 0.00 \n', '< 0.00 1.00 0.00 0.00 \n', '< 0.00 0.00 1.00 0.00 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>matrix_transfer prot, map1\n', '< PyMOL>dump44(cmd.get_object_matrix("map1"))\n', '< [ 0.75 -0.22 0.62 7.79 \n', '< 0.43 0.88 -0.22 17.71 \n', '< -0.50 0.43 0.75 36.18 \n', '< 0.00 0.00 0.00 1.00 ]\n', '< PyMOL>isomesh m1, map1, 1.0, 5/, carve=2.1\n', '< Executive: object "m1" created.\n', '< Isomesh: created "m1", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< ObjectMesh: updating "m1".\n', '< RayRenderTest: obtained 464 graphics primitives.\n', '< PyMOL>isosurf s1, map1, 1.0, 5/, carve=2.1\n', '< Executive: object "s1" created.\n', '< Isosurface: created "s1", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< ObjectSurface: updating "s1".\n', '< RayRenderTest: obtained 1284 graphics primitives.\n', '< PyMOL>translate [5,-10,2], object=prot, object_mode=1\n', '< PyMOL>rotate x,60,prot,object=prot,object_mode=1\n', '< PyMOL>rotate z,20,prot,object=prot,object_mode=1\n', '< PyMOL>rotate y,30,prot,object=prot,object_mode=1\n', '< PyMOL>matrix_transfer prot, map1\n', '< PyMOL>isomesh m1, map1, 1.0, 5/, carve=3\n', '< Isomesh: created "m1", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< ObjectMesh: updating "m1".\n', '< RayRenderTest: obtained 1404 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>isosurf s1, map1, 1.0, 5/, carve=3\n', '< Isosurface: created "s1", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< RayRenderTest: obtained 0 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>isomesh m2, map1, 1.0, 5/, 3\n', '< Executive: object "m2" created.\n', '< Isomesh: created "m2", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< ObjectMesh: updating "m2".\n', '< RayRenderTest: obtained 1468 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>isosurf s2, map1, 1.0, 5/, 3\n', '< Executive: object "s2" created.\n', '< Isosurface: created "s2", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< ObjectSurface: updating "s2".\n', '< RayRenderTest: obtained 4096 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>isomesh m3, map1\n', '< Executive: object "m3" created.\n', '< Isomesh: created "m3", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< ObjectMesh: updating "m3".\n', '< RayRenderTest: obtained 2908 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>isosurf s3, map1\n', '< Executive: object "s3" created.\n', '< Isosurface: created "s3", setting level to 1.000\n', '< PyMOL>ray renderer=2\n', '< ObjectSurface: updating "s3".\n', '< RayRenderTest: obtained 8492 graphics primitives.\n', '< PyMOL>enable\n', '< PyMOL>ray renderer=2\n', '< ObjectSurface: updating "s1".\n', '< RayRenderTest: obtained 18753 graphics primitives.\n', '< PyMOL>save tmp/C1200.pse\n', '< Save: wrote "tmp/C1200.pse".\n', '< PyMOL>reinit\n', '< PyMOL>load tmp/C1200.pse\n', '< Executive: Loading version 1.20 session...\n', '< PyMOL>ray renderer=2\n', '< ObjectMesh: updating "m1".\n', '< ObjectSurface: updating "s1".\n', '< ObjectMesh: updating "m2".\n', '< ObjectSurface: updating "s2".\n', '< ObjectMesh: updating "m3".\n', '< ObjectSurface: updating "s3".\n', '< RayRenderTest: obtained 18753 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>isomesh m4, map1, 2.0, 2/, 4\n', '< Executive: object "m4" created.\n', '< Isomesh: created "m4", setting level to 2.000\n', '< PyMOL>isosurf s4, map1, 2.0, 2/, 4\n', '< Executive: object "s4" created.\n', '< Isosurface: created "s4", setting level to 2.000\n', '< PyMOL>ray renderer=2\n', '< ObjectMesh: updating "m4".\n', '< ObjectSurface: updating "s4".\n', '< RayRenderTest: obtained 6533 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>enable m1\n', '< PyMOL>isolevel m1, 3\n', '< PyMOL>ray renderer=2\n', '< ObjectMesh: updating "m1".\n', '< RayRenderTest: obtained 288 graphics primitives.\n', '< PyMOL>disable\n', '< PyMOL>enable s1\n', '< PyMOL>isolevel s1, 5\n', '< PyMOL>ray renderer=2\n', '< ObjectSurface: updating "s1".\n', '< RayRenderTest: obtained 168 graphics primitives.\n', '< PyMOL>print "END-LOG"\n'] run_tests: C1300extras... run_tests: C1300extras.log DIFFERS over about 38 lines: ['1,76d0\n', '< PyMOL>delete all\n', '< PyMOL>fragment methane\n', '< Executive: object "methane" created.\n', '< PyMOL>remove hydro and not first hydro\n', '< Remove: eliminated 3 atoms in model "methane".\n', "< PyMOL>alter all,segi='METH'\n", '< Alter: modified 2 atoms.\n', "< PyMOL>alter hydro, alt='A'\n", '< Alter: modified 1 atoms.\n', "< PyMOL>alter hydro, text_type='Htype'\n", '< Alter: modified 1 atoms.\n', "< PyMOL>alter all, ss='L'\n", '< Alter: modified 2 atoms.\n', '< PyMOL>alter all, b=rank\n', '< Alter: modified 2 atoms.\n', '< PyMOL>alter all, q=index\n', '< Alter: modified 2 atoms.\n', '< PyMOL>alter all, elec_radius = vdw+1.0\n', '< Alter: modified 2 atoms.\n', '< PyMOL>cmd.label2("all","\'some text\'")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> 'some text'\n", "< H01 -> 'some text'\n", '< PyMOL>cmd.label2("all","\'some text \'+\'more text\'")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> 'some text more text'\n", "< H01 -> 'some text more text'\n", '< PyMOL>cmd.label2("all"," \'some text \' + \'more text\' ")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> 'some text more text'\n", "< H01 -> 'some text more text'\n", '< PyMOL>cmd.label2("all","model")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> 'methane'\n", "< H01 -> 'methane'\n", '< PyMOL>cmd.label2("all","resv")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> '9'\n", "< H01 -> '9'\n", '< PyMOL>cmd.label2("all","model+\' index:\'+index+ \' type:\' +type")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> 'methane index:1 type:ATOM'\n", "< H01 -> 'methane index:2 type:ATOM'\n", '< PyMOL>cmd.label2("all","segi+\' \'+chain+\' \'+resi+\'`\'+resn+\' \'+str(resv)+name+\'`\'+alt")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> 'METH E 9`LEU 9C01`'\n", "< H01 -> 'METH E 9`LEU 9H01`A'\n", '< PyMOL>cmd.label2("all","str(index)+\' \'+str(rank)+\' \'+str(ID)")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> '1 0 0'\n", "< H01 -> '2 1 1'\n", '< PyMOL>cmd.label2("all","flags")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> '8000000'\n", "< H01 -> '8000000'\n", '< PyMOL>cmd.label2("all","str(numeric_type)+text_type")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> '0'\n", "< H01 -> '0Htype'\n", '< PyMOL>cmd.label2("all","str(formal_charge) + \' \' + str(partial_charge)")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> '0 0.000'\n", "< H01 -> '0 0.000'\n", '< PyMOL>cmd.label2("all","ss + str(cartoon) + str(color)")\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> 'L026'\n", "< H01 -> 'L029'\n", '< PyMOL>cmd.label2("all",\'str(valence) + " " + str(geom)\')\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> '4 4'\n", "< H01 -> '1 1'\n", '< PyMOL>cmd.label2("all",\'str(elec_radius)+" "+str(vdw)+" "+b+" "+q+" "+elem\')\n', '< PyMOL>cmd.iterate("all",r"print name +\' -> \' + \'\\\'\' + label + \'\\\'\'")\n', "< C01 -> '2.80 1.80 0.00 1.00 C'\n", "< H01 -> '2.10 1.10 1.00 2.00 H'\n", '< PyMOL>print "END-LOG"\n'] run_tests: C2000returns... run_tests: C2000returns.log DIFFERS over about 121 lines: ['1,242d0\n', '< cmd.load("dat/pept.pdb")\n', '< None\n', '< cmd.load("dat/nonexistent.pdb")\n', "< ExecutiveProcessPDBFile-Error: Unable to open file 'dat/nonexistent.pdb'.\n", '< -1\n', "< ExecutiveProcessPDBFile-Error: Unable to open file 'dat/nonexistent.pdb'.\n", '< CmdException raised.\n', '< cmd.load("dat/small01.mol")\n', '< None\n', '< cmd.load("dat/nonexistent.mol")\n', "< ExecutiveLoad-Error: Unable to open file 'dat/nonexistent.mol'.\n", '< -1\n', "< ExecutiveLoad-Error: Unable to open file 'dat/nonexistent.mol'.\n", '< CmdException raised.\n', '< cmd.load("dat/ligs3d.sdf")\n', '< None\n', '< cmd.load("dat/nonexistent.sdf")\n', "< ExecutiveLoad-Error: Unable to open file 'dat/nonexistent.sdf'.\n", '< -1\n', "< ExecutiveLoad-Error: Unable to open file 'dat/nonexistent.sdf'.\n", '< CmdException raised.\n', '< cmd.load("dat/small03.mol2")\n', '< None\n', '< cmd.load("dat/nonexistent.mol2")\n', "< ExecutiveLoad-Error: Unable to open file 'dat/nonexistent.mol2'.\n", '< -1\n', "< ExecutiveLoad-Error: Unable to open file 'dat/nonexistent.mol2'.\n", '< CmdException raised.\n', '< cmd.load("dat/pept.r3d")\n', '< None\n', '< cmd.load("dat/nonexistent.r3d")\n', "< Load-Error: Unable to open file 'dat/nonexistent.r3d'.\n", '< -1\n', "< Load-Error: Unable to open file 'dat/nonexistent.r3d'.\n", '< CmdException raised.\n', '< cmd.load("dat/pept.pkl")\n', '< None\n', '< cmd.load("dat/nonexistent.pkl")\n', "< Load-Error: Unable to load file 'dat/nonexistent.pkl'.\n", '< -1\n', "< Load-Error: Unable to load file 'dat/nonexistent.pkl'.\n", '< CmdException raised.\n', '< cmd.get_names()\n', "< ['small01', 'ligs3d', 'small03', 'pept']\n", '< cmd.delete("all")\n', '< None\n', '< cmd.get_names()\n', '< []\n', '< cmd.get_model("nonexistent")\n', '< Selector-Error: Invalid selection name "nonexistent".\n', '< ( nonexistent )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "nonexistent".\n', '< ( nonexistent )<--\n', '< CmdException raised.\n', '< cmd.space("cmyk")\n', "< Color: loaded table '/Users/delwarl/pymol/data/pymol/cmyk.png'.\n", '< None\n', '< cmd.space("unknown")\n', "< Error: unknown color space 'unknown'.\n", '< -1\n', "< Error: unknown color space 'unknown'.\n", '< CmdException raised.\n', '< cmd.space("rgb")\n', '< Color: purged table; restoring RGB colors.\n', '< None\n', '< cmd.space()\n', '< None\n', '< chempy.models.Indexed\n', '< 107\n', '< chempy.models.Indexed\n', '< 0\n', '< cmd.get_model("nonexistent")\n', '< Selector-Error: Invalid selection name "nonexistent".\n', '< ( nonexistent )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "nonexistent".\n', '< ( nonexistent )<--\n', '< CmdException raised.\n', '< cmd.create("test","none",quiet=0)\n', '< Selector: found 0 atoms.\n', '< Executive: object "test" created.\n', '< None\n', '< cmd.create("test2","nonexistent")\n', '< Selector-Error: Invalid selection name "nonexistent".\n', '< ( nonexistent )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "nonexistent".\n', '< ( nonexistent )<--\n', '< CmdException raised.\n', '< cmd.create("test3","?allowed",quiet=0)\n', '< Selector: found 0 atoms.\n', '< Executive: object "test3" created.\n', '< None\n', '< cmd.fragment("arg")\n', '< None\n', '< cmd.fragment("nonexistent")\n', "< Error: unable to load fragment 'nonexistent'.\n", '< -1\n', "< Error: unable to load fragment 'nonexistent'.\n", '< CmdException raised.\n', '< cmd.distance("none","none","none")\n', '< -1.0\n', '< cmd.distance("none","invalid1","none")\n', '< Selector-Error: Invalid selection name "invalid1".\n', '< ( invalid1 )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid1".\n', '< ( invalid1 )<--\n', '< CmdException raised.\n', '< cmd.distance("none","none","invalid2")\n', '< Selector-Error: Invalid selection name "invalid2".\n', '< ( invalid2 )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid2".\n', '< ( invalid2 )<--\n', '< CmdException raised.\n', '< cmd.distance("none","invalid1","invalid2")\n', '< Selector-Error: Invalid selection name "invalid1".\n', '< ( invalid1 )<--\n', '< Selector-Error: Invalid selection name "invalid2".\n', '< ( invalid2 )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid1".\n', '< ( invalid1 )<--\n', '< Selector-Error: Invalid selection name "invalid2".\n', '< ( invalid2 )<--\n', '< CmdException raised.\n', '< cmd.index("none")\n', '< []\n', '< cmd.index("first pept")\n', "< [('pept', 1)]\n", '< cmd.index("invalid")\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< CmdException raised.\n', '< cmd.identify("none")\n', '< []\n', '< cmd.identify("first pept")\n', '< [1]\n', '< cmd.identify("invalid")\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< CmdException raised.\n', '< cmd.identify("none",mode=1)\n', '< []\n', '< cmd.identify("first pept",mode=1)\n', "< [('pept', 1)]\n", '< cmd.identify("invalid",mode=1)\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< CmdException raised.\n', '< cmd.count_atoms("none")\n', '< 0\n', '< cmd.count_atoms()\n', '< 107\n', '< cmd.count_atoms("pept")\n', '< 107\n', '< cmd.count_atoms("invalid")\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< CmdException raised.\n', '< cmd.count_frames()\n', '< 1\n', '< cmd.count_states()\n', '< 1\n', '< cmd.count_states("all")\n', '< 1\n', '< cmd.count_states("none")\n', '< 0\n', '< cmd.count_states("invalid")\n', '< Selector-Error: Invalid selection name "invalid".\n', '< invalid<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid".\n', '< invalid<--\n', '< CmdException raised.\n', '< cmd.get_area()\n', '< 1381.18615723\n', '< cmd.get_area("resi 1")\n', '< 107.905807495\n', '< cmd.get_area("none")\n', '< 0.0\n', '< cmd.get_area("invalid")\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< -1.0\n', '< cmd.get_chains()\n', "< ['E']\n", '< cmd.get_chains("pept")\n', "< ['E']\n", '< cmd.get_chains("resi 1")\n', "< ['E']\n", '< cmd.get_chains("none")\n', '< []\n', '< cmd.get_chains("invalid")\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid".\n', '< ( invalid )<--\n', '< CmdException raised.\n', '< cmd.zoom()\n', '< None\n', '< cmd.zoom("pept")\n', '< None\n', '< cmd.zoom("none")\n', "< ExecutiveWindowZoom-Warning: selection doesn't specify any coordinates.\n", '< None\n', '< cmd.zoom("invalid")\n', '< Selector-Error: Invalid selection name "invalid".\n', '< invalid<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid".\n', '< invalid<--\n', '< QuietException raised.\n', '< cmd.center()\n', '< None\n', '< cmd.center("pept")\n', '< None\n', '< cmd.center("none")\n', "< ExecutiveCenter-Warning: selection doesn't specify any coordinates.\n", '< None\n', '< cmd.center("invalid")\n', '< Selector-Error: Invalid selection name "invalid".\n', '< invalid<--\n', '< -1\n', '< Selector-Error: Invalid selection name "invalid".\n', '< invalid<--\n', '< QuietException raised.\n'] make[1]: Leaving directory `/«PKGBUILDDIR»' fakeroot debian/rules binary-arch dh binary-arch --with python2 --parallel dh_testroot -a -O--parallel dh_prep -a -O--parallel dh_installdirs -a -O--parallel dh_auto_install -a -O--parallel running install running build running build_py package init file 'modules/web/javascript/__init__.py' not found (or not a regular file) package init file 'modules/web/javascript/__init__.py' not found (or not a regular file) running build_ext building 'pymol._cmd' extension gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c modules/cealign/src/ccealignmodule.cpp -o build/temp.linux-armv7l-2.7/modules/cealign/src/ccealignmodule.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c generated/src/ShaderText.c -o build/temp.linux-armv7l-2.7/generated/src/ShaderText.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c ov/src/OVContext.c -o build/temp.linux-armv7l-2.7/ov/src/OVContext.o -ffast-math -funroll-loops -O3 -g ov/src/OVContext.c: In function 'OVContext_Del': ov/src/OVContext.c:21:13: warning: variable 'heap' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c ov/src/OVHeapArray.c -o build/temp.linux-armv7l-2.7/ov/src/OVHeapArray.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c ov/src/OVHeap.c -o build/temp.linux-armv7l-2.7/ov/src/OVHeap.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c ov/src/OVLexicon.c -o build/temp.linux-armv7l-2.7/ov/src/OVLexicon.o -ffast-math -funroll-loops -O3 -g ov/src/OVLexicon.c: In function 'OVLexicon_BorrowFromCString': ov/src/OVLexicon.c:360:11: warning: variable 'cur_index' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c ov/src/OVOneToOne.c -o build/temp.linux-armv7l-2.7/ov/src/OVOneToOne.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c ov/src/OVOneToAny.c -o build/temp.linux-armv7l-2.7/ov/src/OVOneToAny.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c ov/src/OVRandom.c -o build/temp.linux-armv7l-2.7/ov/src/OVRandom.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c ov/src/ov_utility.c -o build/temp.linux-armv7l-2.7/ov/src/ov_utility.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Block.c -o build/temp.linux-armv7l-2.7/layer0/Block.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Crystal.c -o build/temp.linux-armv7l-2.7/layer0/Crystal.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Debug.c -o build/temp.linux-armv7l-2.7/layer0/Debug.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Deferred.c -o build/temp.linux-armv7l-2.7/layer0/Deferred.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Err.c -o build/temp.linux-armv7l-2.7/layer0/Err.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Feedback.c -o build/temp.linux-armv7l-2.7/layer0/Feedback.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Field.c -o build/temp.linux-armv7l-2.7/layer0/Field.o -ffast-math -funroll-loops -O3 -g layer0/Field.c: In function 'FieldNewFromPyList': layer0/Field.c:136:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] layer0/Field.c:135:16: warning: variable 'n_elem' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Isosurf.c -o build/temp.linux-armv7l-2.7/layer0/Isosurf.o -ffast-math -funroll-loops -O3 -g layer0/Isosurf.c: In function 'IsosurfNewFromPyList': layer0/Isosurf.c:168:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Map.c -o build/temp.linux-armv7l-2.7/layer0/Map.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Match.c -o build/temp.linux-armv7l-2.7/layer0/Match.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Matrix.c -o build/temp.linux-armv7l-2.7/layer0/Matrix.o -ffast-math -funroll-loops -O3 -g layer0/Matrix.c: In function 'MatrixFitRMSTTTf': layer0/Matrix.c:1358:18: warning: variable 'ix' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/MemoryDebug.c -o build/temp.linux-armv7l-2.7/layer0/MemoryDebug.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/MemoryCache.c -o build/temp.linux-armv7l-2.7/layer0/MemoryCache.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/MyPNG.c -o build/temp.linux-armv7l-2.7/layer0/MyPNG.o -ffast-math -funroll-loops -O3 -g In file included from /usr/include/python2.7/Python.h:8:0, from layer0/os_python.h:28, from layer1/Setting.h:20, from layer0/MyPNG.c:56: /usr/include/python2.7/pyconfig.h:1161:0: warning: "_POSIX_C_SOURCE" redefined [enabled by default] /usr/include/features.h:214:0: note: this is the location of the previous definition gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Parse.c -o build/temp.linux-armv7l-2.7/layer0/Parse.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Pixmap.c -o build/temp.linux-armv7l-2.7/layer0/Pixmap.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Queue.c -o build/temp.linux-armv7l-2.7/layer0/Queue.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Raw.c -o build/temp.linux-armv7l-2.7/layer0/Raw.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Sphere.c -o build/temp.linux-armv7l-2.7/layer0/Sphere.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/ShaderMgr.c -o build/temp.linux-armv7l-2.7/layer0/ShaderMgr.o -ffast-math -funroll-loops -O3 -g layer0/ShaderMgr.c: In function 'CShaderMgr_ReadShaderFromDisk': layer0/ShaderMgr.c:449:7: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'size_t' [-Wformat] layer0/ShaderMgr.c: In function 'CShaderPrg_Enable_CylinderShader': layer0/ShaderMgr.c:973:10: warning: variable 'm' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Tetsurf.c -o build/temp.linux-armv7l-2.7/layer0/Tetsurf.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Texture.c -o build/temp.linux-armv7l-2.7/layer0/Texture.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Tracker.c -o build/temp.linux-armv7l-2.7/layer0/Tracker.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Triangle.c -o build/temp.linux-armv7l-2.7/layer0/Triangle.o -ffast-math -funroll-loops -O3 -g layer0/Triangle.c: In function 'TriangleBuildLast': layer0/Triangle.c:1511:7: warning: variable 'both_active' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Util.c -o build/temp.linux-armv7l-2.7/layer0/Util.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Vector.c -o build/temp.linux-armv7l-2.7/layer0/Vector.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/Word.c -o build/temp.linux-armv7l-2.7/layer0/Word.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer0/os_gl.c -o build/temp.linux-armv7l-2.7/layer0/os_gl.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Basis.c -o build/temp.linux-armv7l-2.7/layer1/Basis.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/ButMode.c -o build/temp.linux-armv7l-2.7/layer1/ButMode.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Character.c -o build/temp.linux-armv7l-2.7/layer1/Character.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/CGO.c -o build/temp.linux-armv7l-2.7/layer1/CGO.o -ffast-math -funroll-loops -O3 -g layer1/CGO.c: In function 'CGONewFromPyList': layer1/CGO.c:432:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'CGOFromFloatArray': layer1/CGO.c:607:7: warning: variable 'c' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'CGOCombineBeginEnd': layer1/CGO.c:1708:11: warning: variable 'pickColorValsUC' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'OptimizePointsToVBO': layer1/CGO.c:2200:9: warning: variable 'err' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'CGOOptimizeToVBONotIndexed': layer1/CGO.c:2461:9: warning: variable 'err' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'CGOOptimizeToVBOIndexedWithColor': layer1/CGO.c:3085:9: warning: variable 'err' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'CGOSimplify': layer1/CGO.c:4420:11: warning: variable 'pickColorValsUC' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'CGORenderRay': layer1/CGO.c:4961:42: warning: variable 'pickColorVals' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'CGORenderGLPicking': layer1/CGO.c:6198:73: warning: variable 'pbnd' set but not used [-Wunused-but-set-variable] layer1/CGO.c:6198:57: warning: variable 'pidx' set but not used [-Wunused-but-set-variable] layer1/CGO.c: In function 'CGOSimpleCone': layer1/CGO.c:7452:15: warning: variable 'nub2' set but not used [-Wunused-but-set-variable] layer1/CGO.c:7452:9: warning: variable 'nub1' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Color.c -o build/temp.linux-armv7l-2.7/layer1/Color.o -ffast-math -funroll-loops -O3 -g layer1/Color.c: In function 'ColorExtFromPyList': layer1/Color.c:428:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] layer1/Color.c: In function 'ColorDef': layer1/Color.c:645:7: warning: variable 'best' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Control.c -o build/temp.linux-armv7l-2.7/layer1/Control.o -ffast-math -funroll-loops -O3 -g layer1/Control.c: In function 'ControlDrag': layer1/Control.c:251:7: warning: variable 'width' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Extrude.c -o build/temp.linux-armv7l-2.7/layer1/Extrude.o -ffast-math -funroll-loops -O3 -g layer1/Extrude.c: In function 'ExtrudeCGOSurfaceVariableTube': layer1/Extrude.c:1112:14: warning: variable 'stop' set but not used [-Wunused-but-set-variable] layer1/Extrude.c:1112:7: warning: variable 'start' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Font.c -o build/temp.linux-armv7l-2.7/layer1/Font.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/FontType.c -o build/temp.linux-armv7l-2.7/layer1/FontType.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/FontGLUT.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUT.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/FontGLUT8x13.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUT8x13.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/FontGLUT9x15.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUT9x15.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/FontGLUTHel10.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel10.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/FontGLUTHel12.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel12.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/FontGLUTHel18.c -o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel18.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Movie.c -o build/temp.linux-armv7l-2.7/layer1/Movie.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Ortho.c -o build/temp.linux-armv7l-2.7/layer1/Ortho.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/P.c -o build/temp.linux-armv7l-2.7/layer1/P.o -ffast-math -funroll-loops -O3 -g layer1/P.c: In function 'PLabelExprUsesVariable': layer1/P.c:196:17: warning: variable 'buffer' set but not used [-Wunused-but-set-variable] layer1/P.c: In function 'PAlterAtomState': layer1/P.c:811:59: warning: variable 'z_id1' set but not used [-Wunused-but-set-variable] layer1/P.c:811:36: warning: variable 'y_id1' set but not used [-Wunused-but-set-variable] layer1/P.c:811:13: warning: variable 'x_id1' set but not used [-Wunused-but-set-variable] layer1/P.c: In function 'PFlush': layer1/P.c:2621:7: warning: implicit declaration of function 'OrthoCommandOutSize' [-Wimplicit-function-declaration] layer1/P.c:2621:7: warning: suggest parentheses around assignment used as truth value [-Wparentheses] layer1/P.c: In function 'PFlushFast': layer1/P.c:2665:3: warning: suggest parentheses around assignment used as truth value [-Wparentheses] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/PConv.c -o build/temp.linux-armv7l-2.7/layer1/PConv.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Pop.c -o build/temp.linux-armv7l-2.7/layer1/Pop.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/PyMOLObject.c -o build/temp.linux-armv7l-2.7/layer1/PyMOLObject.o -ffast-math -funroll-loops -O3 -g layer1/PyMOLObject.c: In function 'ObjectMotion': layer1/PyMOLObject.c:382:13: warning: variable 'zero_flag' set but not used [-Wunused-but-set-variable] layer1/PyMOLObject.c: In function 'ObjectStateFromPyList': layer1/PyMOLObject.c:1509:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Ray.c -o build/temp.linux-armv7l-2.7/layer1/Ray.o -ffast-math -funroll-loops -O3 -g In file included from layer1/Ray.c:44:0: layer1/Basis.c: In function 'ConeLineToSphereCapped': layer1/Basis.c:847:11: warning: variable 'base2orig_len' set but not used [-Wunused-but-set-variable] layer1/Basis.c: In function 'BasisHitShadow': layer1/Basis.c:2429:7: warning: variable 'check_interior_flag' set but not used [-Wunused-but-set-variable] layer1/Basis.c:2428:7: warning: variable 'excl_trans_flag' set but not used [-Wunused-but-set-variable] layer1/Ray.c: In function 'RayRenderG3d': layer1/Ray.c:894:36: warning: variable 'scale_z' set but not used [-Wunused-but-set-variable] layer1/Ray.c: In function 'RayRenderIDTF': layer1/Ray.c:2117:11: warning: variable 'mesh_start' set but not used [-Wunused-but-set-variable] layer1/Ray.c: In function 'RayRenderPOV': layer1/Ray.c:2430:28: warning: variable 'bkrd_bottom' set but not used [-Wunused-but-set-variable] layer1/Ray.c:2430:17: warning: variable 'bkrd_top' set but not used [-Wunused-but-set-variable] layer1/Ray.c:2428:7: warning: variable 'fogRangeFlag' set but not used [-Wunused-but-set-variable] layer1/Ray.c:2427:7: warning: variable 'fogFlag' set but not used [-Wunused-but-set-variable] layer1/Ray.c: In function 'RayRender': layer1/Ray.c:6144:15: warning: variable 'dc' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Rep.c -o build/temp.linux-armv7l-2.7/layer1/Rep.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Scene.c -o build/temp.linux-armv7l-2.7/layer1/Scene.o -ffast-math -funroll-loops -O3 -g layer1/Scene.c: In function 'SceneDraw': layer1/Scene.c:3394:22: warning: variable 'color_word' set but not used [-Wunused-but-set-variable] layer1/Scene.c: In function 'SceneReadTriplets': layer1/Scene.c:3601:7: warning: variable 'dim' set but not used [-Wunused-but-set-variable] layer1/Scene.c: In function 'SceneDrag': layer1/Scene.c:6000:8: warning: variable 'result' set but not used [-Wunused-but-set-variable] layer1/Scene.c:6048:8: warning: variable 'result' set but not used [-Wunused-but-set-variable] layer1/Scene.c: In function 'SceneReshape': layer1/Scene.c:6425:7: warning: variable 'y' set but not used [-Wunused-but-set-variable] layer1/Scene.c: In function 'SceneApplyImageGamma': layer1/Scene.c:6599:7: warning: variable 'big_endian' set but not used [-Wunused-but-set-variable] layer1/Scene.c: In function 'SceneRay': layer1/Scene.c:6820:7: warning: variable 'curState' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/ScrollBar.c -o build/temp.linux-armv7l-2.7/layer1/ScrollBar.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Seq.c -o build/temp.linux-armv7l-2.7/layer1/Seq.o -ffast-math -funroll-loops -O3 -g layer1/Seq.c: In function 'SeqDrag': layer1/Seq.c:181:16: warning: variable 'col' set but not used [-Wunused-but-set-variable] layer1/Seq.c: In function 'SeqRelease': layer1/Seq.c:212:16: warning: variable 'col' set but not used [-Wunused-but-set-variable] layer1/Seq.c: In function 'SeqClick': layer1/Seq.c:266:16: warning: variable 'col' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Setting.c -o build/temp.linux-armv7l-2.7/layer1/Setting.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Shaker.c -o build/temp.linux-armv7l-2.7/layer1/Shaker.o -ffast-math -funroll-loops -O3 -g layer1/Shaker.c: In function 'ShakerGetPyra': layer1/Shaker.c:132:16: warning: variable 't0' set but not used [-Wunused-but-set-variable] layer1/Shaker.c: In function 'ShakerDoPyra': layer1/Shaker.c:153:16: warning: variable 't0' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Symmetry.c -o build/temp.linux-armv7l-2.7/layer1/Symmetry.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Text.c -o build/temp.linux-armv7l-2.7/layer1/Text.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/TypeFace.c -o build/temp.linux-armv7l-2.7/layer1/TypeFace.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/Wizard.c -o build/temp.linux-armv7l-2.7/layer1/Wizard.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer1/View.c -o build/temp.linux-armv7l-2.7/layer1/View.o -ffast-math -funroll-loops -O3 -g layer1/View.c: In function 'matrix_interpolate': layer1/View.c:724:23: warning: variable 'center' set but not used [-Wunused-but-set-variable] layer1/View.c:724:16: warning: variable 'p1' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/AtomInfo.c -o build/temp.linux-armv7l-2.7/layer2/AtomInfo.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/CoordSet.c -o build/temp.linux-armv7l-2.7/layer2/CoordSet.o -ffast-math -funroll-loops -O3 -g layer2/CoordSet.c: In function 'CoordSetAtomToChemPyAtom': layer2/CoordSet.c:942:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/GadgetSet.c -o build/temp.linux-armv7l-2.7/layer2/GadgetSet.o -ffast-math -funroll-loops -O3 -g layer2/GadgetSet.c: In function 'GadgetSetFromPyList': layer2/GadgetSet.c:186:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/DistSet.c -o build/temp.linux-armv7l-2.7/layer2/DistSet.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectAlignment.c -o build/temp.linux-armv7l-2.7/layer2/ObjectAlignment.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectCGO.c -o build/temp.linux-armv7l-2.7/layer2/ObjectCGO.o -ffast-math -funroll-loops -O3 -g layer2/ObjectCGO.c: In function 'ObjectCGOStateFromPyList': layer2/ObjectCGO.c:74:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectCallback.c -o build/temp.linux-armv7l-2.7/layer2/ObjectCallback.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectDist.c -o build/temp.linux-armv7l-2.7/layer2/ObjectDist.o -ffast-math -funroll-loops -O3 -g layer2/ObjectDist.c: In function 'ObjectDistGetDistSetFromM4XBond': layer2/ObjectDist.c:198:25: warning: variable 'dist' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectMap.c -o build/temp.linux-armv7l-2.7/layer2/ObjectMap.o -ffast-math -funroll-loops -O3 -g layer2/ObjectMap.c: In function 'ObjectMapStateTrim': layer2/ObjectMap.c:434:7: warning: variable 'max' set but not used [-Wunused-but-set-variable] layer2/ObjectMap.c: In function 'ObjectMapStateInterpolate': layer2/ObjectMap.c:1064:10: warning: variable 'out' set but not used [-Wunused-but-set-variable] layer2/ObjectMap.c: In function 'ObjectMapNewFromPyList': layer2/ObjectMap.c:1556:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] layer2/ObjectMap.c: In function 'ObjectMapCCP4StrToMap': layer2/ObjectMap.c:2419:14: warning: variable 'xref' set but not used [-Wunused-but-set-variable] layer2/ObjectMap.c: In function 'ObjectMapLoadCCP4': layer2/ObjectMap.c:4521:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMap.c: In function 'ObjectMapLoadPHI': layer2/ObjectMap.c:4692:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMap.c: In function 'ObjectMapLoadDXFile': layer2/ObjectMap.c:5047:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMap.c: In function 'ObjectMapLoadACNTFile': layer2/ObjectMap.c:5295:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMap.c: In function 'ObjectMapLoadFLDFile': layer2/ObjectMap.c:5348:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectMesh.c -o build/temp.linux-armv7l-2.7/layer2/ObjectMesh.o -ffast-math -funroll-loops -O3 -g layer2/ObjectMesh.c: In function 'ObjectMeshNewFromPyList': layer2/ObjectMesh.c:213:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] layer2/ObjectMesh.c: In function 'ObjectMeshUpdate': layer2/ObjectMesh.c:578:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMesh.c: In function 'ObjectMeshRender': layer2/ObjectMesh.c:980:14: warning: variable 'color' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectMolecule.c -o build/temp.linux-armv7l-2.7/layer2/ObjectMolecule.o -ffast-math -funroll-loops -O3 -g layer2/ObjectMolecule.c: In function 'ObjectMoleculeFixSeleHydrogens': layer2/ObjectMolecule.c:664:13: warning: variable 'cs' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeLoadTRJFile': layer2/ObjectMolecule.c:816:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeLoadRSTFile': layer2/ObjectMolecule.c:1199:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeLoadTOPFile': layer2/ObjectMolecule.c:2332:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeLoadPMOFile': layer2/ObjectMolecule.c:2790:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeRenderSele': layer2/ObjectMolecule.c:3225:51: warning: variable 'ai' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeLoadXYZFile': layer2/ObjectMolecule.c:3823:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeAttach': layer2/ObjectMolecule.c:4363:10: warning: variable 'nn' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeFindOpenValenceVector': layer2/ObjectMolecule.c:4543:22: warning: variable 'ai1' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeCreateSpheroid': layer2/ObjectMolecule.c:4724:10: warning: variable 'spl' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeGuessValences': layer2/ObjectMolecule.c:6184:29: warning: variable 'bnd2' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c:5958:38: warning: variable 'c2_len' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c:5958:23: warning: variable 'c1_len' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c:5957:56: warning: variable 'c2_bd' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c:5957:45: warning: variable 'c1_bd' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c:5952:68: warning: variable 'o4_len' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c:5952:53: warning: variable 'o3_len' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeMOL2SetFormalCharges': layer2/ObjectMolecule.c:8785:46: warning: variable 'n' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeMOL2Str2CoordSet': layer2/ObjectMolecule.c:9185:38: warning: variable 'resv_flag' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule.c: In function 'ObjectMoleculeInvalidateAtomType': layer2/ObjectMolecule.c:12073:16: warning: variable 'a' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectMolecule2.c -o build/temp.linux-armv7l-2.7/layer2/ObjectMolecule2.o -ffast-math -funroll-loops -O3 -g layer2/ObjectMolecule2.c: In function 'ObjectMoleculePDBStr2CoordSet': layer2/ObjectMolecule2.c:1655:7: warning: variable 'have_conect' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule2.c:1654:7: warning: variable 'seen_conect' set but not used [-Wunused-but-set-variable] layer2/ObjectMolecule2.c: In function 'ObjectMoleculeNewFromPyList': layer2/ObjectMolecule2.c:3628:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectSurface.c -o build/temp.linux-armv7l-2.7/layer2/ObjectSurface.o -ffast-math -funroll-loops -O3 -g layer2/ObjectSurface.c: In function 'ObjectSurfaceUpdate': layer2/ObjectSurface.c:518:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectSlice.c -o build/temp.linux-armv7l-2.7/layer2/ObjectSlice.o -ffast-math -funroll-loops -O3 -g layer2/ObjectSlice.c: In function 'ObjectSliceStateFromPyList': layer2/ObjectSlice.c:116:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] layer2/ObjectSlice.c: In function 'ObjectSliceNewFromPyList': layer2/ObjectSlice.c:185:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] layer2/ObjectSlice.c: In function 'ObjectSliceUpdate': layer2/ObjectSlice.c:722:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectVolume.c -o build/temp.linux-armv7l-2.7/layer2/ObjectVolume.o -ffast-math -funroll-loops -O3 -g layer2/ObjectVolume.c: In function 'ObjectVolumeNewFromPyList': layer2/ObjectVolume.c:236:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] layer2/ObjectVolume.c: In function 'ObjectVolumeUpdate': layer2/ObjectVolume.c:593:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer2/ObjectVolume.c: In function 'ObjectVolumeRender': layer2/ObjectVolume.c:880:20: warning: variable 'max_ext' set but not used [-Wunused-but-set-variable] layer2/ObjectVolume.c:880:10: warning: variable 'min_ext' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepCartoon.c -o build/temp.linux-armv7l-2.7/layer2/RepCartoon.o -ffast-math -funroll-loops -O3 -g layer2/RepCartoon.c: In function 'do_ring': layer2/RepCartoon.c:235:7: warning: variable 'cartoon_color' set but not used [-Wunused-but-set-variable] layer2/RepCartoon.c: In function 'nuc_acid': layer2/RepCartoon.c:1450:22: warning: variable 'v_n' set but not used [-Wunused-but-set-variable] layer2/RepCartoon.c: In function 'GenerateRepCartoonCGO': layer2/RepCartoon.c:1614:31: warning: variable 'ring_finder_eff' set but not used [-Wunused-but-set-variable] layer2/RepCartoon.c: In function 'RepCartoonNew': layer2/RepCartoon.c:2746:9: warning: variable 'alpha' set but not used [-Wunused-but-set-variable] layer2/RepCartoon.c:2733:7: warning: variable 'skip_to' set but not used [-Wunused-but-set-variable] layer2/RepCartoon.c:2722:7: warning: variable 'highlight_color' set but not used [-Wunused-but-set-variable] layer2/RepCartoon.c:2718:7: warning: variable 'cartoon_debug' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepCylBond.c -o build/temp.linux-armv7l-2.7/layer2/RepCylBond.o -ffast-math -funroll-loops -O3 -g layer2/RepCylBond.c: In function 'RepCylBondPopulateAdjacentAtoms': layer2/RepCylBond.c:1400:25: warning: variable 'h_scale' set but not used [-Wunused-but-set-variable] layer2/RepCylBond.c:1400:17: warning: variable 'transp' set but not used [-Wunused-but-set-variable] layer2/RepCylBond.c:1400:9: warning: variable 'radius' set but not used [-Wunused-but-set-variable] layer2/RepCylBond.c:1397:10: warning: variable 'ord' set but not used [-Wunused-but-set-variable] layer2/RepCylBond.c: In function 'RepCylBondNew': layer2/RepCylBond.c:1543:16: warning: variable 'v_size' set but not used [-Wunused-but-set-variable] layer2/RepCylBond.c:1536:7: warning: variable 'stick_round_nub' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepDistDash.c -o build/temp.linux-armv7l-2.7/layer2/RepDistDash.o -ffast-math -funroll-loops -O3 -g layer2/RepDistDash.c: In function 'RepDistDashNew': layer2/RepDistDash.c:333:29: warning: variable 'd1' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepDistLabel.c -o build/temp.linux-armv7l-2.7/layer2/RepDistLabel.o -ffast-math -funroll-loops -O3 -g layer2/RepDistLabel.c: In function 'RepDistLabelNew': layer2/RepDistLabel.c:373:24: warning: variable 'v6' set but not used [-Wunused-but-set-variable] layer2/RepDistLabel.c:373:19: warning: variable 'v5' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepDot.c -o build/temp.linux-armv7l-2.7/layer2/RepDot.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepLabel.c -o build/temp.linux-armv7l-2.7/layer2/RepLabel.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepMesh.c -o build/temp.linux-armv7l-2.7/layer2/RepMesh.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectGadget.c -o build/temp.linux-armv7l-2.7/layer2/ObjectGadget.o -ffast-math -funroll-loops -O3 -g layer2/ObjectGadget.c: In function 'ObjectGadgetInitFromPyList': layer2/ObjectGadget.c:505:7: warning: variable 'll' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectGadgetRamp.c -o build/temp.linux-armv7l-2.7/layer2/ObjectGadgetRamp.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/ObjectGroup.c -o build/temp.linux-armv7l-2.7/layer2/ObjectGroup.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepAngle.c -o build/temp.linux-armv7l-2.7/layer2/RepAngle.o -ffast-math -funroll-loops -O3 -g layer2/RepAngle.c: In function 'RepAngleNew': layer2/RepAngle.c:430:15: warning: variable 'mod_pos' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepDihedral.c -o build/temp.linux-armv7l-2.7/layer2/RepDihedral.o -ffast-math -funroll-loops -O3 -g layer2/RepDihedral.c: In function 'RepDihedralNew': layer2/RepDihedral.c:509:15: warning: variable 'mod_pos' set but not used [-Wunused-but-set-variable] layer2/RepDihedral.c:362:37: warning: variable 'v6' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepNonbonded.c -o build/temp.linux-armv7l-2.7/layer2/RepNonbonded.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepNonbondedSphere.c -o build/temp.linux-armv7l-2.7/layer2/RepNonbondedSphere.o -ffast-math -funroll-loops -O3 -g layer2/RepNonbondedSphere.c: In function 'RepNonbondedSphereRender': layer2/RepNonbondedSphere.c:199:25: warning: variable 'use_default_shader' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepRibbon.c -o build/temp.linux-armv7l-2.7/layer2/RepRibbon.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepSphere.c -o build/temp.linux-armv7l-2.7/layer2/RepSphere.o -ffast-math -funroll-loops -O3 -g layer2/RepSphere.c: In function 'RepSphereNew': layer2/RepSphere.c:2936:26: warning: variable 'nbr_flag' set but not used [-Wunused-but-set-variable] layer2/RepSphere.c:2656:17: warning: variable 'ai2' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepEllipsoid.c -o build/temp.linux-armv7l-2.7/layer2/RepEllipsoid.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepSurface.c -o build/temp.linux-armv7l-2.7/layer2/RepSurface.o -ffast-math -funroll-loops -O3 -g layer2/RepSurface.c: In function 'RepSurfaceRender': layer2/RepSurface.c:1935:11: warning: variable 'col' set but not used [-Wunused-but-set-variable] layer2/RepSurface.c:2193:28: warning: variable 'col' set but not used [-Wunused-but-set-variable] layer2/RepSurface.c:3352:13: warning: variable 'color' set but not used [-Wunused-but-set-variable] layer2/RepSurface.c: In function 'RepSurfaceColor': layer2/RepSurface.c:3654:22: warning: variable 'planew' set but not used [-Wunused-but-set-variable] layer2/RepSurface.c:3733:29: warning: variable 'planew' set but not used [-Wunused-but-set-variable] layer2/RepSurface.c:3733:22: warning: variable 'pt' set but not used [-Wunused-but-set-variable] layer2/RepSurface.c:3888:36: warning: variable 'pai2' set but not used [-Wunused-but-set-variable] layer2/RepSurface.c: In function 'SolventDotNew': layer2/RepSurface.c:5595:7: warning: variable 'maxDot' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/RepWireBond.c -o build/temp.linux-armv7l-2.7/layer2/RepWireBond.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/Sculpt.c -o build/temp.linux-armv7l-2.7/layer2/Sculpt.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/SculptCache.c -o build/temp.linux-armv7l-2.7/layer2/SculptCache.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer2/VFont.c -o build/temp.linux-armv7l-2.7/layer2/VFont.o -ffast-math -funroll-loops -O3 -g layer2/VFont.c: In function 'VFontIndent': layer2/VFont.c:160:10: warning: variable 'pc' set but not used [-Wunused-but-set-variable] layer2/VFont.c:159:9: warning: variable 'base' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer3/PlugIOManager.c -o build/temp.linux-armv7l-2.7/layer3/PlugIOManager.o -ffast-math -funroll-loops -O3 -g layer3/PlugIOManager.c: In function 'PlugIOManagerLoadVol': layer3/PlugIOManager.c:341:17: warning: variable 'isNew' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer3/Editor.c -o build/temp.linux-armv7l-2.7/layer3/Editor.o -ffast-math -funroll-loops -O3 -g layer3/Editor.c: In function 'EditorDrawDihedral': layer3/Editor.c:109:22: warning: variable 'sele3' set but not used [-Wunused-but-set-variable] layer3/Editor.c:109:15: warning: variable 'sele0' set but not used [-Wunused-but-set-variable] layer3/Editor.c: In function 'EditorAttach': layer3/Editor.c:929:7: warning: variable 'state' set but not used [-Wunused-but-set-variable] layer3/Editor.c: In function 'EditorReplace': layer3/Editor.c:1112:7: warning: variable 'state' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer3/Executive.c -o build/temp.linux-armv7l-2.7/layer3/Executive.o -ffast-math -funroll-loops -O3 -g layer3/Executive.c: In function 'ExecutiveVolume': layer3/Executive.c:1096:19: warning: variable 'sele_obj' set but not used [-Wunused-but-set-variable] layer3/Executive.c: In function 'ExecutiveProcessObjectName': layer3/Executive.c:3312:7: warning: variable 'result' set but not used [-Wunused-but-set-variable] layer3/Executive.c: In function 'ExecutiveMapSet': layer3/Executive.c:6653:21: warning: variable 'tmp' set but not used [-Wunused-but-set-variable] layer3/Executive.c: In function 'ExecutiveSculptIterate': layer3/Executive.c:7426:7: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer3/Executive.c: In function 'ExecutiveRemoveAtoms': layer3/Executive.c:9679:7: warning: variable 'flag' set but not used [-Wunused-but-set-variable] layer3/Executive.c: In function 'ExecutiveCenter': layer3/Executive.c:14655:23: warning: variable 'df' set but not used [-Wunused-but-set-variable] layer3/Executive.c: In function 'ExecutiveRelease': layer3/Executive.c:16916:7: warning: variable 'n' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer3/Seeker.c -o build/temp.linux-armv7l-2.7/layer3/Seeker.o -ffast-math -funroll-loops -O3 -g layer3/Seeker.c: In function 'SeekerRefresh': layer3/Seeker.c:511:22: warning: variable 'not_selected' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer3/Selector.c -o build/temp.linux-armv7l-2.7/layer3/Selector.o -ffast-math -funroll-loops -O3 -g layer3/Selector.c: In function 'SelectorGetSpacialMapFromSeleCoord': layer3/Selector.c:1506:23: warning: variable 'ai' set but not used [-Wunused-but-set-variable] layer3/Selector.c: In function 'SelectorAssignSS': layer3/Selector.c:2104:11: warning: variable 'c' set but not used [-Wunused-but-set-variable] layer3/Selector.c: In function 'SelectorGetPairIndices': layer3/Selector.c:3577:23: warning: variable 'ai2' set but not used [-Wunused-but-set-variable] layer3/Selector.c:3577:17: warning: variable 'ai1' set but not used [-Wunused-but-set-variable] layer3/Selector.c: In function 'SelectorMapMaskVDW': layer3/Selector.c:5395:11: warning: variable 'n2' set but not used [-Wunused-but-set-variable] layer3/Selector.c: In function 'SelectorSelect0': layer3/Selector.c:8719:15: warning: variable 's' set but not used [-Wunused-but-set-variable] layer3/Selector.c: In function 'SelectorSelect1': layer3/Selector.c:9159:11: warning: variable 'prevmodel' set but not used [-Wunused-but-set-variable] layer3/Selector.c:9221:11: warning: variable 'prevmodel' set but not used [-Wunused-but-set-variable] layer3/Selector.c: In function 'SelectorLogic1': layer3/Selector.c:10368:21: warning: variable 'ai' set but not used [-Wunused-but-set-variable] layer3/Selector.c: In function 'SelectorEvaluate': layer3/Selector.c:10900:19: warning: variable 'cc2' set but not used [-Wunused-but-set-variable] layer3/Selector.c:10899:15: warning: variable 'opFlag2' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer4/Cmd.c -o build/temp.linux-armv7l-2.7/layer4/Cmd.o -ffast-math -funroll-loops -O3 -g layer4/Cmd.c: In function 'CmdAlign': layer4/Cmd.c:2227:9: warning: variable 'result' set but not used [-Wunused-but-set-variable] layer4/Cmd.c: In function 'Cmd_New': layer4/Cmd.c:4494:11: warning: variable 'ok' set but not used [-Wunused-but-set-variable] layer4/Cmd.c: In function 'CmdLoadObject': layer4/Cmd.c:7286:9: warning: variable 'isTmp' set but not used [-Wunused-but-set-variable] layer4/Cmd.c: In function 'CmdSetObjectColor': layer4/Cmd.c:8323:7: warning: variable 'result' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer4/Export.c -o build/temp.linux-armv7l-2.7/layer4/Export.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer4/Menu.c -o build/temp.linux-armv7l-2.7/layer4/Menu.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer4/PopUp.c -o build/temp.linux-armv7l-2.7/layer4/PopUp.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer5/PyMOL.c -o build/temp.linux-armv7l-2.7/layer5/PyMOL.o -ffast-math -funroll-loops -O3 -g layer5/PyMOL.c: In function 'PyMOL_CmdGetNames': layer5/PyMOL.c:4594:15: warning: variable 'arg' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer5/TestPyMOL.c -o build/temp.linux-armv7l-2.7/layer5/TestPyMOL.o -ffast-math -funroll-loops -O3 -g layer5/TestPyMOL.c: In function 'get_st': layer5/TestPyMOL.c:76:25: warning: variable 'p' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c layer5/main.c -o build/temp.linux-armv7l-2.7/layer5/main.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/carplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp: In function 'int read_ccp4_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:370:68: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/corplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c: In function 'get_internal_basis': contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:943:13: warning: unused variable 'wavef_size' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c: In function 'get_wavefunction': contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1378:7: warning: unused variable 'num_orbs' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1377:7: warning: unused variable 'total_orbs' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1376:21: warning: unused variable 'num_values' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1376:14: warning: unused variable 'j' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1375:7: warning: unused variable 'orbital_counter' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1374:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1372:8: warning: variable 'buffer' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1371:10: warning: unused variable 'wave_function' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1370:10: warning: unused variable 'orbital_energies' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c: At top level: contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:1531:12: warning: 'get_population' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c: In function 'parse_static_data': contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.c:780:28: warning: 'numstates' may be used uninitialized in this function [-Wuninitialized] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/cpmdplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/cpmdplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/cpmdplugin.c:89:12: warning: 'read_cpmd_structure' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c: In function 'write_crd_timestep': contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c:167:6: warning: 'lfdone' may be used uninitialized in this function [-Wuninitialized] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: 'int get_pte_idx(const char*)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'int get_pte_idx_from_string(const char*)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'swap2_aligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fastio.h:455:12: warning: 'fio_read_int32' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fastio.h:459:12: warning: 'fio_write_str' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:120:13: warning: 'void swap4_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function 'int handle_wrapped_v2({anonymous}::BlobMap&, uint32_t, bool, const std::vector&, molfile_timestep_t*)': contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1056:28: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'uint64_t {aka long long unsigned int}' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1065:30: warning: format '%ld' expects argument of type 'long int', but argument 4 has type 'uint64_t {aka long long unsigned int}' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function 'int handle_wrapped_v1({anonymous}::BlobMap&, uint32_t, bool, const std::vector&, molfile_timestep_t*)': contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1302:34: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'uint64_t {aka long long unsigned int}' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp: In function 'int handle_anton_sfxp_v3({anonymous}::BlobMap&, uint32_t, bool, const std::vector&, molfile_timestep_t*)': contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1318:67: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'std::vector::size_type {aka unsigned int}' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/vmddir.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/vmddir.h:130:12: warning: 'int vmd_file_is_executable(const char*)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:120:13: warning: 'void swap4_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:1878:12: warning: 'int read_timestep2(void*, ssize_t, molfile_timestep_t*)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp: In function 'int read_edm_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:207:10: warning: unused variable 'l' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:220:7: warning: unused variable 'leftover' [-Wunused-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: 'int fort_eat_recmark(FILE*, int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: 'int fort_get_endian_reclen(int, int, int, int*, int*)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:133:13: warning: 'void strnwscpy(char*, const char*, int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_basis_stats': contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:1749:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_traj_frame': contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:2247:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: In function 'get_wavefunction': contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:2725:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c: At top level: contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:928:13: warning: 'print_input_data' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:4161:13: warning: 'whereami' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:230:13: warning: 'thisline' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.c: In function 'get_traj_frame': contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.c:1809:8: warning: variable 'word' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.c:1808:8: warning: variable 'buffer' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.c: In function 'get_wavefunction': contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.c:1950:36: warning: variable 'orb_idx' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.c: At top level: contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.c:2122:12: warning: 'get_population' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: 'int fort_eat_recmark(FILE*, int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: 'int fort_get_endian_reclen(int, int, int, int*, int*)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:133:13: warning: 'void strnwscpy(char*, const char*, int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] In file included from contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:30:0: contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h: In function 'int _ZL13mdio_timestepP7md_fileP5md_ts.constprop.8(md_file*, md_ts*)': contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1853:53: warning: 'bitsizeint[2]' may be used uninitialized in this function [-Wuninitialized] contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1764:37: note: 'bitsizeint[2]' was declared here contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1852:53: warning: 'bitsizeint[1]' may be used uninitialized in this function [-Wuninitialized] contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1764:37: note: 'bitsizeint[1]' was declared here contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1851:53: warning: 'bitsizeint[0]' may be used uninitialized in this function [-Wuninitialized] contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:1764:37: note: 'bitsizeint[0]' was declared here contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/hash.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/hash.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/hash.c:183:21: warning: 'hash_delete' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/hash.c:270:24: warning: 'hash_stats' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fastio.h:442:19: warning: 'fio_ftell' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'swap4_unaligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'swap8_unaligned' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/hash.c:183:21: warning: 'int hash_delete(hash_t*, const char*)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/hash.c:270:24: warning: 'char* hash_stats(hash_t*)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mmcif.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp: In function 'int read_mmcif_timestep(void*, int, molfile_timestep_t*)': contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp:85:14: warning: unused variable 'data' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:95:20: warning: 'const char* get_pte_label(int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:102:14: warning: 'float get_pte_mass(int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:109:14: warning: 'float get_pte_vdw_radius(int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: 'int get_pte_idx(const char*)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'int get_pte_idx_from_string(const char*)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp:98:14: warning: 'void* open_mmcif_write(const char*, const char*, int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.cpp: In function 'void* open_mrc_read(const char*, const char*, int*)': contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.cpp:247:61: warning: format '%f' expects argument of type 'double', but argument 2 has type 'int' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.cpp:247:61: warning: format '%f' expects argument of type 'double', but argument 3 has type 'int' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.cpp:247:61: warning: format '%f' expects argument of type 'double', but argument 4 has type 'int' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.cpp: In function 'int read_mrc_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.cpp:298:68: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp: In function 'int read_pbeq_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp:262:55: warning: format '%d' expects argument of type 'int', but argument 2 has type 'long int' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: 'get_pte_idx' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp: In function 'int read_plt_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:143:54: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c: In function 'get_atom_radius': contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:167:16: warning: variable 'type' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c:167:9: warning: variable 'name' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'swap2_unaligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'swap4_unaligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'swap8_unaligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'swap2_aligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'swap8_aligned' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: 'fort_eat_recmark' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: 'fort_get_endian_reclen' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/fortread.h:103:12: warning: 'fortread_4' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c: In function 'open_rst_read': contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c:43:11: warning: variable 'timesteprst' set but not used [-Wunused-but-set-variable] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp: In function 'int read_spider_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:277:7: warning: unused variable 'x' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:277:10: warning: unused variable 'y' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:277:13: warning: unused variable 'z' [-Wunused-variable] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:56:13: warning: 'void swap4_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp: In function 'int read_rawgraphics(void*, int*, const molfile_graphics_t**)': contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:150:59: warning: operation on 'i' may be undefined [-Wsequence-point] contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp:150:59: warning: operation on 'i' may be undefined [-Wsequence-point] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o -ffast-math -funroll-loops -O3 -g gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function 'void* open_uhbd_read(const char*, const char*, int*)': contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:90:22: warning: variable 'o' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:90:28: warning: variable 's' set but not used [-Wunused-but-set-variable] contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp: In function 'int read_uhbd_data(void*, int, float*, float*)': contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:254:69: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h: At global scope: contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:42:13: warning: 'void swap2_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:75:13: warning: 'void swap8_unaligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:106:13: warning: 'void swap2_aligned(void*, long int)' defined but not used [-Wunused-function] contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:134:13: warning: 'void swap8_aligned(void*, long int)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o -ffast-math -funroll-loops -O3 -g In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:42:0: contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:111:13: warning: 'vasp_timestep_unitcell' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o -ffast-math -funroll-loops -O3 -g In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:40:0: contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o -ffast-math -funroll-loops -O3 -g In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:42:0: contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:111:13: warning: 'vasp_timestep_unitcell' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o -ffast-math -funroll-loops -O3 -g In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:40:0: contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o -ffast-math -funroll-loops -O3 -g In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:40:0: contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o -ffast-math -funroll-loops -O3 -g In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:47:0: contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:44:27: warning: function declaration isn't a prototype [-Wstrict-prototypes] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c: In function 'vtf_parse_atom': contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:234:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[16]' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:243:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[16]' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:269:2: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[8]' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:284:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[8]' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:293:7: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[2]' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:305:2: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[2]' [-Wformat] contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c:339:2: warning: format '%s' expects argument of type 'char *', but argument 3 has type 'char (*)[2]' [-Wformat] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o -ffast-math -funroll-loops -O3 -g cc1plus: warning: command line option '-Wstrict-prototypes' is valid for Ada/C/ObjC but not for C++ [enabled by default] contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'int get_pte_idx_from_string(const char*)' defined but not used [-Wunused-function] gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -D_PYMOL_MODULE -D_PYMOL_INLINE -D_PYMOL_FREETYPE -D_PYMOL_LIBPNG -D_PYMOL_OPENGL_SHADERS -D_PYMOL_VMD_PLUGINS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_CGO_DRAWARRAYS -D_PYMOL_GL_CALLLISTS -DOPENGL_ES_2 -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -I/usr/include/freetype2 -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -Imodules/cealign/src -Imodules/cealign/src/tnt -Igenerated/include -Igenerated/src -I/usr/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c -o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o -ffast-math -funroll-loops -O3 -g contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: 'get_pte_idx_from_string' defined but not used [-Wunused-function] g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro build/temp.linux-armv7l-2.7/modules/cealign/src/ccealignmodule.o build/temp.linux-armv7l-2.7/generated/src/ShaderText.o build/temp.linux-armv7l-2.7/ov/src/OVContext.o build/temp.linux-armv7l-2.7/ov/src/OVHeapArray.o build/temp.linux-armv7l-2.7/ov/src/OVHeap.o build/temp.linux-armv7l-2.7/ov/src/OVLexicon.o build/temp.linux-armv7l-2.7/ov/src/OVOneToOne.o build/temp.linux-armv7l-2.7/ov/src/OVOneToAny.o build/temp.linux-armv7l-2.7/ov/src/OVRandom.o build/temp.linux-armv7l-2.7/ov/src/ov_utility.o build/temp.linux-armv7l-2.7/layer0/Block.o build/temp.linux-armv7l-2.7/layer0/Crystal.o build/temp.linux-armv7l-2.7/layer0/Debug.o build/temp.linux-armv7l-2.7/layer0/Deferred.o build/temp.linux-armv7l-2.7/layer0/Err.o build/temp.linux-armv7l-2.7/layer0/Feedback.o build/temp.linux-armv7l-2.7/layer0/Field.o build/temp.linux-armv7l-2.7/layer0/Isosurf.o build/temp.linux-armv7l-2.7/layer0/Map.o build/temp.linux-armv7l-2.7/layer0/Match.o build/temp.linux-armv7l-2.7/layer0/Matrix.o build/temp.linux-armv7l-2.7/layer0/MemoryDebug.o build/temp.linux-armv7l-2.7/layer0/MemoryCache.o build/temp.linux-armv7l-2.7/layer0/MyPNG.o build/temp.linux-armv7l-2.7/layer0/Parse.o build/temp.linux-armv7l-2.7/layer0/Pixmap.o build/temp.linux-armv7l-2.7/layer0/Queue.o build/temp.linux-armv7l-2.7/layer0/Raw.o build/temp.linux-armv7l-2.7/layer0/Sphere.o build/temp.linux-armv7l-2.7/layer0/ShaderMgr.o build/temp.linux-armv7l-2.7/layer0/Tetsurf.o build/temp.linux-armv7l-2.7/layer0/Texture.o build/temp.linux-armv7l-2.7/layer0/Tracker.o build/temp.linux-armv7l-2.7/layer0/Triangle.o build/temp.linux-armv7l-2.7/layer0/Util.o build/temp.linux-armv7l-2.7/layer0/Vector.o build/temp.linux-armv7l-2.7/layer0/Word.o build/temp.linux-armv7l-2.7/layer0/os_gl.o build/temp.linux-armv7l-2.7/layer1/Basis.o build/temp.linux-armv7l-2.7/layer1/ButMode.o build/temp.linux-armv7l-2.7/layer1/Character.o build/temp.linux-armv7l-2.7/layer1/CGO.o build/temp.linux-armv7l-2.7/layer1/Color.o build/temp.linux-armv7l-2.7/layer1/Control.o build/temp.linux-armv7l-2.7/layer1/Extrude.o build/temp.linux-armv7l-2.7/layer1/Font.o build/temp.linux-armv7l-2.7/layer1/FontType.o build/temp.linux-armv7l-2.7/layer1/FontGLUT.o build/temp.linux-armv7l-2.7/layer1/FontGLUT8x13.o build/temp.linux-armv7l-2.7/layer1/FontGLUT9x15.o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel10.o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel12.o build/temp.linux-armv7l-2.7/layer1/FontGLUTHel18.o build/temp.linux-armv7l-2.7/layer1/Movie.o build/temp.linux-armv7l-2.7/layer1/Ortho.o build/temp.linux-armv7l-2.7/layer1/P.o build/temp.linux-armv7l-2.7/layer1/PConv.o build/temp.linux-armv7l-2.7/layer1/Pop.o build/temp.linux-armv7l-2.7/layer1/PyMOLObject.o build/temp.linux-armv7l-2.7/layer1/Ray.o build/temp.linux-armv7l-2.7/layer1/Rep.o build/temp.linux-armv7l-2.7/layer1/Scene.o build/temp.linux-armv7l-2.7/layer1/ScrollBar.o build/temp.linux-armv7l-2.7/layer1/Seq.o build/temp.linux-armv7l-2.7/layer1/Setting.o build/temp.linux-armv7l-2.7/layer1/Shaker.o build/temp.linux-armv7l-2.7/layer1/Symmetry.o build/temp.linux-armv7l-2.7/layer1/Text.o build/temp.linux-armv7l-2.7/layer1/TypeFace.o build/temp.linux-armv7l-2.7/layer1/Wizard.o build/temp.linux-armv7l-2.7/layer1/View.o build/temp.linux-armv7l-2.7/layer2/AtomInfo.o build/temp.linux-armv7l-2.7/layer2/CoordSet.o build/temp.linux-armv7l-2.7/layer2/GadgetSet.o build/temp.linux-armv7l-2.7/layer2/DistSet.o build/temp.linux-armv7l-2.7/layer2/ObjectAlignment.o build/temp.linux-armv7l-2.7/layer2/ObjectCGO.o build/temp.linux-armv7l-2.7/layer2/ObjectCallback.o build/temp.linux-armv7l-2.7/layer2/ObjectDist.o build/temp.linux-armv7l-2.7/layer2/ObjectMap.o build/temp.linux-armv7l-2.7/layer2/ObjectMesh.o build/temp.linux-armv7l-2.7/layer2/ObjectMolecule.o build/temp.linux-armv7l-2.7/layer2/ObjectMolecule2.o build/temp.linux-armv7l-2.7/layer2/ObjectSurface.o build/temp.linux-armv7l-2.7/layer2/ObjectSlice.o build/temp.linux-armv7l-2.7/layer2/ObjectVolume.o build/temp.linux-armv7l-2.7/layer2/RepCartoon.o build/temp.linux-armv7l-2.7/layer2/RepCylBond.o build/temp.linux-armv7l-2.7/layer2/RepDistDash.o build/temp.linux-armv7l-2.7/layer2/RepDistLabel.o build/temp.linux-armv7l-2.7/layer2/RepDot.o build/temp.linux-armv7l-2.7/layer2/RepLabel.o build/temp.linux-armv7l-2.7/layer2/RepMesh.o build/temp.linux-armv7l-2.7/layer2/ObjectGadget.o build/temp.linux-armv7l-2.7/layer2/ObjectGadgetRamp.o build/temp.linux-armv7l-2.7/layer2/ObjectGroup.o build/temp.linux-armv7l-2.7/layer2/RepAngle.o build/temp.linux-armv7l-2.7/layer2/RepDihedral.o build/temp.linux-armv7l-2.7/layer2/RepNonbonded.o build/temp.linux-armv7l-2.7/layer2/RepNonbondedSphere.o build/temp.linux-armv7l-2.7/layer2/RepRibbon.o build/temp.linux-armv7l-2.7/layer2/RepSphere.o build/temp.linux-armv7l-2.7/layer2/RepEllipsoid.o build/temp.linux-armv7l-2.7/layer2/RepSurface.o build/temp.linux-armv7l-2.7/layer2/RepWireBond.o build/temp.linux-armv7l-2.7/layer2/Sculpt.o build/temp.linux-armv7l-2.7/layer2/SculptCache.o build/temp.linux-armv7l-2.7/layer2/VFont.o build/temp.linux-armv7l-2.7/layer3/PlugIOManager.o build/temp.linux-armv7l-2.7/layer3/Editor.o build/temp.linux-armv7l-2.7/layer3/Executive.o build/temp.linux-armv7l-2.7/layer3/Seeker.o build/temp.linux-armv7l-2.7/layer3/Selector.o build/temp.linux-armv7l-2.7/layer4/Cmd.o build/temp.linux-armv7l-2.7/layer4/Export.o build/temp.linux-armv7l-2.7/layer4/Menu.o build/temp.linux-armv7l-2.7/layer4/PopUp.o build/temp.linux-armv7l-2.7/layer5/PyMOL.o build/temp.linux-armv7l-2.7/layer5/TestPyMOL.o build/temp.linux-armv7l-2.7/layer5/main.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/cpmdlogplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/cpmdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gaussianplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/hash.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mmcif.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/mrcplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o build/temp.linux-armv7l-2.7/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o -L/usr/X11R6/lib64 -lGL -lGLU -lglut -lpng -lz -lfreetype -lGLEW -o build/lib.linux-armv7l-2.7/pymol/_cmd.so running install_lib creating /«PKGBUILDDIR»/debian/pymol/usr/lib creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7 creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/web copying build/lib.linux-armv7l-2.7/web/pymolhttpd.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/web creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/web/examples copying build/lib.linux-armv7l-2.7/web/examples/justhttpd.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/web/examples copying build/lib.linux-armv7l-2.7/web/examples/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/web/examples copying build/lib.linux-armv7l-2.7/web/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/web creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/bond_amber.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/solvate.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/gamess1.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/mae.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/mass.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/water_amber.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/protein_mmff.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/water_residues.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/mmd.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/pdb.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/bond_mmff.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/cc1.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/fast copying build/lib.linux-armv7l-2.7/chempy/fast/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/fast copying build/lib.linux-armv7l-2.7/chempy/cex.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/dictdb.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/cif.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/arc.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/protein_amber99.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/fragments copying build/lib.linux-armv7l-2.7/chempy/fragments/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/fragments copying build/lib.linux-armv7l-2.7/chempy/protein_residues.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/mol2.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/place.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/xyz.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/neighbor.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/lst.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/brick.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/charge.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/protein.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/gms.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/bmin copying build/lib.linux-armv7l-2.7/chempy/bmin/state.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/bmin copying build/lib.linux-armv7l-2.7/chempy/bmin/commands.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/bmin copying build/lib.linux-armv7l-2.7/chempy/bmin/util.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/bmin copying build/lib.linux-armv7l-2.7/chempy/bmin/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/bmin copying build/lib.linux-armv7l-2.7/chempy/bmin/realtime.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/bmin copying build/lib.linux-armv7l-2.7/chempy/sdf.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/io.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/pkl.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/champ copying build/lib.linux-armv7l-2.7/chempy/champ/amber99.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/champ copying build/lib.linux-armv7l-2.7/chempy/champ/formal_charges.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/champ copying build/lib.linux-armv7l-2.7/chempy/champ/assign.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/champ copying build/lib.linux-armv7l-2.7/chempy/champ/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/champ copying build/lib.linux-armv7l-2.7/chempy/champ/_champ.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/champ copying build/lib.linux-armv7l-2.7/chempy/bonds.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/tinker copying build/lib.linux-armv7l-2.7/chempy/tinker/amber.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/tinker copying build/lib.linux-armv7l-2.7/chempy/tinker/state.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/tinker copying build/lib.linux-armv7l-2.7/chempy/tinker/keyword.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/tinker copying build/lib.linux-armv7l-2.7/chempy/tinker/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/tinker copying build/lib.linux-armv7l-2.7/chempy/tinker/realtime.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy/tinker copying build/lib.linux-armv7l-2.7/chempy/map.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/mol.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/protein_amber.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/cpv.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/hetatm.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy copying build/lib.linux-armv7l-2.7/chempy/models.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/chempy creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol2 copying build/lib.linux-armv7l-2.7/pymol2/cmd2.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol2 copying build/lib.linux-armv7l-2.7/pymol2/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol2 copying build/lib.linux-armv7l-2.7/pymol2/make_cmd2.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol2 creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/shortcut.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/completing.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/fitting.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/exporting.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/invocation.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/colorramping.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/measurement.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/label.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/pseudoatom.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/pair_fit.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/benchmark.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/toggle.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/fedora.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/cleanup.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/annotation.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/demo.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/stereodemo.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/filter.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/mutagenesis.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/box.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/dragging.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/security.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/distance.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/charge.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/message.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/density.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/renaming.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/sculpting.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/wizard/appearance.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/wizard copying build/lib.linux-armv7l-2.7/pymol/editing.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/m4x.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/wizarding.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/selecting.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/xray.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/vfont.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/internal.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/xwin.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/controlling.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/helping.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/parsing.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/parser.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glut copying build/lib.linux-armv7l-2.7/pymol/opengl/glut/_glut.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glut copying build/lib.linux-armv7l-2.7/pymol/opengl/glut/glutconst.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glut copying build/lib.linux-armv7l-2.7/pymol/opengl/glut/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glut creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glu copying build/lib.linux-armv7l-2.7/pymol/opengl/glu/_glu_num.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glu copying build/lib.linux-armv7l-2.7/pymol/opengl/glu/_glu.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glu copying build/lib.linux-armv7l-2.7/pymol/opengl/glu/gluconst.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glu copying build/lib.linux-armv7l-2.7/pymol/opengl/glu/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/glu creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/gl copying build/lib.linux-armv7l-2.7/pymol/opengl/gl/_opengl_num.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/gl copying build/lib.linux-armv7l-2.7/pymol/opengl/gl/_opengl.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/gl copying build/lib.linux-armv7l-2.7/pymol/opengl/gl/openglutil.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/gl copying build/lib.linux-armv7l-2.7/pymol/opengl/gl/openglutil_num.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/gl copying build/lib.linux-armv7l-2.7/pymol/opengl/gl/glconst.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/gl copying build/lib.linux-armv7l-2.7/pymol/opengl/gl/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl/gl copying build/lib.linux-armv7l-2.7/pymol/opengl/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/opengl copying build/lib.linux-armv7l-2.7/pymol/preset.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/constants_palette.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/creating.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/querying.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/_cmd.so -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/callback.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/computing.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/externing.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/api.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/povray.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/locking.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/contrib copying build/lib.linux-armv7l-2.7/pymol/contrib/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol/contrib copying build/lib.linux-armv7l-2.7/pymol/checking.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/util.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/gui.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/importing.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/keyboard.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/viewing.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/editor.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/keywords.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/selector.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/setting.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/moving.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/headering.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/monitoring.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/commanding.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/feedingback.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/cmd.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/experimenting.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/rpc.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/cgo.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/constants.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/movie.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol copying build/lib.linux-armv7l-2.7/pymol/menu.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_wx copying build/lib.linux-armv7l-2.7/pmg_wx/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_wx creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk copying build/lib.linux-armv7l-2.7/pmg_tk/PyMOLMapLoad.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk copying build/lib.linux-armv7l-2.7/pmg_tk/PMGApp.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk copying build/lib.linux-armv7l-2.7/pmg_tk/ColorEditor.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/startup copying build/lib.linux-armv7l-2.7/pmg_tk/startup/autodock.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/startup copying build/lib.linux-armv7l-2.7/pmg_tk/startup/remote_pdb_load.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/startup copying build/lib.linux-armv7l-2.7/pmg_tk/startup/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/startup copying build/lib.linux-armv7l-2.7/pmg_tk/startup/apbs_tools.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/startup copying build/lib.linux-armv7l-2.7/pmg_tk/SetEditor.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk copying build/lib.linux-armv7l-2.7/pmg_tk/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk copying build/lib.linux-armv7l-2.7/pmg_tk/Setting.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk copying build/lib.linux-armv7l-2.7/pmg_tk/Demo.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins creating /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal copying build/lib.linux-armv7l-2.7/pmg_tk/skins/normal/ModalWindow.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal copying build/lib.linux-armv7l-2.7/pmg_tk/skins/normal/volume.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal copying build/lib.linux-armv7l-2.7/pmg_tk/skins/normal/SimpleColorChooser.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal copying build/lib.linux-armv7l-2.7/pmg_tk/skins/normal/hist.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal copying build/lib.linux-armv7l-2.7/pmg_tk/skins/normal/ColorRampModel.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal copying build/lib.linux-armv7l-2.7/pmg_tk/skins/normal/builder.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal copying build/lib.linux-armv7l-2.7/pmg_tk/skins/normal/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal copying build/lib.linux-armv7l-2.7/pmg_tk/skins/normal/ColorMap.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins/normal copying build/lib.linux-armv7l-2.7/pmg_tk/skins/__init__.py -> /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pmg_tk/skins running install_egg_info Writing /«PKGBUILDDIR»/debian/pymol/usr/lib/python2.7/dist-packages/pymol-1.5.0.1.egg-info After running: python setup.py install Please run, to complete the installation: python setup2.py install To uninstall PyMOL, run: python setup2.py uninstall debian/rules override_dh_install make[1]: Entering directory `/«PKGBUILDDIR»' pdflatex -output-directory debian -jobname pymol-ref-card debian/pymolRef.tex This is pdfTeX, Version 3.1415926-2.3-1.40.12 (TeX Live 2012/dev/Debian) restricted \write18 enabled. entering extended mode (./debian/pymolRef.tex LaTeX2e <2011/06/27> Babel and hyphenation patterns for english, dumylang, nohyphenation, lo aded. (/usr/share/texlive/texmf-dist/tex/latex/base/article.cls Document Class: article 2007/10/19 v1.4h Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size10.clo)) (/usr/share/texlive/texmf-dist/tex/latex/tools/multicol.sty) No file pymol-ref-card.aux. Underfull \hbox (badness 10000) in paragraph at lines 78--79 [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] (/usr/share/texlive/texmf-dist/tex/latex/base/omscmr.fd) [2] (debian/pymol-ref-card.aux) ) (see the transcript file for additional information) Output written on debian/pymol-ref-card.pdf (2 pages, 108330 bytes). Transcript written on debian/pymol-ref-card.log. sed -e s/@PYTHON_VERSION@/2.7/g < debian/pymol.launch.in > debian/pymol.launch dh_install data/shaders usr/lib/python2.7/dist-packages/pymol/data/ install -m 755 debian/pymol.launch debian/pymol/usr/bin/pymol make[1]: Leaving directory `/«PKGBUILDDIR»' dh_installdocs -a -O--parallel dh_installchangelogs -a -O--parallel dh_installexamples -a -O--parallel dh_installman -a -O--parallel dh_installcatalogs -a -O--parallel dh_installcron -a -O--parallel dh_installdebconf -a -O--parallel dh_installemacsen -a -O--parallel dh_installifupdown -a -O--parallel dh_installinfo -a -O--parallel dh_installinit -a -O--parallel dh_installmenu -a -O--parallel dh_installmime -a -O--parallel dh_installmodules -a -O--parallel dh_installlogcheck -a -O--parallel dh_installlogrotate -a -O--parallel dh_installpam -a -O--parallel dh_installppp -a -O--parallel dh_installudev -a -O--parallel dh_installwm -a -O--parallel dh_installxfonts -a -O--parallel dh_installgsettings -a -O--parallel dh_bugfiles -a -O--parallel dh_ucf -a -O--parallel dh_lintian -a -O--parallel dh_gconf -a -O--parallel dh_icons -a -O--parallel dh_perl -a -O--parallel dh_python2 -a -O--parallel dh_usrlocal -a -O--parallel dh_link -a -O--parallel debian/rules override_dh_compress make[1]: Entering directory `/«PKGBUILDDIR»' dh_compress -Xpdb make[1]: Leaving directory `/«PKGBUILDDIR»' dh_fixperms -a -O--parallel dh_strip -a -O--parallel dh_makeshlibs -a -O--parallel dh_shlibdeps -a -O--parallel dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/pymol/usr/lib/python2.7/dist-packages/pymol/_cmd.so was not linked against libz.so.1 (it uses none of the library's symbols). dh_installdeb -a -O--parallel dh_gencontrol -a -O--parallel dh_md5sums -a -O--parallel dh_builddeb -a -O--parallel dpkg-deb: warning: 'debian/pymol/DEBIAN/control' contains user-defined field 'Python-Version' dpkg-deb: warning: ignoring 1 warning about the control file(s) dpkg-deb: building package `pymol' in `../pymol_1.5.0.1-2_armhf.deb'. dpkg-genchanges -B -mbuildd >../pymol_1.5.0.1-2_armhf.changes dpkg-genchanges: arch-specific upload - not including arch-independent packages dpkg-genchanges: binary-only upload - not including any source code dpkg-source --after-build pymol-1.5.0.1 dpkg-buildpackage: binary only upload (no source included) ──────────────────────────────────────────────────────────────────────────────── Build finished at 20120522-1342 Finished ──────── I: Built successfully ┌──────────────────────────────────────────────────────────────────────────────┐ │ Changes │ └──────────────────────────────────────────────────────────────────────────────┘ pymol_1.5.0.1-2_armhf.changes: ────────────────────────────── Format: 1.8 Date: Wed, 02 May 2012 18:11:37 +0200 Source: pymol Binary: pymol Architecture: armhf Version: 1.5.0.1-2 Distribution: testing Urgency: low Maintainer: buildd Changed-By: Michael Banck Description: pymol - Molecular Graphics System Changes: pymol (1.5.0.1-2) unstable; urgency=low . * debian/patches/26_subversion_updates.patch: New patch, includes the fixes from subversion since 1.5.0.1 up to revision 3996. * debian/upstream: New file. * debian/pymolRef.tex: Updated with latest version from http://www.pymolwiki.org/index.php/CheatSheet. Checksums-Sha1: 52e190a5e368a4a9f314cf5d6e8ae2199b689eb5 7316150 pymol_1.5.0.1-2_armhf.deb Checksums-Sha256: c4ad4b36b37ce87d4a5affc3b013240e05b72262ac503236bc3a0c89ed73ee34 7316150 pymol_1.5.0.1-2_armhf.deb Files: b1030c8937ae927f7e55ed264c936469 7316150 science optional pymol_1.5.0.1-2_armhf.deb ┌──────────────────────────────────────────────────────────────────────────────┐ │ Package contents │ └──────────────────────────────────────────────────────────────────────────────┘ pymol_1.5.0.1-2_armhf.deb ───────────────────────── new debian package, version 2.0. size 7316150 bytes: control archive= 11825 bytes. 1160 bytes, 25 lines control 28490 bytes, 385 lines md5sums 578 bytes, 23 lines * postinst #!/bin/sh 293 bytes, 8 lines * postrm #!/bin/sh 247 bytes, 14 lines * prerm #!/bin/sh Package: pymol Version: 1.5.0.1-2 Architecture: armhf Maintainer: Debichem Team Installed-Size: 17497 Depends: python2.7, python (>= 2.7), python (<< 2.8), freeglut3, libc6 (>= 2.13-28), libfreetype6 (>= 2.2.1), libgcc1 (>= 1:4.4.0), libgl1-mesa-glx | libgl1, libglew1.7 (>= 1.7.0), libglu1-mesa | libglu1, libpng12-0 (>= 1.2.13-4), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4), python-tk, python-pmw Recommends: apbs Section: science Priority: optional Homepage: http://www.pymol.org Description: Molecular Graphics System PyMOL is a molecular graphics system targeted at medium to large biomolecules like proteins. It can generate high-quality publication-ready molecular graphics images and animations. . Features include: * Visualization of molecules, molecular trajectories and surfaces of crystallography data or orbitals * Molecular builder and sculptor * Internal raytracer and movie generator * Fully extensible and scriptable via a Python interface . File formats PyMOL can read include PDB, XYZ, CIF, MDL Molfile, ChemDraw, CCP4 maps, XPLOR maps and Gaussian cube maps. Python-Version: 2.7 drwxr-xr-x root/root 0 2012-05-22 13:40 ./ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/share/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/share/python/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/share/python/runtime.d/ -rwxr-xr-x root/root 128 2012-05-22 13:40 ./usr/share/python/runtime.d/pymol.rtupdate drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/share/doc-base/ -rw-r--r-- root/root 279 2009-09-19 04:42 ./usr/share/doc-base/pymol-ref-card drwxr-xr-x root/root 0 2012-02-13 10:51 ./usr/share/chempy/ -rw-r--r-- root/root 35752 2012-02-13 10:51 ./usr/share/chempy/water.pdb drwxr-xr-x root/root 0 2012-02-13 10:51 ./usr/share/chempy/fragments/ -rw-r--r-- root/root 5050 2012-02-13 10:51 ./usr/share/chempy/fragments/argn.pkl -rw-r--r-- root/root 1641 2012-02-13 10:51 ./usr/share/chempy/fragments/methane.pkl -rw-r--r-- root/root 5206 2012-02-13 10:51 ./usr/share/chempy/fragments/ct_lys.pkl -rw-r--r-- root/root 5719 2012-02-13 10:51 ./usr/share/chempy/fragments/ct_trp.pkl -rw-r--r-- root/root 4377 2012-02-13 10:51 ./usr/share/chempy/fragments/nt_his.pkl -rw-r--r-- root/root 3597 2012-02-13 10:51 ./usr/share/chempy/fragments/ile.pkl -rw-r--r-- root/root 4119 2012-02-13 10:51 ./usr/share/chempy/fragments/ct_gln.pkl -rw-r--r-- root/root 5238 2012-02-13 10:51 ./usr/share/chempy/fragments/cyclohexane.pkl -rw-r--r-- root/root 3259 2012-02-13 10:51 ./usr/share/chempy/fragments/hid.pkl -rw-r--r-- root/root 5547 2012-02-13 10:51 ./usr/share/chempy/fragments/indane.pkl -rw-r--r-- root/root 3485 2012-02-13 10:51 ./usr/share/chempy/fragments/ct_thr.pkl -rw-r--r-- root/root 2786 2012-02-13 10:51 ./usr/share/chempy/fragments/butane.pkl -rw-r--r-- root/root 5263 2012-02-13 10:51 ./usr/share/chempy/fragments/ct_argn.pkl -rw-r--r-- root/root 3232 2012-02-13 10:51 ./usr/share/chempy/fragments/met.pkl -rw-r--r-- root/root 4784 2012-02-13 10:51 ./usr/share/chempy/fragments/nt_leu.pkl -rw-r--r-- root/root 4023 2012-02-13 10:51 ./usr/share/chempy/fragments/nt_gluh.pkl -rw-r--r-- root/root 5273 2012-02-13 10:51 ./usr/share/chempy/fragments/napthylene.pkl -rw-r--r-- root/root 1301 2012-02-13 10:51 ./usr/share/chempy/fragments/ace.pkl -rw-r--r-- root/root 3729 2012-02-13 10:51 ./usr/share/chempy/fragments/nt_pro.pkl -rw-r--r-- root/root 1915 2012-02-13 10:51 ./usr/share/chempy/fragments/formamide.pkl -rw-r--r-- root/root 3183 2012-02-13 10:51 ./usr/share/chempy/fragments/ct_asph.pkl -rw-r--r-- root/root 2707 2012-02-13 10:51 ./usr/share/chempy/fragments/thr.pkl -rw-r--r-- root/root 3475 2012-02-13 10:51 ./usr/share/chempy/fragments/glu.pkl -rw-r--r-- root/root 3599 2012-02-13 10:51 ./usr/share/chempy/fragments/gluh.pkl -rw-r--r-- root/root 4165 2012-02-13 10:51 ./usr/share/chempy/fragments/ct_hid.pkl -rw-r--r-- root/root 3922 2012-02-13 10:51 ./usr/share/chempy/fragments/ct_val.pkl -rw-r--r-- root/root 4416 2012-02-13 10:51 ./usr/share/chempy/fragments/cyclopentane.pkl -rw-r--r-- root/root 1654 2012-02-13 10:51 ./usr/share/chempy/fragments/trifluoromethane.pkl -rw-r--r-- root/root 4523 2012-02-13 10:51 ./usr/share/chempy/fragments/trp.pkl -rw-r--r-- root/root 4842 2012-02-13 10:51 ./usr/share/chempy/fragments/ct_lysn.pkl -rw-r--r-- root/root 7212 2012-02-13 10:51 ./usr/share/chempy/fragments/benzocycloheptane.pkl -rw-r--r-- root/root 4340 2012-02-13 10:51 ./usr/share/chempy/fragments/nt_met.pkl -rw-r--r-- root/root 3594 2012-02-13 10:51 ./usr/share/chempy/fragments/benzene.pkl -rw-r--r-- root/root 3594 2012-02-13 10:51 ./usr/share/chempy/fragments/leu.pkl -rw-r--r-- root/root 4787 2012-02-13 10:51 ./usr/share/chempy/fragments/nt_ile.pkl -rw-r--r-- root/root 4379 2012-02-13 10:51 ./usr/share/chempy/fragments/ct_hip.pkl -rw-r--r-- root/root 3469 2012-02-13 10:51 ./usr/share/chempy/fragments/ct_asn.pkl -rw-r--r-- root/root 2172 2012-02-13 10:51 ./usr/share/chempy/fragments/cys.pkl -rw-r--r-- root/root 4165 2012-02-13 10:51 ./usr/share/chempy/fragments/ct_his.pkl -rw-r--r-- 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./usr/share/doc/pymol/pymol-ref-card.pdf.gz -rw-r--r-- root/root 3547 2012-02-13 10:51 ./usr/share/doc/pymol/DEVELOPERS drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/share/pixmaps/ -rw-r--r-- root/root 4375 2009-07-13 05:13 ./usr/share/pixmaps/pymol.xpm drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/share/menu/ -rw-r--r-- root/root 206 2009-07-13 05:13 ./usr/share/menu/pymol drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/bin/ -rwxr-xr-x root/root 250 2012-05-22 13:40 ./usr/bin/pymol drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/web/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/web/examples/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/fast/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/fragments/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/bmin/ drwxr-xr-x root/root 0 2012-05-22 13:41 ./usr/lib/python2.7/dist-packages/chempy/champ/ -rw-r--r-- root/root 71632 2012-05-22 13:41 ./usr/lib/python2.7/dist-packages/chempy/champ/_champ.so drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/tinker/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol2/ drwxr-xr-x root/root 0 2012-05-22 13:41 ./usr/lib/python2.7/dist-packages/pymol/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/opengl/ drwxr-xr-x root/root 0 2012-05-22 13:41 ./usr/lib/python2.7/dist-packages/pymol/opengl/glut/ -rw-r--r-- root/root 40780 2012-05-22 13:41 ./usr/lib/python2.7/dist-packages/pymol/opengl/glut/_glut.so drwxr-xr-x root/root 0 2012-05-22 13:41 ./usr/lib/python2.7/dist-packages/pymol/opengl/glu/ -rw-r--r-- root/root 5344 2012-05-22 13:41 ./usr/lib/python2.7/dist-packages/pymol/opengl/glu/_glu_num.so -rw-r--r-- root/root 14552 2012-05-22 13:41 ./usr/lib/python2.7/dist-packages/pymol/opengl/glu/_glu.so drwxr-xr-x root/root 0 2012-05-22 13:41 ./usr/lib/python2.7/dist-packages/pymol/opengl/gl/ -rw-r--r-- root/root 5344 2012-05-22 13:41 ./usr/lib/python2.7/dist-packages/pymol/opengl/gl/_opengl_num.so -rw-r--r-- root/root 76928 2012-05-22 13:41 ./usr/lib/python2.7/dist-packages/pymol/opengl/gl/_opengl.so -rw-r--r-- root/root 15112 2012-05-22 13:41 ./usr/lib/python2.7/dist-packages/pymol/opengl/gl/openglutil.so -rw-r--r-- root/root 5344 2012-05-22 13:41 ./usr/lib/python2.7/dist-packages/pymol/opengl/gl/openglutil_num.so -rw-r--r-- root/root 7976552 2012-05-22 13:41 ./usr/lib/python2.7/dist-packages/pymol/_cmd.so drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/contrib/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_wx/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/startup/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/chempy/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/chempy/champ/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/pymol/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/pymol/opengl/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/pymol/opengl/glut/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/pymol/opengl/glu/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/pymol/opengl/gl/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/mime/ drwxr-xr-x root/root 0 2012-05-22 13:40 ./usr/lib/mime/packages/ -rw-r--r-- root/root 136 2007-05-08 03:30 ./usr/lib/mime/packages/pymol lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol-1.5.0.1.egg-info -> ../../../share/pyshared/pymol-1.5.0.1.egg-info lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/web/pymolhttpd.py -> ../../../../share/pyshared/web/pymolhttpd.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/web/examples/justhttpd.py -> ../../../../../share/pyshared/web/examples/justhttpd.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/bond_amber.py -> ../../../../share/pyshared/chempy/bond_amber.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/solvate.py -> ../../../../share/pyshared/chempy/solvate.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/gamess1.py -> ../../../../share/pyshared/chempy/gamess1.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/mae.py -> ../../../../share/pyshared/chempy/mae.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/mass.py -> ../../../../share/pyshared/chempy/mass.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/water_amber.py -> ../../../../share/pyshared/chempy/water_amber.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/protein_mmff.py -> ../../../../share/pyshared/chempy/protein_mmff.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/water_residues.py -> ../../../../share/pyshared/chempy/water_residues.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/mmd.py -> ../../../../share/pyshared/chempy/mmd.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/pdb.py -> ../../../../share/pyshared/chempy/pdb.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/bond_mmff.py -> ../../../../share/pyshared/chempy/bond_mmff.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/cc1.py -> ../../../../share/pyshared/chempy/cc1.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/fast/__init__.py -> ../../../../../share/pyshared/chempy/fast/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/cex.py -> ../../../../share/pyshared/chempy/cex.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/dictdb.py -> ../../../../share/pyshared/chempy/dictdb.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/cif.py -> ../../../../share/pyshared/chempy/cif.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/arc.py -> ../../../../share/pyshared/chempy/arc.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/protein_amber99.py -> ../../../../share/pyshared/chempy/protein_amber99.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/fragments/__init__.py -> ../../../../../share/pyshared/chempy/fragments/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/protein_residues.py -> ../../../../share/pyshared/chempy/protein_residues.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/mol2.py -> ../../../../share/pyshared/chempy/mol2.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/place.py -> ../../../../share/pyshared/chempy/place.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/xyz.py -> ../../../../share/pyshared/chempy/xyz.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/neighbor.py -> ../../../../share/pyshared/chempy/neighbor.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/lst.py -> ../../../../share/pyshared/chempy/lst.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/brick.py -> ../../../../share/pyshared/chempy/brick.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/charge.py -> ../../../../share/pyshared/chempy/charge.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/protein.py -> ../../../../share/pyshared/chempy/protein.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/gms.py -> ../../../../share/pyshared/chempy/gms.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/bmin/state.py -> ../../../../../share/pyshared/chempy/bmin/state.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/bmin/commands.py -> ../../../../../share/pyshared/chempy/bmin/commands.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/bmin/util.py -> ../../../../../share/pyshared/chempy/bmin/util.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/bmin/__init__.py -> ../../../../../share/pyshared/chempy/bmin/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/bmin/realtime.py -> ../../../../../share/pyshared/chempy/bmin/realtime.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/sdf.py -> ../../../../share/pyshared/chempy/sdf.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/io.py -> ../../../../share/pyshared/chempy/io.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/__init__.py -> ../../../../share/pyshared/chempy/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/pkl.py -> ../../../../share/pyshared/chempy/pkl.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/champ/amber99.py -> ../../../../../share/pyshared/chempy/champ/amber99.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/champ/formal_charges.py -> ../../../../../share/pyshared/chempy/champ/formal_charges.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/champ/assign.py -> ../../../../../share/pyshared/chempy/champ/assign.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/champ/__init__.py -> ../../../../../share/pyshared/chempy/champ/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/bonds.py -> ../../../../share/pyshared/chempy/bonds.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/tinker/amber.py -> ../../../../../share/pyshared/chempy/tinker/amber.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/tinker/state.py -> ../../../../../share/pyshared/chempy/tinker/state.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/tinker/keyword.py -> ../../../../../share/pyshared/chempy/tinker/keyword.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/tinker/__init__.py -> ../../../../../share/pyshared/chempy/tinker/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/tinker/realtime.py -> ../../../../../share/pyshared/chempy/tinker/realtime.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/map.py -> ../../../../share/pyshared/chempy/map.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/mol.py -> ../../../../share/pyshared/chempy/mol.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/protein_amber.py -> ../../../../share/pyshared/chempy/protein_amber.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/cpv.py -> ../../../../share/pyshared/chempy/cpv.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/hetatm.py -> ../../../../share/pyshared/chempy/hetatm.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/chempy/models.py -> ../../../../share/pyshared/chempy/models.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol2/cmd2.py -> ../../../../share/pyshared/pymol2/cmd2.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol2/__init__.py -> ../../../../share/pyshared/pymol2/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol2/make_cmd2.py -> ../../../../share/pyshared/pymol2/make_cmd2.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/shortcut.py -> ../../../../share/pyshared/pymol/shortcut.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/spheredirect.vs -> ../../../../../../share/pyshared/pymol/data/shaders/spheredirect.vs lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/sphere.fs -> ../../../../../../share/pyshared/pymol/data/shaders/sphere.fs lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/default_es.fs -> ../../../../../../share/pyshared/pymol/data/shaders/default_es.fs lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/default.vs -> ../../../../../../share/pyshared/pymol/data/shaders/default.vs lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/cylinder_no_ff.fs -> ../../../../../../share/pyshared/pymol/data/shaders/cylinder_no_ff.fs lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/shadertext.txt -> ../../../../../../share/pyshared/pymol/data/shaders/shadertext.txt lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/sphere_arb_fs.fs -> ../../../../../../share/pyshared/pymol/data/shaders/sphere_arb_fs.fs lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/default_es.vs -> ../../../../../../share/pyshared/pymol/data/shaders/default_es.vs lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/volume.fs -> ../../../../../../share/pyshared/pymol/data/shaders/volume.fs lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/sphere.vs -> ../../../../../../share/pyshared/pymol/data/shaders/sphere.vs lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/volume.vs -> ../../../../../../share/pyshared/pymol/data/shaders/volume.vs lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/default_es2.vs -> ../../../../../../share/pyshared/pymol/data/shaders/default_es2.vs lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/sphere_arb_vs.vs -> ../../../../../../share/pyshared/pymol/data/shaders/sphere_arb_vs.vs lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/cylinder.vs -> ../../../../../../share/pyshared/pymol/data/shaders/cylinder.vs lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/default_es2.fs -> ../../../../../../share/pyshared/pymol/data/shaders/default_es2.fs lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/cylinder.fs -> ../../../../../../share/pyshared/pymol/data/shaders/cylinder.fs lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/data/shaders/default.fs -> ../../../../../../share/pyshared/pymol/data/shaders/default.fs lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/completing.py -> ../../../../share/pyshared/pymol/completing.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/fitting.py -> ../../../../share/pyshared/pymol/fitting.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/exporting.py -> ../../../../share/pyshared/pymol/exporting.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/invocation.py -> ../../../../share/pyshared/pymol/invocation.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/colorramping.py -> ../../../../share/pyshared/pymol/colorramping.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/measurement.py -> ../../../../../share/pyshared/pymol/wizard/measurement.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/label.py -> ../../../../../share/pyshared/pymol/wizard/label.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/pseudoatom.py -> ../../../../../share/pyshared/pymol/wizard/pseudoatom.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/pair_fit.py -> ../../../../../share/pyshared/pymol/wizard/pair_fit.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/benchmark.py -> ../../../../../share/pyshared/pymol/wizard/benchmark.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/toggle.py -> ../../../../../share/pyshared/pymol/wizard/toggle.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/fedora.py -> ../../../../../share/pyshared/pymol/wizard/fedora.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/cleanup.py -> ../../../../../share/pyshared/pymol/wizard/cleanup.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/annotation.py -> ../../../../../share/pyshared/pymol/wizard/annotation.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/demo.py -> ../../../../../share/pyshared/pymol/wizard/demo.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/stereodemo.py -> ../../../../../share/pyshared/pymol/wizard/stereodemo.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/filter.py -> ../../../../../share/pyshared/pymol/wizard/filter.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/mutagenesis.py -> ../../../../../share/pyshared/pymol/wizard/mutagenesis.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/box.py -> ../../../../../share/pyshared/pymol/wizard/box.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/dragging.py -> ../../../../../share/pyshared/pymol/wizard/dragging.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/security.py -> ../../../../../share/pyshared/pymol/wizard/security.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/distance.py -> ../../../../../share/pyshared/pymol/wizard/distance.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/charge.py -> ../../../../../share/pyshared/pymol/wizard/charge.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/message.py -> ../../../../../share/pyshared/pymol/wizard/message.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/density.py -> ../../../../../share/pyshared/pymol/wizard/density.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/renaming.py -> ../../../../../share/pyshared/pymol/wizard/renaming.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/__init__.py -> ../../../../../share/pyshared/pymol/wizard/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/sculpting.py -> ../../../../../share/pyshared/pymol/wizard/sculpting.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizard/appearance.py -> ../../../../../share/pyshared/pymol/wizard/appearance.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/editing.py -> ../../../../share/pyshared/pymol/editing.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/m4x.py -> ../../../../share/pyshared/pymol/m4x.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/wizarding.py -> ../../../../share/pyshared/pymol/wizarding.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/selecting.py -> ../../../../share/pyshared/pymol/selecting.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/xray.py -> ../../../../share/pyshared/pymol/xray.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/vfont.py -> ../../../../share/pyshared/pymol/vfont.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/internal.py -> ../../../../share/pyshared/pymol/internal.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/xwin.py -> ../../../../share/pyshared/pymol/xwin.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/controlling.py -> ../../../../share/pyshared/pymol/controlling.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/helping.py -> ../../../../share/pyshared/pymol/helping.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/parsing.py -> ../../../../share/pyshared/pymol/parsing.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/parser.py -> ../../../../share/pyshared/pymol/parser.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/opengl/glut/glutconst.py -> ../../../../../../share/pyshared/pymol/opengl/glut/glutconst.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/opengl/glut/__init__.py -> ../../../../../../share/pyshared/pymol/opengl/glut/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/opengl/glu/gluconst.py -> ../../../../../../share/pyshared/pymol/opengl/glu/gluconst.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/opengl/glu/__init__.py -> ../../../../../../share/pyshared/pymol/opengl/glu/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/opengl/gl/glconst.py -> ../../../../../../share/pyshared/pymol/opengl/gl/glconst.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/opengl/gl/__init__.py -> ../../../../../../share/pyshared/pymol/opengl/gl/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/opengl/__init__.py -> ../../../../../share/pyshared/pymol/opengl/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/preset.py -> ../../../../share/pyshared/pymol/preset.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/constants_palette.py -> ../../../../share/pyshared/pymol/constants_palette.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/creating.py -> ../../../../share/pyshared/pymol/creating.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/querying.py -> ../../../../share/pyshared/pymol/querying.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/callback.py -> ../../../../share/pyshared/pymol/callback.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/computing.py -> ../../../../share/pyshared/pymol/computing.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/externing.py -> ../../../../share/pyshared/pymol/externing.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/api.py -> ../../../../share/pyshared/pymol/api.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/povray.py -> ../../../../share/pyshared/pymol/povray.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/locking.py -> ../../../../share/pyshared/pymol/locking.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/contrib/__init__.py -> ../../../../../share/pyshared/pymol/contrib/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/checking.py -> ../../../../share/pyshared/pymol/checking.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/util.py -> ../../../../share/pyshared/pymol/util.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/gui.py -> ../../../../share/pyshared/pymol/gui.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/importing.py -> ../../../../share/pyshared/pymol/importing.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/keyboard.py -> ../../../../share/pyshared/pymol/keyboard.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/viewing.py -> ../../../../share/pyshared/pymol/viewing.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/editor.py -> ../../../../share/pyshared/pymol/editor.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/keywords.py -> ../../../../share/pyshared/pymol/keywords.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/selector.py -> ../../../../share/pyshared/pymol/selector.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/setting.py -> ../../../../share/pyshared/pymol/setting.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/__init__.py -> ../../../../share/pyshared/pymol/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/moving.py -> ../../../../share/pyshared/pymol/moving.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/headering.py -> ../../../../share/pyshared/pymol/headering.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/monitoring.py -> ../../../../share/pyshared/pymol/monitoring.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/commanding.py -> ../../../../share/pyshared/pymol/commanding.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/feedingback.py -> ../../../../share/pyshared/pymol/feedingback.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/cmd.py -> ../../../../share/pyshared/pymol/cmd.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/experimenting.py -> ../../../../share/pyshared/pymol/experimenting.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/rpc.py -> ../../../../share/pyshared/pymol/rpc.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/cgo.py -> ../../../../share/pyshared/pymol/cgo.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/constants.py -> ../../../../share/pyshared/pymol/constants.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/movie.py -> ../../../../share/pyshared/pymol/movie.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pymol/menu.py -> ../../../../share/pyshared/pymol/menu.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_wx/__init__.py -> ../../../../share/pyshared/pmg_wx/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/PyMOLMapLoad.py -> ../../../../share/pyshared/pmg_tk/PyMOLMapLoad.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/PMGApp.py -> ../../../../share/pyshared/pmg_tk/PMGApp.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/ColorEditor.py -> ../../../../share/pyshared/pmg_tk/ColorEditor.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/startup/autodock.py -> ../../../../../share/pyshared/pmg_tk/startup/autodock.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/startup/remote_pdb_load.py -> ../../../../../share/pyshared/pmg_tk/startup/remote_pdb_load.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/startup/__init__.py -> ../../../../../share/pyshared/pmg_tk/startup/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/startup/apbs_tools.py -> ../../../../../share/pyshared/pmg_tk/startup/apbs_tools.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/SetEditor.py -> ../../../../share/pyshared/pmg_tk/SetEditor.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/__init__.py -> ../../../../share/pyshared/pmg_tk/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/Setting.py -> ../../../../share/pyshared/pmg_tk/Setting.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/Demo.py -> ../../../../share/pyshared/pmg_tk/Demo.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/ModalWindow.py -> ../../../../../../share/pyshared/pmg_tk/skins/normal/ModalWindow.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/volume.py -> ../../../../../../share/pyshared/pmg_tk/skins/normal/volume.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/SimpleColorChooser.py -> ../../../../../../share/pyshared/pmg_tk/skins/normal/SimpleColorChooser.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/hist.py -> ../../../../../../share/pyshared/pmg_tk/skins/normal/hist.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/ColorRampModel.py -> ../../../../../../share/pyshared/pmg_tk/skins/normal/ColorRampModel.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/builder.py -> ../../../../../../share/pyshared/pmg_tk/skins/normal/builder.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/__init__.py -> ../../../../../../share/pyshared/pmg_tk/skins/normal/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/normal/ColorMap.py -> ../../../../../../share/pyshared/pmg_tk/skins/normal/ColorMap.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/python2.7/dist-packages/pmg_tk/skins/__init__.py -> ../../../../../share/pyshared/pmg_tk/skins/__init__.py lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/chempy/champ/_champ.so -> ../../../../python2.7/dist-packages/chempy/champ/_champ.so lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/pymol/opengl/glut/_glut.so -> ../../../../../python2.7/dist-packages/pymol/opengl/glut/_glut.so lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/pymol/opengl/glu/_glu_num.so -> ../../../../../python2.7/dist-packages/pymol/opengl/glu/_glu_num.so lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/pymol/opengl/glu/_glu.so -> ../../../../../python2.7/dist-packages/pymol/opengl/glu/_glu.so lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/pymol/opengl/gl/_opengl_num.so -> ../../../../../python2.7/dist-packages/pymol/opengl/gl/_opengl_num.so lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/pymol/opengl/gl/_opengl.so -> ../../../../../python2.7/dist-packages/pymol/opengl/gl/_opengl.so lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/pymol/opengl/gl/openglutil.so -> ../../../../../python2.7/dist-packages/pymol/opengl/gl/openglutil.so lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/pymol/opengl/gl/openglutil_num.so -> ../../../../../python2.7/dist-packages/pymol/opengl/gl/openglutil_num.so lrwxrwxrwx root/root 0 2012-05-22 13:40 ./usr/lib/pyshared/python2.7/pymol/_cmd.so -> ../../../python2.7/dist-packages/pymol/_cmd.so ┌──────────────────────────────────────────────────────────────────────────────┐ │ Post Build │ └──────────────────────────────────────────────────────────────────────────────┘ ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /«BUILDDIR» Reading package lists... Building dependency tree... Reading state information... 0 upgraded, 0 newly installed, 0 to remove and 16 not upgraded. Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: bsdmainutils* debhelper* ed* file* fontconfig-config* freeglut3* freeglut3-dev* gettext* gettext-base* groff-base* html2text* intltool-debian* libblas3gf* libcroco3* libdrm2* libexpat1* libexpat1-dev* libffi5* libfontconfig1* libfreetype6* libfreetype6-dev* libgfortran3* libgl1-mesa-dev* libgl1-mesa-glx* libglapi-mesa* libglew-dev* libglew1.7* libglib2.0-0* libglu1-mesa* libglu1-mesa-dev* libgraphite3* libice-dev* libice6* libjpeg8* libkpathsea6* liblapack3gf* liblcms1* libmagic1* libopenjpeg2* libpaper-utils* libpaper1* libpcre3* libpipeline1* libpng12-0* libpng12-dev* libpoppler13* libptexenc1* libpthread-stubs0* libpthread-stubs0-dev* libpython2.7* libsm-dev* libsm6* libsqlite3-0* libssl-dev* libssl1.0.0* libunistring0* libx11-6* libx11-data* libx11-dev* libxau-dev* libxau6* libxaw7* libxcb1* libxcb1-dev* libxdamage1* libxdmcp-dev* libxdmcp6* libxext-dev* libxext6* libxfixes3* libxi6* libxml2* libxmu6* libxpm4* libxt-dev* libxt6* libxxf86vm1* luatex* man-db* mesa-common-dev* mime-support* po-debconf* python* python-dev* python-minimal* python-numpy* python-support* python2.7* python2.7-dev* python2.7-minimal* sbuild-build-depends-core-dummy* sbuild-build-depends-pymol-dummy* tcl8.4* tcl8.4-dev* tex-common* texlive-base* texlive-binaries* texlive-common* texlive-doc-base* texlive-latex-base* tk8.4* tk8.4-dev* ttf-dejavu-core* x11-common* x11proto-core-dev* x11proto-input-dev* x11proto-kb-dev* x11proto-xext-dev* xorg-sgml-doctools* xtrans-dev* zlib1g-dev* 0 upgraded, 0 newly installed, 111 to remove and 16 not upgraded. After this operation, 240 MB disk space will be freed. (Reading database ... 19651 files and directories currently installed.) Removing sbuild-build-depends-pymol-dummy ... Removing debhelper ... Removing man-db ... Purging configuration files for man-db ... Removing bsdmainutils ... Purging configuration files for bsdmainutils ... Removing texlive-latex-base ... Purging configuration files for texlive-latex-base ... Removing texlive-base ... Purging configuration files for texlive-base ... Removing texlive-binaries ... Removing ed ... Removing file ... Removing luatex ... Removing libpoppler13 ... Purging configuration files for libpoppler13 ... Removing libfontconfig1:armhf ... Purging configuration files for libfontconfig1:armhf ... Removing fontconfig-config ... Purging configuration files for fontconfig-config ... Removing freeglut3-dev ... Removing freeglut3 ... Purging configuration files for freeglut3 ... Removing po-debconf ... Removing intltool-debian ... Removing gettext ... Removing gettext-base ... Removing groff-base ... Purging configuration files for groff-base ... Removing html2text ... Purging configuration files for html2text ... Removing python-numpy ... Removing liblapack3gf ... Purging configuration files for liblapack3gf ... Removing libblas3gf ... Purging configuration files for libblas3gf ... Removing libcroco3:armhf ... Purging configuration files for libcroco3:armhf ... Removing libglew-dev:armhf ... Removing libglu1-mesa-dev ... Removing libglew1.7:armhf ... Purging configuration files for libglew1.7:armhf ... Removing libglu1-mesa:armhf ... Purging configuration files for libglu1-mesa:armhf ... Removing libgl1-mesa-dev ... Removing libgl1-mesa-glx:armhf ... Purging configuration files for libgl1-mesa-glx:armhf ... Removing libdrm2:armhf ... Purging configuration files for libdrm2:armhf ... Removing python-dev ... Removing python2.7-dev ... Removing python-support ... Purging configuration files for python-support ... Removing python ... Purging configuration files for python ... Removing libpython2.7 ... Purging configuration files for libpython2.7 ... Removing python2.7 ... Purging configuration files for python2.7 ... Removing libexpat1-dev ... Removing libexpat1:armhf ... Purging configuration files for libexpat1:armhf ... Removing libglib2.0-0:armhf ... Purging configuration files for libglib2.0-0:armhf ... Removing libffi5:armhf ... Purging configuration files for libffi5:armhf ... Removing libfreetype6-dev ... Removing libfreetype6:armhf ... Purging configuration files for libfreetype6:armhf ... Removing libgfortran3:armhf ... Purging configuration files for libgfortran3:armhf ... Removing libglapi-mesa:armhf ... Purging configuration files for libglapi-mesa:armhf ... Removing libgraphite3 ... Purging configuration files for libgraphite3 ... Removing tk8.4-dev ... Removing libxt-dev:armhf ... Removing libsm-dev:armhf ... Removing libice-dev:armhf ... Removing libxaw7:armhf ... Purging configuration files for libxaw7:armhf ... Removing libxmu6:armhf ... Purging configuration files for libxmu6:armhf ... Removing libxt6:armhf ... Purging configuration files for libxt6:armhf ... Removing libsm6:armhf ... Purging configuration files for libsm6:armhf ... Removing libice6:armhf ... Purging configuration files for libice6:armhf ... Removing libjpeg8:armhf ... Removing libptexenc1 ... Purging configuration files for libptexenc1 ... Removing libkpathsea6 ... Purging configuration files for libkpathsea6 ... Removing liblcms1 ... Purging configuration files for liblcms1 ... Removing libmagic1:armhf ... Purging configuration files for libmagic1:armhf ... Removing libopenjpeg2 ... Purging configuration files for libopenjpeg2 ... Removing libpaper-utils ... Removing libpaper1:armhf ... Purging configuration files for libpaper1:armhf ... Removing libpcre3:armhf ... Purging configuration files for libpcre3:armhf ... Removing libpipeline1:armhf ... Purging configuration files for libpipeline1:armhf ... Removing libpng12-dev ... Removing libpng12-0:armhf ... Purging configuration files for libpng12-0:armhf ... Removing mesa-common-dev ... Removing libxext-dev:armhf ... Removing libx11-dev:armhf ... Removing libxcb1-dev:armhf ... Removing libpthread-stubs0-dev:armhf ... Removing libpthread-stubs0:armhf ... Removing libsqlite3-0:armhf ... Purging configuration files for libsqlite3-0:armhf ... Removing libssl-dev ... Removing python-minimal ... Removing python2.7-minimal ... Purging configuration files for python2.7-minimal ... Removing libssl1.0.0:armhf ... Purging configuration files for libssl1.0.0:armhf ... Removing libunistring0:armhf ... Purging configuration files for libunistring0:armhf ... Removing tk8.4 ... Purging configuration files for tk8.4 ... Removing libxxf86vm1:armhf ... Purging configuration files for libxxf86vm1:armhf ... Removing libxpm4:armhf ... Purging configuration files for libxpm4:armhf ... Removing libxi6:armhf ... Purging configuration files for libxi6:armhf ... Removing libxfixes3:armhf ... Purging configuration files for libxfixes3:armhf ... Removing libxext6:armhf ... Purging configuration files for libxext6:armhf ... Removing libxdamage1:armhf ... Purging configuration files for libxdamage1:armhf ... Removing libx11-6:armhf ... Purging configuration files for libx11-6:armhf ... Removing libx11-data ... Removing libxau-dev:armhf ... Removing libxcb1:armhf ... Purging configuration files for libxcb1:armhf ... Removing libxau6:armhf ... Purging configuration files for libxau6:armhf ... Removing libxdmcp-dev:armhf ... Removing libxdmcp6:armhf ... Purging configuration files for libxdmcp6:armhf ... Removing libxml2:armhf ... Purging configuration files for libxml2:armhf ... Removing mime-support ... Purging configuration files for mime-support ... Removing sbuild-build-depends-core-dummy ... Removing tcl8.4-dev ... Removing tcl8.4 ... Purging configuration files for tcl8.4 ... Removing texlive-doc-base ... Purging configuration files for texlive-doc-base ... Removing texlive-common ... Removing tex-common ... Purging configuration files for tex-common ... Removing ttf-dejavu-core ... Removing x11-common ... All runlevel operations denied by policy invoke-rc.d: policy-rc.d denied execution of stop. Purging configuration files for x11-common ... Removing x11proto-xext-dev ... Removing x11proto-input-dev ... Removing x11proto-core-dev ... Removing x11proto-kb-dev ... Removing xorg-sgml-doctools ... Removing xtrans-dev ... Removing zlib1g-dev:armhf ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Architecture: armhf Build-Space: 116668 Build-Time: 4256 Distribution: testing Install-Time: 283 Job: pymol_1.5.0.1-2 Package: pymol Package-Time: 4577 Source-Version: 1.5.0.1-2 Space: 116668 Status: successful Version: 1.5.0.1-2 ──────────────────────────────────────────────────────────────────────────────── Finished at 20120522-1342 Build needed 01:16:17, 116668k disc space