sbuild (Debian sbuild) 0.62.6 (07 Dec 2011) on build03.raspbian.lan ╔══════════════════════════════════════════════════════════════════════════════╗ ║ dipy 0.5.0-3 (armhf) 20 May 2012 08:38 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: dipy Version: 0.5.0-3 Source Version: 0.5.0-3 Distribution: testing Architecture: armhf I: NOTICE: Log filtering will replace 'build/dipy-XjXt7l/dipy-0.5.0' with '«PKGBUILDDIR»' I: NOTICE: Log filtering will replace 'build/dipy-XjXt7l' with '«BUILDDIR»' I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/testing-armhf-sbuild-974dcb35-64c8-4ca8-b466-05ac099cec82' 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: 'dipy' packaging is maintained in the 'Git' version control system at: git://github.com/neurodebian/dipy.git Need to get 2842 kB of source archives. Get:1 http://repo.raspbian.lan/raspbian/ testing/main dipy 0.5.0-3 (dsc) [1643 B] Get:2 http://repo.raspbian.lan/raspbian/ testing/main dipy 0.5.0-3 (tar) [203 kB] Get:3 http://repo.raspbian.lan/raspbian/ testing/main dipy 0.5.0-3 (tar) [2631 kB] Get:4 http://repo.raspbian.lan/raspbian/ testing/main dipy 0.5.0-3 (diff) [6447 B] Fetched 2842 kB in 0s (9192 kB/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-kAd7Tw/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 19 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 ... 10670 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-all-dev, python-support, python-numpy, python-scipy, cython (>= 0.13), python-matplotlib, python-sphinx (>= 1.0), python-nose, python-nibabel 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-all-dev, python-support, python-numpy, python-scipy, cython (>= 0.13), python-matplotlib, python-sphinx (>= 1.0), python-nose, python-nibabel dpkg-deb: building package `sbuild-build-depends-dipy-dummy' in `/«BUILDDIR»/resolver-ApoDzv/apt_archive/sbuild-build-depends-dipy-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install dipy 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 cython debhelper docutils-common file fontconfig fontconfig-config fonts-lyx gettext gettext-base gir1.2-glib-2.0 groff-base html2text intltool-debian libamd2.2.0 libatk1.0-0 libatk1.0-data libavahi-client3 libavahi-common-data libavahi-common3 libblas3gf libcairo2 libcroco3 libcups2 libdatrie1 libdb4.8 libdbus-1-3 libexpat1 libexpat1-dev libffi5 libfontconfig1 libfreetype6 libgcrypt11 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-common libgfortran3 libgirepository-1.0-1 libglib2.0-0 libgnutls26 libgpg-error0 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-common libjasper1 libjbig0 libjpeg8 libjs-jquery libjs-sphinxdoc libjs-underscore libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3gf libmagic1 libp11-kit0 libpango1.0-0 libpcre3 libpipeline1 libpixman-1-0 libpng12-0 libpython2.6 libpython2.7 libsqlite3-0 libssl-dev libssl1.0.0 libtasn1-3 libthai-data libthai0 libtiff4 libumfpack5.4.0 libunistring0 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxml2 libxrandr2 libxrender1 libxss1 man-db mime-support po-debconf python python-all python-all-dev python-cairo python-dateutil python-dev python-docutils python-gi python-gobject python-gobject-2 python-jinja2 python-markupsafe python-matplotlib python-matplotlib-data python-minimal python-nibabel python-nose python-numpy python-pkg-resources python-pygments python-pyparsing python-roman python-scipy python-sphinx python-support python-tz python2.6 python2.6-dev python2.6-minimal python2.7 python2.7-dev python2.7-minimal sgml-base shared-mime-info sphinx-common tcl8.5 tk8.5 ttf-dejavu-core x11-common xml-core zlib1g-dev Suggested packages: wamerican wordlist whois vacation dh-make gettext-doc groff cups-common rng-tools krb5-doc krb5-user librsvg2-common gvfs libjasper-runtime ttf-baekmuk ttf-arphic-gbsn00lp ttf-arphic-bsmi00lp ttf-arphic-gkai00mp ttf-arphic-bkai00mp less www-browser libmail-box-perl python-doc python-tk texlive-latex-recommended texlive-latex-base texlive-lang-french fonts-linuxlibertine ttf-linux-libertine python-gi-cairo python-gobject-2-dbg python-jinja2-doc dvipng ipython python-configobj python-excelerator python-gtk2 python-matplotlib-doc python-qt3 python-qt4 python-traits python-wxgtk2.8 texlive-extra-utils texlive-latex-extra python-nibabel-doc python-coverage python-nose-doc python-numpy-doc python-numpy-dbg gfortran python-distribute python-distribute-doc ttf-bitstream-vera python-profiler jsmath libjs-mathjax texlive-fonts-recommended python2.6-doc binfmt-support python2.7-doc sgml-base-doc tclreadline Recommended packages: curl wget lynx-cur autopoint dbus libglib2.0-data hicolor-icon-theme libgtk2.0-bin javascript-common krb5-locales libssl-doc libmail-sendmail-perl python-imaging libpaper-utils python-lxml docutils-doc python-glade2 python-dicom python-fuse python-chardet sphinx-doc xterm x-terminal-emulator The following NEW packages will be installed: bsdmainutils cython debhelper docutils-common file fontconfig fontconfig-config fonts-lyx gettext gettext-base gir1.2-glib-2.0 groff-base html2text intltool-debian libamd2.2.0 libatk1.0-0 libatk1.0-data libavahi-client3 libavahi-common-data libavahi-common3 libblas3gf libcairo2 libcroco3 libcups2 libdatrie1 libdb4.8 libdbus-1-3 libexpat1 libexpat1-dev libffi5 libfontconfig1 libfreetype6 libgcrypt11 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-common libgfortran3 libgirepository-1.0-1 libglib2.0-0 libgnutls26 libgpg-error0 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-common libjasper1 libjbig0 libjpeg8 libjs-jquery libjs-sphinxdoc libjs-underscore libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 liblapack3gf libmagic1 libp11-kit0 libpango1.0-0 libpcre3 libpipeline1 libpixman-1-0 libpng12-0 libpython2.6 libpython2.7 libsqlite3-0 libssl-dev libssl1.0.0 libtasn1-3 libthai-data libthai0 libtiff4 libumfpack5.4.0 libunistring0 libx11-6 libx11-data libxau6 libxcb-render0 libxcb-shm0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 libxi6 libxinerama1 libxml2 libxrandr2 libxrender1 libxss1 man-db mime-support po-debconf python python-all python-all-dev python-cairo python-dateutil python-dev python-docutils python-gi python-gobject python-gobject-2 python-jinja2 python-markupsafe python-matplotlib python-matplotlib-data python-minimal python-nibabel python-nose python-numpy python-pkg-resources python-pygments python-pyparsing python-roman python-scipy python-sphinx python-support python-tz python2.6 python2.6-dev python2.6-minimal python2.7 python2.7-dev python2.7-minimal sbuild-build-depends-dipy-dummy sgml-base shared-mime-info sphinx-common tcl8.5 tk8.5 ttf-dejavu-core x11-common xml-core zlib1g-dev 0 upgraded, 136 newly installed, 0 to remove and 19 not upgraded. Need to get 12.2 MB/110 MB of archives. After this operation, 270 MB of additional disk space will be used. Get:1 http://repo.raspbian.lan/raspbian/ testing/main python-nose all 1.1.2-3 [147 kB] Get:2 http://repo.raspbian.lan/raspbian/ testing/main python-scipy armhf 0.10.1+dfsg1-3 [10.2 MB] Get:3 http://repo.raspbian.lan/raspbian/ testing/main python-nibabel all 1.2.0-1 [1815 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 12.2 MB in 1s (10.3 MB/s) Selecting previously unselected package libpcre3:armhf. (Reading database ... 10670 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) ... 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Selecting previously unselected package python-tz. Unpacking python-tz (from .../python-tz_2011h-1_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 tcl8.5. Unpacking tcl8.5 (from .../tcl8.5_8.5.11-1_armhf.deb) ... Selecting previously unselected package tk8.5. Unpacking tk8.5 (from .../tk8.5_8.5.11-1_armhf.deb) ... Selecting previously unselected package python-matplotlib. Unpacking python-matplotlib (from .../python-matplotlib_1.1.1~rc1-1_armhf.deb) ... Selecting previously unselected package python-pkg-resources. Unpacking python-pkg-resources (from .../python-pkg-resources_0.6.24-1_all.deb) ... Selecting previously unselected package python-nose. Unpacking python-nose (from .../python-nose_1.1.2-3_all.deb) ... Selecting previously unselected package python-pygments. Unpacking python-pygments (from .../python-pygments_1.5+dfsg-1_all.deb) ... Selecting previously unselected package sphinx-common. Unpacking sphinx-common (from .../sphinx-common_1.1.3+dfsg-3_all.deb) ... Selecting previously unselected package python-sphinx. Unpacking python-sphinx (from .../python-sphinx_1.1.3+dfsg-3_all.deb) ... Selecting previously unselected package python-scipy. Unpacking python-scipy (from .../python-scipy_0.10.1+dfsg1-3_armhf.deb) ... Selecting previously unselected package python-nibabel. Unpacking python-nibabel (from .../python-nibabel_1.2.0-1_all.deb) ... Selecting previously unselected package sbuild-build-depends-dipy-dummy. Unpacking sbuild-build-depends-dipy-dummy (from .../sbuild-build-depends-dipy-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 libgpg-error0:armhf (1.10-3) ... Setting up libgcrypt11:armhf (1.5.0-3) ... Setting up libp11-kit0:armhf (0.12-3) ... Setting up libtasn1-3:armhf (2.12-1) ... Setting up libgnutls26:armhf (2.12.19-1) ... Setting up libkrb5support0:armhf (1.10+dfsg~beta1-2) ... Setting up libk5crypto3:armhf (1.10+dfsg~beta1-2) ... Setting up libkeyutils1:armhf (1.5.5-2) ... Setting up libkrb5-3:armhf (1.10+dfsg~beta1-2) ... Setting up libgssapi-krb5-2:armhf (1.10+dfsg~beta1-2) ... 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 libatk1.0-data (2.4.0-2) ... Setting up libatk1.0-0:armhf (2.4.0-2) ... Setting up libavahi-common-data:armhf (0.6.31-1) ... Setting up libavahi-common3:armhf (0.6.31-1) ... Setting up libdbus-1-3:armhf (1.5.12-1) ... Setting up libavahi-client3:armhf (0.6.31-1) ... 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 libpixman-1-0:armhf (0.24.4-1) ... Setting up libpng12-0:armhf (1.2.49-1) ... 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 libxcb-render0:armhf (1.8.1-1) ... Setting up libxcb-shm0:armhf (1.8.1-1) ... Setting up libxrender1:armhf (1:0.9.7-1) ... Setting up libcairo2:armhf (1.12.2-1) ... Setting up libcroco3:armhf (0.6.5-1) ... Setting up libcups2:armhf (1.5.2-5) ... Setting up libdatrie1:armhf (0.2.5-3) ... Setting up libjpeg8:armhf (8d-1) ... Setting up libjasper1:armhf (1.900.1-13) ... Setting up libjbig0:armhf (2.0-2) ... Setting up libtiff4:armhf (3.9.6-5) ... Setting up libgdk-pixbuf2.0-common (2.26.1-1) ... Setting up libgdk-pixbuf2.0-0:armhf (2.26.1-1) ... Setting up libgfortran3:armhf (4.7.0-1.1+rpi) ... Setting up libgtk2.0-common (2.24.10-1) ... Setting up libthai-data (0.1.17-1) ... Setting up libthai0:armhf (0.1.17-1) ... Setting up libxft2:armhf (2.2.0-3) ... Setting up fontconfig (2.9.0-3) ... Cleaning up old fontconfig caches... done. Regenerating fonts cache... done. Setting up libpango1.0-0:armhf (1.30.0-1) ... Setting up libxcomposite1:armhf (1:0.4.3-2) ... Setting up libxfixes3:armhf (1:5.0-4) ... Setting up libxcursor1:armhf (1:1.1.13-1) ... Setting up libxdamage1:armhf (1:1.1.3-2) ... Setting up libxext6:armhf (2:1.3.1-2) ... Setting up libxi6:armhf (2:1.6.0-1) ... Setting up libxinerama1:armhf (2:1.1.2-1) ... Setting up libxrandr2:armhf (2:1.3.2-2) ... Setting up shared-mime-info (0.90-1) ... Setting up libgtk2.0-0:armhf (2.24.10-1) ... Setting up libunistring0:armhf (0.9.3-5) ... 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 libxss1:armhf (1:1.2.2-1) ... Setting up libdb4.8:armhf (4.8.30-11) ... 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 python2.6-minimal (2.6.7-4) ... Setting up python2.6 (2.6.7-4) ... Setting up cython (0.15.1-2) ... 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 sgml-base (1.26+nmu1) ... Setting up xml-core (0.13) ... Setting up docutils-common (0.8.1-6) ... Setting up fonts-lyx (2.0.3-2) ... Setting up libgirepository-1.0-1 (1.32.1-1) ... Setting up gir1.2-glib-2.0 (1.32.1-1) ... Setting up libamd2.2.0 (1:3.4.0-2) ... 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 libjs-jquery (1.7.1-1) ... Setting up libjs-underscore (1.1.6-1) ... Setting up libjs-sphinxdoc (1.1.3+dfsg-3) ... 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 libpython2.6 (2.6.7-4) ... Setting up libpython2.7 (2.7.3~rc2-2.1) ... Setting up zlib1g-dev:armhf (1:1.2.7.dfsg-1) ... Setting up libssl-dev (1.0.1c-1) ... Setting up libumfpack5.4.0 (1:3.4.0-2) ... Setting up python-all (2.7.2-10) ... Setting up python2.7-dev (2.7.3~rc2-2.1) ... Setting up python-dev (2.7.2-10) ... Setting up python2.6-dev (2.6.7-4) ... Setting up python-all-dev (2.7.2-10) ... Setting up python-cairo (1.8.8-1) ... Setting up python-dateutil (1.5-1) ... Setting up python-roman (0.8.1-6) ... Setting up python-docutils (0.8.1-6) ... update-alternatives: using /usr/share/docutils/scripts/python2/rst-buildhtml to provide /usr/bin/rst-buildhtml (rst-buildhtml) in auto mode. update-alternatives: using /usr/share/docutils/scripts/python2/rst2html to provide /usr/bin/rst2html (rst2html) in auto mode. update-alternatives: using /usr/share/docutils/scripts/python2/rst2latex to provide /usr/bin/rst2latex (rst2latex) in auto mode. update-alternatives: using /usr/share/docutils/scripts/python2/rst2man to provide /usr/bin/rst2man (rst2man) in auto mode. update-alternatives: using /usr/share/docutils/scripts/python2/rst2odt to provide /usr/bin/rst2odt (rst2odt) in auto mode. update-alternatives: using /usr/share/docutils/scripts/python2/rst2odt_prepstyles to provide /usr/bin/rst2odt_prepstyles (rst2odt_prepstyles) in auto mode. update-alternatives: using /usr/share/docutils/scripts/python2/rst2pseudoxml to provide /usr/bin/rst2pseudoxml (rst2pseudoxml) in auto mode. update-alternatives: using /usr/share/docutils/scripts/python2/rst2s5 to provide /usr/bin/rst2s5 (rst2s5) in auto mode. update-alternatives: using /usr/share/docutils/scripts/python2/rst2xetex to provide /usr/bin/rst2xetex (rst2xetex) in auto mode. update-alternatives: using /usr/share/docutils/scripts/python2/rst2xml to provide /usr/bin/rst2xml (rst2xml) in auto mode. update-alternatives: using /usr/share/docutils/scripts/python2/rstpep2html to provide /usr/bin/rstpep2html (rstpep2html) in auto mode. Setting up python-gi (3.2.0-3) ... Setting up python-gobject-2 (2.28.6-10) ... Setting up python-gobject (3.2.0-3) ... Setting up python-markupsafe (0.15-1) ... Setting up python-jinja2 (2.6-1) ... Setting up python-matplotlib-data (1.1.1~rc1-1) ... Setting up python-pyparsing (1.5.2-2) ... Setting up python-tz (2011h-1) ... Setting up python-numpy (1:1.6.1-8) ... Setting up tcl8.5 (8.5.11-1) ... update-alternatives: using /usr/bin/tclsh8.5 to provide /usr/bin/tclsh (tclsh) in auto mode. Setting up tk8.5 (8.5.11-1) ... update-alternatives: using /usr/bin/wish8.5 to provide /usr/bin/wish (wish) in auto mode. Setting up python-matplotlib (1.1.1~rc1-1) ... Setting up python-pkg-resources (0.6.24-1) ... Setting up python-nose (1.1.2-3) ... Setting up python-pygments (1.5+dfsg-1) ... Setting up sphinx-common (1.1.3+dfsg-3) ... Setting up python-sphinx (1.1.3+dfsg-3) ... Setting up python-scipy (0.10.1+dfsg1-3) ... Setting up python-nibabel (1.2.0-1) ... Setting up sbuild-build-depends-dipy-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_2.13-30 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 cython_0.15.1-2 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 docutils-common_0.8.1-6 dpkg_1.16.2 dpkg-dev_1.16.2 e2fslibs_1.42.2-2 e2fsprogs_1.42.2-2 fakeroot_1.18.3-1 file_5.11-1 findutils_4.4.2-4 fontconfig_2.9.0-3 fontconfig-config_2.9.0-3 fonts-lyx_2.0.3-2 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 gir1.2-glib-2.0_1.32.1-1 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 libamd2.2.0_1:3.4.0-2 libatk1.0-0_2.4.0-2 libatk1.0-data_2.4.0-2 libattr1_1:2.4.46-5 libavahi-client3_0.6.31-1 libavahi-common-data_0.6.31-1 libavahi-common3_0.6.31-1 libblas3gf_1.2.20110419-2 libblkid1_2.20.1-4 libbz2-1.0_1.0.6-1 libc-bin_2.13-30 libc-dev-bin_2.13-30 libc6_2.13-30 libc6-dev_2.13-30 libcairo2_1.12.2-1 libclass-isa-perl_0.36-3 libcomerr2_1.42.2-2 libcroco3_0.6.5-1 libcups2_1.5.2-5 libdatrie1_0.2.5-3 libdb4.8_4.8.30-11 libdb5.1_5.1.29-1 libdbus-1-3_1.5.12-1 libdpkg-perl_1.16.2 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 libgc1c2_1:7.1-8 libgcc1_1:4.7.0-1.1+rpi libgcrypt11_1.5.0-3 libgdbm3_1.8.3-10 libgdk-pixbuf2.0-0_2.26.1-1 libgdk-pixbuf2.0-common_2.26.1-1 libgfortran3_4.7.0-1.1+rpi libgirepository-1.0-1_1.32.1-1 libglib2.0-0_2.32.2-1 libgmp10_2:5.0.4+dfsg-1 libgnutls26_2.12.19-1 libgomp1_4.7.0-1.1+rpi libgpg-error0_1.10-3 libgssapi-krb5-2_1.10+dfsg~beta1-2 libgtk2.0-0_2.24.10-1 libgtk2.0-common_2.24.10-1 libjasper1_1.900.1-13 libjbig0_2.0-2 libjpeg8_8d-1 libjs-jquery_1.7.1-1 libjs-sphinxdoc_1.1.3+dfsg-3 libjs-underscore_1.1.6-1 libk5crypto3_1.10+dfsg~beta1-2 libkeyutils1_1.5.5-2 libkrb5-3_1.10+dfsg~beta1-2 libkrb5support0_1.10+dfsg~beta1-2 liblapack3gf_3.3.1-1 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 libp11-kit0_0.12-3 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 libpango1.0-0_1.30.0-1 libpcre3_1:8.30-5 libpipeline1_1.2.1-1 libpixman-1-0_0.24.4-1 libpng12-0_1.2.49-1 libpython2.6_2.6.7-4 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 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 libtasn1-3_2.12-1 libtext-charwidth-perl_0.04-7 libtext-iconv-perl_1.7-5 libtext-wrapi18n-perl_0.06-7 libthai-data_0.1.17-1 libthai0_0.1.17-1 libtiff4_3.9.6-5 libtimedate-perl_1.2000-1 libtinfo5_5.9-7 libumfpack5.4.0_1:3.4.0-2 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 libxau6_1:1.0.7-1 libxcb-render0_1.8.1-1 libxcb-shm0_1.8.1-1 libxcb1_1.8.1-1 libxcomposite1_1:0.4.3-2 libxcursor1_1:1.1.13-1 libxdamage1_1:1.1.3-2 libxdmcp6_1:1.1.1-1 libxext6_2:1.3.1-2 libxfixes3_1:5.0-4 libxft2_2.2.0-3 libxi6_2:1.6.0-1 libxinerama1_2:1.1.2-1 libxml2_2.7.8.dfsg-9 libxrandr2_2:1.3.2-2 libxrender1_1:0.9.7-1 libxss1_1:1.2.2-1 linux-libc-dev_3.2.12-1 login_1:4.1.5-1 lsb-base_4.1+Debian0 make_3.81-8.1 man-db_2.6.1-2 mawk_1.3.3-17 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-all_2.7.2-10 python-all-dev_2.7.2-10 python-cairo_1.8.8-1 python-dateutil_1.5-1 python-dev_2.7.2-10 python-docutils_0.8.1-6 python-gi_3.2.0-3 python-gobject_3.2.0-3 python-gobject-2_2.28.6-10 python-jinja2_2.6-1 python-markupsafe_0.15-1 python-matplotlib_1.1.1~rc1-1 python-matplotlib-data_1.1.1~rc1-1 python-minimal_2.7.2-10 python-nibabel_1.2.0-1 python-nose_1.1.2-3 python-numpy_1:1.6.1-8 python-pkg-resources_0.6.24-1 python-pygments_1.5+dfsg-1 python-pyparsing_1.5.2-2 python-roman_0.8.1-6 python-scipy_0.10.1+dfsg1-3 python-sphinx_1.1.3+dfsg-3 python-support_1.0.14 python-tz_2011h-1 python2.6_2.6.7-4 python2.6-dev_2.6.7-4 python2.6-minimal_2.6.7-4 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-dipy-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.6 sgml-base_1.26+nmu1 shared-mime-info_0.90-1 sphinx-common_1.1.3+dfsg-3 sysv-rc_2.88dsf-22.1 sysvinit_2.88dsf-22.1 sysvinit-utils_2.88dsf-22.1 tar_1.26-4 tcl8.5_8.5.11-1 tk8.5_8.5.11-1 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 xml-core_0.13 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 Tue Sep 20 23:23:29 2011 UTC using DSA key ID 75C024C8 gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./dipy_0.5.0-3.dsc dpkg-source: info: extracting dipy in dipy-0.5.0 dpkg-source: info: unpacking dipy_0.5.0.orig.tar.gz dpkg-source: info: unpacking dipy_0.5.0.orig-doc-examples.tar.gz dpkg-source: info: unpacking dipy_0.5.0-3.debian.tar.gz dpkg-source: info: applying up_explicit_cdefs_inits dpkg-source: info: applying deb_no_sources_for_docs dpkg-source: info: applying debian-changes-0.5.0-3 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-974dcb35-64c8-4ca8-b466-05ac099cec82 SCHROOT_UID=106 SCHROOT_USER=buildd SHELL=/bin/sh TERM=xterm USER=buildd dpkg-buildpackage ───────────────── dpkg-buildpackage: source package dipy dpkg-buildpackage: source version 0.5.0-3 dpkg-source --before-build dipy-0.5.0 dpkg-buildpackage: host architecture armhf fakeroot debian/rules clean dh --buildsystem=python_distutils clean dh_testdir -O--buildsystem=python_distutils dh_auto_clean -O--buildsystem=python_distutils running clean 'build/lib.linux-armv7l-2.6' does not exist -- can't clean it 'build/bdist.linux-armv7l' does not exist -- can't clean it 'build/scripts-2.6' does not exist -- can't clean it 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 debian/rules override_dh_clean make[1]: Entering directory `/«PKGBUILDDIR»' : # I: Custom cleaning rm -rf build doc-stamp /usr/bin/make -C doc clean make[2]: Entering directory `/«PKGBUILDDIR»/doc' cd examples_built && rm -rf *.py *.rst *.png fig rm -rf _build/* rm *-stamp rm: cannot remove `*-stamp': No such file or directory make[2]: [clean] Error 1 (ignored) make[2]: Leaving directory `/«PKGBUILDDIR»/doc' dh_clean make[1]: Leaving directory `/«PKGBUILDDIR»' debian/rules build-arch dh --buildsystem=python_distutils build-arch dh_testdir -a -O--buildsystem=python_distutils dh_auto_configure -a -O--buildsystem=python_distutils debian/rules override_dh_auto_build make[1]: Entering directory `/«PKGBUILDDIR»' dh_auto_build running build running build_py creating build creating build/lib.linux-armv7l-2.6 creating build/lib.linux-armv7l-2.6/dipy copying dipy/__init__.py -> build/lib.linux-armv7l-2.6/dipy copying dipy/info.py -> build/lib.linux-armv7l-2.6/dipy copying dipy/pkg_info.py -> build/lib.linux-armv7l-2.6/dipy creating build/lib.linux-armv7l-2.6/dipy/align copying dipy/align/__init__.py -> build/lib.linux-armv7l-2.6/dipy/align copying dipy/align/aniso2iso.py -> build/lib.linux-armv7l-2.6/dipy/align creating build/lib.linux-armv7l-2.6/dipy/core copying dipy/core/onetime.py -> build/lib.linux-armv7l-2.6/dipy/core copying dipy/core/__init__.py -> build/lib.linux-armv7l-2.6/dipy/core copying dipy/core/triangle_subdivide.py -> build/lib.linux-armv7l-2.6/dipy/core copying dipy/core/geometry.py -> build/lib.linux-armv7l-2.6/dipy/core copying dipy/core/graph.py -> build/lib.linux-armv7l-2.6/dipy/core copying dipy/core/profile.py -> build/lib.linux-armv7l-2.6/dipy/core copying dipy/core/rng.py -> build/lib.linux-armv7l-2.6/dipy/core copying dipy/core/meshes.py -> build/lib.linux-armv7l-2.6/dipy/core copying dipy/core/sphere_stats.py -> build/lib.linux-armv7l-2.6/dipy/core creating build/lib.linux-armv7l-2.6/dipy/core/tests copying dipy/core/tests/__init__.py -> build/lib.linux-armv7l-2.6/dipy/core/tests copying dipy/core/tests/test_geometry.py -> build/lib.linux-armv7l-2.6/dipy/core/tests copying dipy/core/tests/test_graph.py -> build/lib.linux-armv7l-2.6/dipy/core/tests creating build/lib.linux-armv7l-2.6/dipy/tracking copying dipy/tracking/metrics.py -> build/lib.linux-armv7l-2.6/dipy/tracking copying dipy/tracking/propagation.py -> build/lib.linux-armv7l-2.6/dipy/tracking copying dipy/tracking/__init__.py -> build/lib.linux-armv7l-2.6/dipy/tracking copying dipy/tracking/learning.py -> build/lib.linux-armv7l-2.6/dipy/tracking creating build/lib.linux-armv7l-2.6/dipy/tracking/tests copying dipy/tracking/tests/__init__.py -> build/lib.linux-armv7l-2.6/dipy/tracking/tests copying dipy/tracking/tests/test_learning.py -> build/lib.linux-armv7l-2.6/dipy/tracking/tests copying dipy/tracking/tests/test_track_volumes.py -> build/lib.linux-armv7l-2.6/dipy/tracking/tests copying dipy/tracking/tests/test_propagation.py -> build/lib.linux-armv7l-2.6/dipy/tracking/tests copying dipy/tracking/tests/test_distances.py -> build/lib.linux-armv7l-2.6/dipy/tracking/tests copying dipy/tracking/tests/test_metrics.py -> build/lib.linux-armv7l-2.6/dipy/tracking/tests creating build/lib.linux-armv7l-2.6/dipy/reconst copying dipy/reconst/dti.py -> build/lib.linux-armv7l-2.6/dipy/reconst copying dipy/reconst/__init__.py -> build/lib.linux-armv7l-2.6/dipy/reconst copying dipy/reconst/qball.py -> build/lib.linux-armv7l-2.6/dipy/reconst copying dipy/reconst/maskedview.py -> build/lib.linux-armv7l-2.6/dipy/reconst copying dipy/reconst/gqi.py -> build/lib.linux-armv7l-2.6/dipy/reconst copying dipy/reconst/modelarray.py -> build/lib.linux-armv7l-2.6/dipy/reconst copying dipy/reconst/dandelion.py -> build/lib.linux-armv7l-2.6/dipy/reconst creating build/lib.linux-armv7l-2.6/dipy/reconst/tests copying dipy/reconst/tests/test_maskedview.py -> build/lib.linux-armv7l-2.6/dipy/reconst/tests copying dipy/reconst/tests/__init__.py -> build/lib.linux-armv7l-2.6/dipy/reconst/tests copying dipy/reconst/tests/test_qball.py -> build/lib.linux-armv7l-2.6/dipy/reconst/tests copying dipy/reconst/tests/test_reco_utils.py -> build/lib.linux-armv7l-2.6/dipy/reconst/tests copying dipy/reconst/tests/test_modelarray.py -> build/lib.linux-armv7l-2.6/dipy/reconst/tests copying dipy/reconst/tests/test_dti.py -> build/lib.linux-armv7l-2.6/dipy/reconst/tests copying dipy/reconst/tests/test_dandelion.py -> build/lib.linux-armv7l-2.6/dipy/reconst/tests copying dipy/reconst/tests/test_sphere_max.py -> build/lib.linux-armv7l-2.6/dipy/reconst/tests copying dipy/reconst/tests/test_gqsampling.py -> build/lib.linux-armv7l-2.6/dipy/reconst/tests creating build/lib.linux-armv7l-2.6/dipy/io copying dipy/io/__init__.py -> build/lib.linux-armv7l-2.6/dipy/io copying dipy/io/pickles.py -> build/lib.linux-armv7l-2.6/dipy/io copying dipy/io/dpy.py -> build/lib.linux-armv7l-2.6/dipy/io copying dipy/io/utils.py -> build/lib.linux-armv7l-2.6/dipy/io copying dipy/io/bvectxt.py -> build/lib.linux-armv7l-2.6/dipy/io creating build/lib.linux-armv7l-2.6/dipy/io/tests copying dipy/io/tests/__init__.py -> build/lib.linux-armv7l-2.6/dipy/io/tests copying dipy/io/tests/test_dpy.py -> build/lib.linux-armv7l-2.6/dipy/io/tests creating build/lib.linux-armv7l-2.6/dipy/viz copying dipy/viz/__init__.py -> build/lib.linux-armv7l-2.6/dipy/viz copying dipy/viz/fvtk.py -> build/lib.linux-armv7l-2.6/dipy/viz copying dipy/viz/colormap.py -> build/lib.linux-armv7l-2.6/dipy/viz creating build/lib.linux-armv7l-2.6/dipy/viz/tests copying dipy/viz/tests/__init__.py -> build/lib.linux-armv7l-2.6/dipy/viz/tests copying dipy/viz/tests/test_fvtk.py -> build/lib.linux-armv7l-2.6/dipy/viz/tests creating build/lib.linux-armv7l-2.6/dipy/testing copying dipy/testing/__init__.py -> build/lib.linux-armv7l-2.6/dipy/testing copying dipy/testing/_paramtestpy3.py -> build/lib.linux-armv7l-2.6/dipy/testing copying dipy/testing/lightunit.py -> build/lib.linux-armv7l-2.6/dipy/testing copying dipy/testing/_paramtestpy2.py -> build/lib.linux-armv7l-2.6/dipy/testing copying dipy/testing/nosepatch.py -> build/lib.linux-armv7l-2.6/dipy/testing copying dipy/testing/spherepoints.py -> build/lib.linux-armv7l-2.6/dipy/testing creating build/lib.linux-armv7l-2.6/dipy/boots copying dipy/boots/__init__.py -> build/lib.linux-armv7l-2.6/dipy/boots copying dipy/boots/resampling.py -> build/lib.linux-armv7l-2.6/dipy/boots creating build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/__init__.py -> build/lib.linux-armv7l-2.6/dipy/data creating build/lib.linux-armv7l-2.6/dipy/utils copying dipy/utils/__init__.py -> build/lib.linux-armv7l-2.6/dipy/utils copying dipy/utils/spheremakers.py -> build/lib.linux-armv7l-2.6/dipy/utils copying dipy/utils/tripwire.py -> build/lib.linux-armv7l-2.6/dipy/utils copying dipy/utils/optpkg.py -> build/lib.linux-armv7l-2.6/dipy/utils copying dipy/utils/arrfuncs.py -> build/lib.linux-armv7l-2.6/dipy/utils creating build/lib.linux-armv7l-2.6/dipy/utils/tests copying dipy/utils/tests/__init__.py -> build/lib.linux-armv7l-2.6/dipy/utils/tests copying dipy/utils/tests/test_arrfuncs.py -> build/lib.linux-armv7l-2.6/dipy/utils/tests copying dipy/utils/tests/test_spheremakers.py -> build/lib.linux-armv7l-2.6/dipy/utils/tests creating build/lib.linux-armv7l-2.6/dipy/external copying dipy/external/__init__.py -> build/lib.linux-armv7l-2.6/dipy/external copying dipy/external/fsl.py -> build/lib.linux-armv7l-2.6/dipy/external creating build/lib.linux-armv7l-2.6/dipy/external/tests copying dipy/external/tests/__init__.py -> build/lib.linux-armv7l-2.6/dipy/external/tests copying dipy/data/small_101D.nii.gz -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/eg_3voxels.pkl -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/evenly_distributed_sphere_642.npz -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/small_101D.bval -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/__init__.py -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/C1.pkl.gz -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/55dir_grad.bval -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/55dir_grad.bvec -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/fib2.pkl.gz -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/fib0.pkl.gz -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/tracks300.trk -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/small_101D.bvec -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/evenly_distributed_sphere_362.npz -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/small_64D.bvals.npy -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/small_64D.gradients.npy -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/fib1.pkl.gz -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/aniso_vox.nii.gz -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/small_64D.nii -> build/lib.linux-armv7l-2.6/dipy/data copying dipy/data/C3.pkl.gz -> build/lib.linux-armv7l-2.6/dipy/data running build_ext cythoning dipy/reconst/recspeed.pyx to dipy/reconst/recspeed.c building 'dipy.reconst.recspeed' extension creating build/temp.linux-armv7l-2.6 creating build/temp.linux-armv7l-2.6/dipy creating build/temp.linux-armv7l-2.6/dipy/reconst gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -I/usr/lib/pymodules/python2.6/numpy/core/include -I/usr/include/python2.6 -c dipy/reconst/recspeed.c -o build/temp.linux-armv7l-2.6/dipy/reconst/recspeed.o dipy/reconst/recspeed.c: In function '__pyx_pf_4dipy_7reconst_8recspeed_1peak_finding': dipy/reconst/recspeed.c:1783:14: warning: variable '__pyx_bshape_0_cpeak' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:1780:14: warning: variable '__pyx_bshape_1_cfaces' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:1779:14: warning: variable '__pyx_bshape_0_cfaces' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:1775:14: warning: variable '__pyx_bshape_0_codf' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:1761:7: warning: variable '__pyx_v_test' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c: In function '__pyx_pf_4dipy_7reconst_8recspeed_5argmax_from_countarrs': dipy/reconst/recspeed.c:3152:14: warning: variable '__pyx_bshape_0_cadj_inds' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3151:14: warning: variable '__pyx_bstride_0_cadj_inds' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3149:14: warning: variable '__pyx_bshape_0_cadj_counts' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3148:14: warning: variable '__pyx_bstride_0_cadj_counts' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3146:14: warning: variable '__pyx_bshape_0_cvertinds' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3145:14: warning: variable '__pyx_bstride_0_cvertinds' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3143:14: warning: variable '__pyx_bshape_0_cvals' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3142:14: warning: variable '__pyx_bstride_0_cvals' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c: At top level: /usr/lib/pymodules/python2.6/numpy/core/include/numpy/__ufunc_api.h:226:1: warning: '_import_umath' defined but not used [-Wunused-function] gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions build/temp.linux-armv7l-2.6/dipy/reconst/recspeed.o -o build/lib.linux-armv7l-2.6/dipy/reconst/recspeed.so cythoning dipy/tracking/distances.pyx to dipy/tracking/distances.c building 'dipy.tracking.distances' extension creating build/temp.linux-armv7l-2.6/dipy/tracking gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -I/usr/lib/pymodules/python2.6/numpy/core/include -I/usr/include/python2.6 -c dipy/tracking/distances.c -o build/temp.linux-armv7l-2.6/dipy/tracking/distances.o dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_normalized_3vec': dipy/tracking/distances.c:1551:14: warning: variable '__pyx_bshape_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1550:14: warning: variable '__pyx_bstride_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1548:14: warning: variable '__pyx_bshape_0_vec_in' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1547:14: warning: variable '__pyx_bstride_0_vec_in' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_1norm_3vec': dipy/tracking/distances.c:1692:14: warning: variable '__pyx_bshape_0_vec_in' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1691:14: warning: variable '__pyx_bstride_0_vec_in' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_2inner_3vecs': dipy/tracking/distances.c:1895:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1894:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1892:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1891:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_3sub_3vecs': dipy/tracking/distances.c:2110:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2109:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2107:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2106:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2104:14: warning: variable '__pyx_bshape_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2103:14: warning: variable '__pyx_bstride_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_4add_3vecs': dipy/tracking/distances.c:2361:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2360:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2358:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2357:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2355:14: warning: variable '__pyx_bshape_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2354:14: warning: variable '__pyx_bstride_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_5mul_3vecs': dipy/tracking/distances.c:2612:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2611:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2609:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2608:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2606:14: warning: variable '__pyx_bshape_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2605:14: warning: variable '__pyx_bstride_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_6mul_3vec': dipy/tracking/distances.c:2859:14: warning: variable '__pyx_bshape_0_fvec' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2858:14: warning: variable '__pyx_bstride_0_fvec' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2856:14: warning: variable '__pyx_bshape_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2855:14: warning: variable '__pyx_bstride_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_7cut_plane': dipy/tracking/distances.c:3130:14: warning: variable '__pyx_bshape_1_ref32' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3129:14: warning: variable '__pyx_bshape_0_ref32' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3128:14: warning: variable '__pyx_bstride_1_ref32' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3127:14: warning: variable '__pyx_bstride_0_ref32' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3125:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3124:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3123:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3122:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3120:14: warning: variable '__pyx_bshape_1_hit_arr' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3119:14: warning: variable '__pyx_bshape_0_hit_arr' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3118:14: warning: variable '__pyx_bstride_1_hit_arr' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3117:14: warning: variable '__pyx_bstride_0_hit_arr' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3115:14: warning: variable '__pyx_bshape_0_one_hit' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3114:14: warning: variable '__pyx_bstride_0_one_hit' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_8most_similar_track_mam': dipy/tracking/distances.c:4275:14: warning: variable '__pyx_bshape_1_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4274:14: warning: variable '__pyx_bshape_0_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4273:14: warning: variable '__pyx_bstride_1_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4272:14: warning: variable '__pyx_bstride_0_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4270:14: warning: variable '__pyx_bshape_1_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4269:14: warning: variable '__pyx_bshape_0_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4268:14: warning: variable '__pyx_bstride_1_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4267:14: warning: variable '__pyx_bstride_0_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4262:14: warning: variable '__pyx_bshape_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4261:14: warning: variable '__pyx_bstride_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_9bundles_distances_mam': dipy/tracking/distances.c:5237:14: warning: variable '__pyx_bshape_1_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5236:14: warning: variable '__pyx_bshape_0_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5235:14: warning: variable '__pyx_bstride_1_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5234:14: warning: variable '__pyx_bstride_0_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5232:14: warning: variable '__pyx_bshape_1_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5231:14: warning: variable '__pyx_bshape_0_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5230:14: warning: variable '__pyx_bstride_1_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5229:14: warning: variable '__pyx_bstride_0_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5224:14: warning: variable '__pyx_bshape_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5223:14: warning: variable '__pyx_bstride_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5202:10: warning: variable '__pyx_v_longest_track_len' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_10mam_distances': dipy/tracking/distances.c:6657:14: warning: variable '__pyx_bshape_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6656:14: warning: variable '__pyx_bstride_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6654:14: warning: variable '__pyx_bshape_1_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6653:14: warning: variable '__pyx_bshape_0_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6652:14: warning: variable '__pyx_bstride_1_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6651:14: warning: variable '__pyx_bstride_0_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6649:14: warning: variable '__pyx_bshape_1_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6648:14: warning: variable '__pyx_bshape_0_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6647:14: warning: variable '__pyx_bstride_1_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6646:14: warning: variable '__pyx_bstride_0_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_11minimum_closest_distance': dipy/tracking/distances.c:7330:14: warning: variable '__pyx_bshape_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7329:14: warning: variable '__pyx_bstride_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7327:14: warning: variable '__pyx_bshape_1_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7326:14: warning: variable '__pyx_bshape_0_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7325:14: warning: variable '__pyx_bstride_1_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7324:14: warning: variable '__pyx_bstride_0_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7322:14: warning: variable '__pyx_bshape_1_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7321:14: warning: variable '__pyx_bshape_0_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7320:14: warning: variable '__pyx_bstride_1_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7319:14: warning: variable '__pyx_bstride_0_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_12lee_perpendicular_distance': dipy/tracking/distances.c:7764:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7763:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7761:14: warning: variable '__pyx_bshape_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7760:14: warning: variable '__pyx_bstride_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7758:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7757:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7755:14: warning: variable '__pyx_bshape_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7754:14: warning: variable '__pyx_bstride_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_f_4dipy_8tracking_9distances_clee_perpendicular_distance': dipy/tracking/distances.c:8013:9: warning: variable '__pyx_v_l1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_13lee_angle_distance': dipy/tracking/distances.c:8270:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8269:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8267:14: warning: variable '__pyx_bshape_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8266:14: warning: variable '__pyx_bstride_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8264:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8263:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8261:14: warning: variable '__pyx_bshape_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8260:14: warning: variable '__pyx_bstride_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_14approx_polygon_track': dipy/tracking/distances.c:8642:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8641:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8640:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8639:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_15approximate_mdl_trajectory': dipy/tracking/distances.c:9095:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9094:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9092:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9091:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9089:14: warning: variable '__pyx_bshape_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9088:14: warning: variable '__pyx_bstride_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9086:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9085:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9084:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9083:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9081:14: warning: variable '__pyx_bshape_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9080:14: warning: variable '__pyx_bstride_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_18track_dist_3pts': dipy/tracking/distances.c:10696:14: warning: variable '__pyx_bshape_1_b' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10695:14: warning: variable '__pyx_bshape_0_b' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10694:14: warning: variable '__pyx_bstride_1_b' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10693:14: warning: variable '__pyx_bstride_0_b' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10691:14: warning: variable '__pyx_bshape_1_a' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10690:14: warning: variable '__pyx_bshape_0_a' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10689:14: warning: variable '__pyx_bstride_1_a' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10688:14: warning: variable '__pyx_bstride_0_a' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_19local_skeleton_clustering': dipy/tracking/distances.c:11271:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:11270:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:11269:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:11268:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:11253:8: warning: variable '__pyx_v_c' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_20local_skeleton_clustering_3pts': dipy/tracking/distances.c:12414:14: warning: variable '__pyx_bshape_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12413:14: warning: variable '__pyx_bshape_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12412:14: warning: variable '__pyx_bstride_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12411:14: warning: variable '__pyx_bstride_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12409:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12408:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12407:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12406:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_21larch_3split': dipy/tracking/distances.c:13299:14: warning: variable '__pyx_bshape_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13298:14: warning: variable '__pyx_bshape_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13297:14: warning: variable '__pyx_bstride_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13296:14: warning: variable '__pyx_bstride_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13294:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13293:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13292:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13291:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_22larch_3merge': dipy/tracking/distances.c:14199:14: warning: variable '__pyx_bshape_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14198:14: warning: variable '__pyx_bshape_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14197:14: warning: variable '__pyx_bstride_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14196:14: warning: variable '__pyx_bstride_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14194:14: warning: variable '__pyx_bshape_1_ch' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14193:14: warning: variable '__pyx_bshape_0_ch' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14192:14: warning: variable '__pyx_bstride_1_ch' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14191:14: warning: variable '__pyx_bstride_0_ch' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_23point_track_sq_distance_check': dipy/tracking/distances.c:15050:14: warning: variable '__pyx_bshape_0_point' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15049:14: warning: variable '__pyx_bstride_0_point' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15047:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15046:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15045:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15044:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_24track_roi_intersection_check': dipy/tracking/distances.c:15430:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15429:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15428:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15427:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15425:14: warning: variable '__pyx_bshape_1_roi' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15424:14: warning: variable '__pyx_bshape_0_roi' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15423:14: warning: variable '__pyx_bstride_1_roi' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15422:14: warning: variable '__pyx_bstride_0_roi' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: At top level: /usr/lib/pymodules/python2.6/numpy/core/include/numpy/__multiarray_api.h:1532:1: warning: '_import_array' defined but not used [-Wunused-function] /usr/lib/pymodules/python2.6/numpy/core/include/numpy/__ufunc_api.h:226:1: warning: '_import_umath' defined but not used [-Wunused-function] gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions build/temp.linux-armv7l-2.6/dipy/tracking/distances.o -o build/lib.linux-armv7l-2.6/dipy/tracking/distances.so cythoning dipy/tracking/vox2track.pyx to dipy/tracking/vox2track.c building 'dipy.tracking.vox2track' extension gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -I/usr/lib/pymodules/python2.6/numpy/core/include -I/usr/include/python2.6 -c dipy/tracking/vox2track.c -o build/temp.linux-armv7l-2.6/dipy/tracking/vox2track.o dipy/tracking/vox2track.c: In function '__pyx_pf_4dipy_8tracking_9vox2track_track_counts': dipy/tracking/vox2track.c:1219:14: warning: variable '__pyx_bshape_1_t' set but not used [-Wunused-but-set-variable] dipy/tracking/vox2track.c:1218:14: warning: variable '__pyx_bshape_0_t' set but not used [-Wunused-but-set-variable] dipy/tracking/vox2track.c:1217:14: warning: variable '__pyx_bstride_1_t' set but not used [-Wunused-but-set-variable] dipy/tracking/vox2track.c:1216:14: warning: variable '__pyx_bstride_0_t' set but not used [-Wunused-but-set-variable] dipy/tracking/vox2track.c: At top level: /usr/lib/pymodules/python2.6/numpy/core/include/numpy/__multiarray_api.h:1532:1: warning: '_import_array' defined but not used [-Wunused-function] /usr/lib/pymodules/python2.6/numpy/core/include/numpy/__ufunc_api.h:226:1: warning: '_import_umath' defined but not used [-Wunused-function] gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions build/temp.linux-armv7l-2.6/dipy/tracking/vox2track.o -o build/lib.linux-armv7l-2.6/dipy/tracking/vox2track.so cythoning dipy/tracking/propspeed.pyx to dipy/tracking/propspeed.c warning: dipy/tracking/propspeed.pyx:22:15: Function signature does not match previous declaration warning: dipy/tracking/propspeed.pyx:373:20: local variable 'ftmp' referenced before assignment building 'dipy.tracking.propspeed' extension gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -I/usr/lib/pymodules/python2.6/numpy/core/include -I/usr/include/python2.6 -c dipy/tracking/propspeed.c -o build/temp.linux-armv7l-2.6/dipy/tracking/propspeed.o dipy/tracking/propspeed.c: In function '__pyx_pf_4dipy_8tracking_9propspeed_ndarray_offset': dipy/tracking/propspeed.c:1161:14: warning: variable '__pyx_bshape_0_strides' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:1160:14: warning: variable '__pyx_bstride_0_strides' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:1158:14: warning: variable '__pyx_bshape_0_indices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:1157:14: warning: variable '__pyx_bstride_0_indices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c: In function '__pyx_pf_4dipy_8tracking_9propspeed_1eudx_both_directions': dipy/tracking/propspeed.c:2332:14: warning: variable '__pyx_bshape_3_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2331:14: warning: variable '__pyx_bshape_2_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2330:14: warning: variable '__pyx_bshape_1_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2329:14: warning: variable '__pyx_bshape_0_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2328:14: warning: variable '__pyx_bstride_3_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2327:14: warning: variable '__pyx_bstride_2_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2326:14: warning: variable '__pyx_bstride_1_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2325:14: warning: variable '__pyx_bstride_0_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2323:14: warning: variable '__pyx_bshape_1_odf_vertices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2322:14: warning: variable '__pyx_bshape_0_odf_vertices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2321:14: warning: variable '__pyx_bstride_1_odf_vertices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2320:14: warning: variable '__pyx_bstride_0_odf_vertices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2318:14: warning: variable '__pyx_bshape_3_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2317:14: warning: variable '__pyx_bshape_2_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2316:14: warning: variable '__pyx_bshape_1_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2315:14: warning: variable '__pyx_bshape_0_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2314:14: warning: variable '__pyx_bstride_3_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2313:14: warning: variable '__pyx_bstride_2_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2312:14: warning: variable '__pyx_bstride_1_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2311:14: warning: variable '__pyx_bstride_0_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2309:14: warning: variable '__pyx_bshape_0_seed' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2308:14: warning: variable '__pyx_bstride_0_seed' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2295:9: warning: variable '__pyx_v_pvstr' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c: At top level: /usr/lib/pymodules/python2.6/numpy/core/include/numpy/__ufunc_api.h:226:1: warning: '_import_umath' defined but not used [-Wunused-function] dipy/tracking/propspeed.c: In function '__pyx_pf_4dipy_8tracking_9propspeed_1eudx_both_directions': dipy/tracking/propspeed.c:2734:17: warning: '__pyx_v_ftmp' may be used uninitialized in this function [-Wuninitialized] gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions build/temp.linux-armv7l-2.6/dipy/tracking/propspeed.o -o build/lib.linux-armv7l-2.6/dipy/tracking/propspeed.so running build running build_py creating build/lib.linux-armv7l-2.7 creating build/lib.linux-armv7l-2.7/dipy copying dipy/__init__.py -> build/lib.linux-armv7l-2.7/dipy copying dipy/info.py -> build/lib.linux-armv7l-2.7/dipy copying dipy/pkg_info.py -> build/lib.linux-armv7l-2.7/dipy creating build/lib.linux-armv7l-2.7/dipy/align copying dipy/align/__init__.py -> build/lib.linux-armv7l-2.7/dipy/align copying dipy/align/aniso2iso.py -> build/lib.linux-armv7l-2.7/dipy/align creating build/lib.linux-armv7l-2.7/dipy/core copying dipy/core/onetime.py -> build/lib.linux-armv7l-2.7/dipy/core copying dipy/core/__init__.py -> build/lib.linux-armv7l-2.7/dipy/core copying dipy/core/triangle_subdivide.py -> build/lib.linux-armv7l-2.7/dipy/core copying dipy/core/geometry.py -> build/lib.linux-armv7l-2.7/dipy/core copying dipy/core/graph.py -> build/lib.linux-armv7l-2.7/dipy/core copying dipy/core/profile.py -> build/lib.linux-armv7l-2.7/dipy/core copying dipy/core/rng.py -> build/lib.linux-armv7l-2.7/dipy/core copying dipy/core/meshes.py -> build/lib.linux-armv7l-2.7/dipy/core copying dipy/core/sphere_stats.py -> build/lib.linux-armv7l-2.7/dipy/core creating build/lib.linux-armv7l-2.7/dipy/core/tests copying dipy/core/tests/__init__.py -> build/lib.linux-armv7l-2.7/dipy/core/tests copying dipy/core/tests/test_geometry.py -> build/lib.linux-armv7l-2.7/dipy/core/tests copying dipy/core/tests/test_graph.py -> build/lib.linux-armv7l-2.7/dipy/core/tests creating build/lib.linux-armv7l-2.7/dipy/tracking copying dipy/tracking/metrics.py -> build/lib.linux-armv7l-2.7/dipy/tracking copying dipy/tracking/propagation.py -> build/lib.linux-armv7l-2.7/dipy/tracking copying dipy/tracking/__init__.py -> build/lib.linux-armv7l-2.7/dipy/tracking copying dipy/tracking/learning.py -> build/lib.linux-armv7l-2.7/dipy/tracking creating build/lib.linux-armv7l-2.7/dipy/tracking/tests copying dipy/tracking/tests/__init__.py -> build/lib.linux-armv7l-2.7/dipy/tracking/tests copying dipy/tracking/tests/test_learning.py -> build/lib.linux-armv7l-2.7/dipy/tracking/tests copying dipy/tracking/tests/test_track_volumes.py -> build/lib.linux-armv7l-2.7/dipy/tracking/tests copying dipy/tracking/tests/test_propagation.py -> build/lib.linux-armv7l-2.7/dipy/tracking/tests copying dipy/tracking/tests/test_distances.py -> build/lib.linux-armv7l-2.7/dipy/tracking/tests copying dipy/tracking/tests/test_metrics.py -> build/lib.linux-armv7l-2.7/dipy/tracking/tests creating build/lib.linux-armv7l-2.7/dipy/reconst copying dipy/reconst/dti.py -> build/lib.linux-armv7l-2.7/dipy/reconst copying dipy/reconst/__init__.py -> build/lib.linux-armv7l-2.7/dipy/reconst copying dipy/reconst/qball.py -> build/lib.linux-armv7l-2.7/dipy/reconst copying dipy/reconst/maskedview.py -> build/lib.linux-armv7l-2.7/dipy/reconst copying dipy/reconst/gqi.py -> build/lib.linux-armv7l-2.7/dipy/reconst copying dipy/reconst/modelarray.py -> build/lib.linux-armv7l-2.7/dipy/reconst copying dipy/reconst/dandelion.py -> build/lib.linux-armv7l-2.7/dipy/reconst creating build/lib.linux-armv7l-2.7/dipy/reconst/tests copying dipy/reconst/tests/test_maskedview.py -> build/lib.linux-armv7l-2.7/dipy/reconst/tests copying dipy/reconst/tests/__init__.py -> build/lib.linux-armv7l-2.7/dipy/reconst/tests copying dipy/reconst/tests/test_qball.py -> build/lib.linux-armv7l-2.7/dipy/reconst/tests copying dipy/reconst/tests/test_reco_utils.py -> build/lib.linux-armv7l-2.7/dipy/reconst/tests copying dipy/reconst/tests/test_modelarray.py -> build/lib.linux-armv7l-2.7/dipy/reconst/tests copying dipy/reconst/tests/test_dti.py -> build/lib.linux-armv7l-2.7/dipy/reconst/tests copying dipy/reconst/tests/test_dandelion.py -> build/lib.linux-armv7l-2.7/dipy/reconst/tests copying dipy/reconst/tests/test_sphere_max.py -> build/lib.linux-armv7l-2.7/dipy/reconst/tests copying dipy/reconst/tests/test_gqsampling.py -> build/lib.linux-armv7l-2.7/dipy/reconst/tests creating build/lib.linux-armv7l-2.7/dipy/io copying dipy/io/__init__.py -> build/lib.linux-armv7l-2.7/dipy/io copying dipy/io/pickles.py -> build/lib.linux-armv7l-2.7/dipy/io copying dipy/io/dpy.py -> build/lib.linux-armv7l-2.7/dipy/io copying dipy/io/utils.py -> build/lib.linux-armv7l-2.7/dipy/io copying dipy/io/bvectxt.py -> build/lib.linux-armv7l-2.7/dipy/io creating build/lib.linux-armv7l-2.7/dipy/io/tests copying dipy/io/tests/__init__.py -> build/lib.linux-armv7l-2.7/dipy/io/tests copying dipy/io/tests/test_dpy.py -> build/lib.linux-armv7l-2.7/dipy/io/tests creating build/lib.linux-armv7l-2.7/dipy/viz copying dipy/viz/__init__.py -> build/lib.linux-armv7l-2.7/dipy/viz copying dipy/viz/fvtk.py -> build/lib.linux-armv7l-2.7/dipy/viz copying dipy/viz/colormap.py -> build/lib.linux-armv7l-2.7/dipy/viz creating build/lib.linux-armv7l-2.7/dipy/viz/tests copying dipy/viz/tests/__init__.py -> build/lib.linux-armv7l-2.7/dipy/viz/tests copying dipy/viz/tests/test_fvtk.py -> build/lib.linux-armv7l-2.7/dipy/viz/tests creating build/lib.linux-armv7l-2.7/dipy/testing copying dipy/testing/__init__.py -> build/lib.linux-armv7l-2.7/dipy/testing copying dipy/testing/_paramtestpy3.py -> build/lib.linux-armv7l-2.7/dipy/testing copying dipy/testing/lightunit.py -> build/lib.linux-armv7l-2.7/dipy/testing copying dipy/testing/_paramtestpy2.py -> build/lib.linux-armv7l-2.7/dipy/testing copying dipy/testing/nosepatch.py -> build/lib.linux-armv7l-2.7/dipy/testing copying dipy/testing/spherepoints.py -> build/lib.linux-armv7l-2.7/dipy/testing creating build/lib.linux-armv7l-2.7/dipy/boots copying dipy/boots/__init__.py -> build/lib.linux-armv7l-2.7/dipy/boots copying dipy/boots/resampling.py -> build/lib.linux-armv7l-2.7/dipy/boots creating build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/__init__.py -> build/lib.linux-armv7l-2.7/dipy/data creating build/lib.linux-armv7l-2.7/dipy/utils copying dipy/utils/__init__.py -> build/lib.linux-armv7l-2.7/dipy/utils copying dipy/utils/spheremakers.py -> build/lib.linux-armv7l-2.7/dipy/utils copying dipy/utils/tripwire.py -> build/lib.linux-armv7l-2.7/dipy/utils copying dipy/utils/optpkg.py -> build/lib.linux-armv7l-2.7/dipy/utils copying dipy/utils/arrfuncs.py -> build/lib.linux-armv7l-2.7/dipy/utils creating build/lib.linux-armv7l-2.7/dipy/utils/tests copying dipy/utils/tests/__init__.py -> build/lib.linux-armv7l-2.7/dipy/utils/tests copying dipy/utils/tests/test_arrfuncs.py -> build/lib.linux-armv7l-2.7/dipy/utils/tests copying dipy/utils/tests/test_spheremakers.py -> build/lib.linux-armv7l-2.7/dipy/utils/tests creating build/lib.linux-armv7l-2.7/dipy/external copying dipy/external/__init__.py -> build/lib.linux-armv7l-2.7/dipy/external copying dipy/external/fsl.py -> build/lib.linux-armv7l-2.7/dipy/external creating build/lib.linux-armv7l-2.7/dipy/external/tests copying dipy/external/tests/__init__.py -> build/lib.linux-armv7l-2.7/dipy/external/tests copying dipy/data/small_101D.nii.gz -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/eg_3voxels.pkl -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/evenly_distributed_sphere_642.npz -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/small_101D.bval -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/__init__.py -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/C1.pkl.gz -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/55dir_grad.bval -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/55dir_grad.bvec -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/fib2.pkl.gz -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/fib0.pkl.gz -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/tracks300.trk -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/small_101D.bvec -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/evenly_distributed_sphere_362.npz -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/small_64D.bvals.npy -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/small_64D.gradients.npy -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/fib1.pkl.gz -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/aniso_vox.nii.gz -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/small_64D.nii -> build/lib.linux-armv7l-2.7/dipy/data copying dipy/data/C3.pkl.gz -> build/lib.linux-armv7l-2.7/dipy/data running build_ext cythoning dipy/reconst/recspeed.pyx to dipy/reconst/recspeed.c building 'dipy.reconst.recspeed' extension creating build/temp.linux-armv7l-2.7 creating build/temp.linux-armv7l-2.7/dipy creating build/temp.linux-armv7l-2.7/dipy/reconst gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -I/usr/lib/pymodules/python2.7/numpy/core/include -I/usr/include/python2.7 -c dipy/reconst/recspeed.c -o build/temp.linux-armv7l-2.7/dipy/reconst/recspeed.o dipy/reconst/recspeed.c: In function '__pyx_pf_4dipy_7reconst_8recspeed_1peak_finding': dipy/reconst/recspeed.c:1783:14: warning: variable '__pyx_bshape_0_cpeak' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:1780:14: warning: variable '__pyx_bshape_1_cfaces' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:1779:14: warning: variable '__pyx_bshape_0_cfaces' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:1775:14: warning: variable '__pyx_bshape_0_codf' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:1761:7: warning: variable '__pyx_v_test' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c: In function '__pyx_pf_4dipy_7reconst_8recspeed_5argmax_from_countarrs': dipy/reconst/recspeed.c:3152:14: warning: variable '__pyx_bshape_0_cadj_inds' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3151:14: warning: variable '__pyx_bstride_0_cadj_inds' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3149:14: warning: variable '__pyx_bshape_0_cadj_counts' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3148:14: warning: variable '__pyx_bstride_0_cadj_counts' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3146:14: warning: variable '__pyx_bshape_0_cvertinds' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3145:14: warning: variable '__pyx_bstride_0_cvertinds' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3143:14: warning: variable '__pyx_bshape_0_cvals' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3142:14: warning: variable '__pyx_bstride_0_cvals' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c: At top level: /usr/lib/pymodules/python2.7/numpy/core/include/numpy/__ufunc_api.h:226:1: warning: '_import_umath' defined but not used [-Wunused-function] gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro build/temp.linux-armv7l-2.7/dipy/reconst/recspeed.o -o build/lib.linux-armv7l-2.7/dipy/reconst/recspeed.so cythoning dipy/tracking/distances.pyx to dipy/tracking/distances.c building 'dipy.tracking.distances' extension creating build/temp.linux-armv7l-2.7/dipy/tracking gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -I/usr/lib/pymodules/python2.7/numpy/core/include -I/usr/include/python2.7 -c dipy/tracking/distances.c -o build/temp.linux-armv7l-2.7/dipy/tracking/distances.o dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_normalized_3vec': dipy/tracking/distances.c:1551:14: warning: variable '__pyx_bshape_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1550:14: warning: variable '__pyx_bstride_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1548:14: warning: variable '__pyx_bshape_0_vec_in' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1547:14: warning: variable '__pyx_bstride_0_vec_in' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_1norm_3vec': dipy/tracking/distances.c:1692:14: warning: variable '__pyx_bshape_0_vec_in' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1691:14: warning: variable '__pyx_bstride_0_vec_in' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_2inner_3vecs': dipy/tracking/distances.c:1895:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1894:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1892:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1891:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_3sub_3vecs': dipy/tracking/distances.c:2110:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2109:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2107:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2106:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2104:14: warning: variable '__pyx_bshape_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2103:14: warning: variable '__pyx_bstride_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_4add_3vecs': dipy/tracking/distances.c:2361:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2360:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2358:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2357:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2355:14: warning: variable '__pyx_bshape_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2354:14: warning: variable '__pyx_bstride_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_5mul_3vecs': dipy/tracking/distances.c:2612:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2611:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2609:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2608:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2606:14: warning: variable '__pyx_bshape_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2605:14: warning: variable '__pyx_bstride_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_6mul_3vec': dipy/tracking/distances.c:2859:14: warning: variable '__pyx_bshape_0_fvec' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2858:14: warning: variable '__pyx_bstride_0_fvec' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2856:14: warning: variable '__pyx_bshape_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2855:14: warning: variable '__pyx_bstride_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_7cut_plane': dipy/tracking/distances.c:3130:14: warning: variable '__pyx_bshape_1_ref32' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3129:14: warning: variable '__pyx_bshape_0_ref32' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3128:14: warning: variable '__pyx_bstride_1_ref32' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3127:14: warning: variable '__pyx_bstride_0_ref32' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3125:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3124:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3123:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3122:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3120:14: warning: variable '__pyx_bshape_1_hit_arr' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3119:14: warning: variable '__pyx_bshape_0_hit_arr' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3118:14: warning: variable '__pyx_bstride_1_hit_arr' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3117:14: warning: variable '__pyx_bstride_0_hit_arr' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3115:14: warning: variable '__pyx_bshape_0_one_hit' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3114:14: warning: variable '__pyx_bstride_0_one_hit' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_8most_similar_track_mam': dipy/tracking/distances.c:4275:14: warning: variable '__pyx_bshape_1_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4274:14: warning: variable '__pyx_bshape_0_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4273:14: warning: variable '__pyx_bstride_1_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4272:14: warning: variable '__pyx_bstride_0_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4270:14: warning: variable '__pyx_bshape_1_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4269:14: warning: variable '__pyx_bshape_0_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4268:14: warning: variable '__pyx_bstride_1_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4267:14: warning: variable '__pyx_bstride_0_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4262:14: warning: variable '__pyx_bshape_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4261:14: warning: variable '__pyx_bstride_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_9bundles_distances_mam': dipy/tracking/distances.c:5237:14: warning: variable '__pyx_bshape_1_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5236:14: warning: variable '__pyx_bshape_0_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5235:14: warning: variable '__pyx_bstride_1_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5234:14: warning: variable '__pyx_bstride_0_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5232:14: warning: variable '__pyx_bshape_1_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5231:14: warning: variable '__pyx_bshape_0_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5230:14: warning: variable '__pyx_bstride_1_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5229:14: warning: variable '__pyx_bstride_0_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5224:14: warning: variable '__pyx_bshape_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5223:14: warning: variable '__pyx_bstride_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5202:10: warning: variable '__pyx_v_longest_track_len' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_10mam_distances': dipy/tracking/distances.c:6657:14: warning: variable '__pyx_bshape_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6656:14: warning: variable '__pyx_bstride_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6654:14: warning: variable '__pyx_bshape_1_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6653:14: warning: variable '__pyx_bshape_0_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6652:14: warning: variable '__pyx_bstride_1_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6651:14: warning: variable '__pyx_bstride_0_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6649:14: warning: variable '__pyx_bshape_1_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6648:14: warning: variable '__pyx_bshape_0_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6647:14: warning: variable '__pyx_bstride_1_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6646:14: warning: variable '__pyx_bstride_0_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_11minimum_closest_distance': dipy/tracking/distances.c:7330:14: warning: variable '__pyx_bshape_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7329:14: warning: variable '__pyx_bstride_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7327:14: warning: variable '__pyx_bshape_1_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7326:14: warning: variable '__pyx_bshape_0_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7325:14: warning: variable '__pyx_bstride_1_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7324:14: warning: variable '__pyx_bstride_0_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7322:14: warning: variable '__pyx_bshape_1_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7321:14: warning: variable '__pyx_bshape_0_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7320:14: warning: variable '__pyx_bstride_1_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7319:14: warning: variable '__pyx_bstride_0_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_12lee_perpendicular_distance': dipy/tracking/distances.c:7764:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7763:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7761:14: warning: variable '__pyx_bshape_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7760:14: warning: variable '__pyx_bstride_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7758:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7757:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7755:14: warning: variable '__pyx_bshape_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7754:14: warning: variable '__pyx_bstride_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_f_4dipy_8tracking_9distances_clee_perpendicular_distance': dipy/tracking/distances.c:8013:9: warning: variable '__pyx_v_l1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_13lee_angle_distance': dipy/tracking/distances.c:8270:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8269:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8267:14: warning: variable '__pyx_bshape_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8266:14: warning: variable '__pyx_bstride_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8264:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8263:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8261:14: warning: variable '__pyx_bshape_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8260:14: warning: variable '__pyx_bstride_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_14approx_polygon_track': dipy/tracking/distances.c:8642:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8641:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8640:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8639:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_15approximate_mdl_trajectory': dipy/tracking/distances.c:9095:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9094:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9092:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9091:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9089:14: warning: variable '__pyx_bshape_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9088:14: warning: variable '__pyx_bstride_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9086:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9085:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9084:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9083:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9081:14: warning: variable '__pyx_bshape_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9080:14: warning: variable '__pyx_bstride_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_18track_dist_3pts': dipy/tracking/distances.c:10696:14: warning: variable '__pyx_bshape_1_b' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10695:14: warning: variable '__pyx_bshape_0_b' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10694:14: warning: variable '__pyx_bstride_1_b' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10693:14: warning: variable '__pyx_bstride_0_b' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10691:14: warning: variable '__pyx_bshape_1_a' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10690:14: warning: variable '__pyx_bshape_0_a' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10689:14: warning: variable '__pyx_bstride_1_a' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10688:14: warning: variable '__pyx_bstride_0_a' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_19local_skeleton_clustering': dipy/tracking/distances.c:11271:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:11270:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:11269:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:11268:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:11253:8: warning: variable '__pyx_v_c' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_20local_skeleton_clustering_3pts': dipy/tracking/distances.c:12414:14: warning: variable '__pyx_bshape_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12413:14: warning: variable '__pyx_bshape_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12412:14: warning: variable '__pyx_bstride_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12411:14: warning: variable '__pyx_bstride_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12409:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12408:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12407:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12406:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_21larch_3split': dipy/tracking/distances.c:13299:14: warning: variable '__pyx_bshape_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13298:14: warning: variable '__pyx_bshape_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13297:14: warning: variable '__pyx_bstride_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13296:14: warning: variable '__pyx_bstride_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13294:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13293:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13292:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13291:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_22larch_3merge': dipy/tracking/distances.c:14199:14: warning: variable '__pyx_bshape_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14198:14: warning: variable '__pyx_bshape_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14197:14: warning: variable '__pyx_bstride_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14196:14: warning: variable '__pyx_bstride_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14194:14: warning: variable '__pyx_bshape_1_ch' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14193:14: warning: variable '__pyx_bshape_0_ch' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14192:14: warning: variable '__pyx_bstride_1_ch' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14191:14: warning: variable '__pyx_bstride_0_ch' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_23point_track_sq_distance_check': dipy/tracking/distances.c:15050:14: warning: variable '__pyx_bshape_0_point' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15049:14: warning: variable '__pyx_bstride_0_point' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15047:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15046:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15045:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15044:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_24track_roi_intersection_check': dipy/tracking/distances.c:15430:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15429:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15428:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15427:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15425:14: warning: variable '__pyx_bshape_1_roi' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15424:14: warning: variable '__pyx_bshape_0_roi' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15423:14: warning: variable '__pyx_bstride_1_roi' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15422:14: warning: variable '__pyx_bstride_0_roi' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: At top level: /usr/lib/pymodules/python2.7/numpy/core/include/numpy/__multiarray_api.h:1532:1: warning: '_import_array' defined but not used [-Wunused-function] /usr/lib/pymodules/python2.7/numpy/core/include/numpy/__ufunc_api.h:226:1: warning: '_import_umath' defined but not used [-Wunused-function] gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro build/temp.linux-armv7l-2.7/dipy/tracking/distances.o -o build/lib.linux-armv7l-2.7/dipy/tracking/distances.so cythoning dipy/tracking/vox2track.pyx to dipy/tracking/vox2track.c building 'dipy.tracking.vox2track' extension gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -I/usr/lib/pymodules/python2.7/numpy/core/include -I/usr/include/python2.7 -c dipy/tracking/vox2track.c -o build/temp.linux-armv7l-2.7/dipy/tracking/vox2track.o dipy/tracking/vox2track.c: In function '__pyx_pf_4dipy_8tracking_9vox2track_track_counts': dipy/tracking/vox2track.c:1219:14: warning: variable '__pyx_bshape_1_t' set but not used [-Wunused-but-set-variable] dipy/tracking/vox2track.c:1218:14: warning: variable '__pyx_bshape_0_t' set but not used [-Wunused-but-set-variable] dipy/tracking/vox2track.c:1217:14: warning: variable '__pyx_bstride_1_t' set but not used [-Wunused-but-set-variable] dipy/tracking/vox2track.c:1216:14: warning: variable '__pyx_bstride_0_t' set but not used [-Wunused-but-set-variable] dipy/tracking/vox2track.c: At top level: /usr/lib/pymodules/python2.7/numpy/core/include/numpy/__multiarray_api.h:1532:1: warning: '_import_array' defined but not used [-Wunused-function] /usr/lib/pymodules/python2.7/numpy/core/include/numpy/__ufunc_api.h:226:1: warning: '_import_umath' defined but not used [-Wunused-function] gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro build/temp.linux-armv7l-2.7/dipy/tracking/vox2track.o -o build/lib.linux-armv7l-2.7/dipy/tracking/vox2track.so cythoning dipy/tracking/propspeed.pyx to dipy/tracking/propspeed.c warning: dipy/tracking/propspeed.pyx:22:15: Function signature does not match previous declaration warning: dipy/tracking/propspeed.pyx:373:20: local variable 'ftmp' referenced before assignment building 'dipy.tracking.propspeed' extension gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -I/usr/lib/pymodules/python2.7/numpy/core/include -I/usr/include/python2.7 -c dipy/tracking/propspeed.c -o build/temp.linux-armv7l-2.7/dipy/tracking/propspeed.o dipy/tracking/propspeed.c: In function '__pyx_pf_4dipy_8tracking_9propspeed_ndarray_offset': dipy/tracking/propspeed.c:1161:14: warning: variable '__pyx_bshape_0_strides' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:1160:14: warning: variable '__pyx_bstride_0_strides' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:1158:14: warning: variable '__pyx_bshape_0_indices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:1157:14: warning: variable '__pyx_bstride_0_indices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c: In function '__pyx_pf_4dipy_8tracking_9propspeed_1eudx_both_directions': dipy/tracking/propspeed.c:2332:14: warning: variable '__pyx_bshape_3_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2331:14: warning: variable '__pyx_bshape_2_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2330:14: warning: variable '__pyx_bshape_1_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2329:14: warning: variable '__pyx_bshape_0_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2328:14: warning: variable '__pyx_bstride_3_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2327:14: warning: variable '__pyx_bstride_2_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2326:14: warning: variable '__pyx_bstride_1_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2325:14: warning: variable '__pyx_bstride_0_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2323:14: warning: variable '__pyx_bshape_1_odf_vertices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2322:14: warning: variable '__pyx_bshape_0_odf_vertices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2321:14: warning: variable '__pyx_bstride_1_odf_vertices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2320:14: warning: variable '__pyx_bstride_0_odf_vertices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2318:14: warning: variable '__pyx_bshape_3_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2317:14: warning: variable '__pyx_bshape_2_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2316:14: warning: variable '__pyx_bshape_1_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2315:14: warning: variable '__pyx_bshape_0_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2314:14: warning: variable '__pyx_bstride_3_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2313:14: warning: variable '__pyx_bstride_2_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2312:14: warning: variable '__pyx_bstride_1_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2311:14: warning: variable '__pyx_bstride_0_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2309:14: warning: variable '__pyx_bshape_0_seed' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2308:14: warning: variable '__pyx_bstride_0_seed' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2295:9: warning: variable '__pyx_v_pvstr' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c: At top level: /usr/lib/pymodules/python2.7/numpy/core/include/numpy/__ufunc_api.h:226:1: warning: '_import_umath' defined but not used [-Wunused-function] dipy/tracking/propspeed.c: In function '__pyx_pf_4dipy_8tracking_9propspeed_1eudx_both_directions': dipy/tracking/propspeed.c:2734:17: warning: '__pyx_v_ftmp' may be used uninitialized in this function [-Wuninitialized] gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro build/temp.linux-armv7l-2.7/dipy/tracking/propspeed.o -o build/lib.linux-armv7l-2.7/dipy/tracking/propspeed.so echo "backend : Agg" >| build/matplotlibrc make[1]: Leaving directory `/«PKGBUILDDIR»' debian/rules override_dh_auto_test make[1]: Entering directory `/«PKGBUILDDIR»' : # Do not test just after build, lets install and then test make[1]: Leaving directory `/«PKGBUILDDIR»' fakeroot debian/rules binary-arch dh --buildsystem=python_distutils binary-arch dh_testroot -a -O--buildsystem=python_distutils dh_prep -a -O--buildsystem=python_distutils dh_installdirs -a -O--buildsystem=python_distutils debian/rules override_dh_auto_install pyversions: missing X(S)-Python-Version in control file, fall back to debian/pyversions pyversions: missing debian/pyversions file, fall back to supported versions make[1]: Entering directory `/«PKGBUILDDIR»' dh_auto_install running install running build running build_py running build_ext skipping 'dipy/reconst/recspeed.c' Cython extension (up-to-date) building 'dipy.reconst.recspeed' extension gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -I/usr/lib/pymodules/python2.6/numpy/core/include -I/usr/include/python2.6 -c dipy/reconst/recspeed.c -o build/temp.linux-armv7l-2.6/dipy/reconst/recspeed.o dipy/reconst/recspeed.c: In function '__pyx_pf_4dipy_7reconst_8recspeed_1peak_finding': dipy/reconst/recspeed.c:1783:14: warning: variable '__pyx_bshape_0_cpeak' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:1780:14: warning: variable '__pyx_bshape_1_cfaces' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:1779:14: warning: variable '__pyx_bshape_0_cfaces' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:1775:14: warning: variable '__pyx_bshape_0_codf' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:1761:7: warning: variable '__pyx_v_test' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c: In function '__pyx_pf_4dipy_7reconst_8recspeed_5argmax_from_countarrs': dipy/reconst/recspeed.c:3152:14: warning: variable '__pyx_bshape_0_cadj_inds' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3151:14: warning: variable '__pyx_bstride_0_cadj_inds' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3149:14: warning: variable '__pyx_bshape_0_cadj_counts' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3148:14: warning: variable '__pyx_bstride_0_cadj_counts' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3146:14: warning: variable '__pyx_bshape_0_cvertinds' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3145:14: warning: variable '__pyx_bstride_0_cvertinds' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3143:14: warning: variable '__pyx_bshape_0_cvals' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c:3142:14: warning: variable '__pyx_bstride_0_cvals' set but not used [-Wunused-but-set-variable] dipy/reconst/recspeed.c: At top level: /usr/lib/pymodules/python2.6/numpy/core/include/numpy/__ufunc_api.h:226:1: warning: '_import_umath' defined but not used [-Wunused-function] gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions build/temp.linux-armv7l-2.6/dipy/reconst/recspeed.o -o build/lib.linux-armv7l-2.6/dipy/reconst/recspeed.so skipping 'dipy/tracking/distances.c' Cython extension (up-to-date) building 'dipy.tracking.distances' extension gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -I/usr/lib/pymodules/python2.6/numpy/core/include -I/usr/include/python2.6 -c dipy/tracking/distances.c -o build/temp.linux-armv7l-2.6/dipy/tracking/distances.o dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_normalized_3vec': dipy/tracking/distances.c:1551:14: warning: variable '__pyx_bshape_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1550:14: warning: variable '__pyx_bstride_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1548:14: warning: variable '__pyx_bshape_0_vec_in' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1547:14: warning: variable '__pyx_bstride_0_vec_in' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_1norm_3vec': dipy/tracking/distances.c:1692:14: warning: variable '__pyx_bshape_0_vec_in' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1691:14: warning: variable '__pyx_bstride_0_vec_in' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_2inner_3vecs': dipy/tracking/distances.c:1895:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1894:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1892:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:1891:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_3sub_3vecs': dipy/tracking/distances.c:2110:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2109:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2107:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2106:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2104:14: warning: variable '__pyx_bshape_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2103:14: warning: variable '__pyx_bstride_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_4add_3vecs': dipy/tracking/distances.c:2361:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2360:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2358:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2357:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2355:14: warning: variable '__pyx_bshape_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2354:14: warning: variable '__pyx_bstride_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_5mul_3vecs': dipy/tracking/distances.c:2612:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2611:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2609:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2608:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2606:14: warning: variable '__pyx_bshape_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2605:14: warning: variable '__pyx_bstride_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_6mul_3vec': dipy/tracking/distances.c:2859:14: warning: variable '__pyx_bshape_0_fvec' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2858:14: warning: variable '__pyx_bstride_0_fvec' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2856:14: warning: variable '__pyx_bshape_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:2855:14: warning: variable '__pyx_bstride_0_vec_out' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_7cut_plane': dipy/tracking/distances.c:3130:14: warning: variable '__pyx_bshape_1_ref32' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3129:14: warning: variable '__pyx_bshape_0_ref32' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3128:14: warning: variable '__pyx_bstride_1_ref32' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3127:14: warning: variable '__pyx_bstride_0_ref32' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3125:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3124:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3123:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3122:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3120:14: warning: variable '__pyx_bshape_1_hit_arr' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3119:14: warning: variable '__pyx_bshape_0_hit_arr' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3118:14: warning: variable '__pyx_bstride_1_hit_arr' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3117:14: warning: variable '__pyx_bstride_0_hit_arr' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3115:14: warning: variable '__pyx_bshape_0_one_hit' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:3114:14: warning: variable '__pyx_bstride_0_one_hit' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_8most_similar_track_mam': dipy/tracking/distances.c:4275:14: warning: variable '__pyx_bshape_1_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4274:14: warning: variable '__pyx_bshape_0_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4273:14: warning: variable '__pyx_bstride_1_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4272:14: warning: variable '__pyx_bstride_0_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4270:14: warning: variable '__pyx_bshape_1_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4269:14: warning: variable '__pyx_bshape_0_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4268:14: warning: variable '__pyx_bstride_1_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4267:14: warning: variable '__pyx_bstride_0_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4262:14: warning: variable '__pyx_bshape_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:4261:14: warning: variable '__pyx_bstride_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_9bundles_distances_mam': dipy/tracking/distances.c:5237:14: warning: variable '__pyx_bshape_1_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5236:14: warning: variable '__pyx_bshape_0_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5235:14: warning: variable '__pyx_bstride_1_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5234:14: warning: variable '__pyx_bstride_0_t1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5232:14: warning: variable '__pyx_bshape_1_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5231:14: warning: variable '__pyx_bshape_0_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5230:14: warning: variable '__pyx_bstride_1_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5229:14: warning: variable '__pyx_bstride_0_t2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5224:14: warning: variable '__pyx_bshape_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5223:14: warning: variable '__pyx_bstride_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:5202:10: warning: variable '__pyx_v_longest_track_len' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_10mam_distances': dipy/tracking/distances.c:6657:14: warning: variable '__pyx_bshape_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6656:14: warning: variable '__pyx_bstride_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6654:14: warning: variable '__pyx_bshape_1_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6653:14: warning: variable '__pyx_bshape_0_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6652:14: warning: variable '__pyx_bstride_1_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6651:14: warning: variable '__pyx_bstride_0_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6649:14: warning: variable '__pyx_bshape_1_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6648:14: warning: variable '__pyx_bshape_0_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6647:14: warning: variable '__pyx_bstride_1_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:6646:14: warning: variable '__pyx_bstride_0_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_11minimum_closest_distance': dipy/tracking/distances.c:7330:14: warning: variable '__pyx_bshape_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7329:14: warning: variable '__pyx_bstride_0_distances_buffer' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7327:14: warning: variable '__pyx_bshape_1_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7326:14: warning: variable '__pyx_bshape_0_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7325:14: warning: variable '__pyx_bstride_1_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7324:14: warning: variable '__pyx_bstride_0_track2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7322:14: warning: variable '__pyx_bshape_1_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7321:14: warning: variable '__pyx_bshape_0_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7320:14: warning: variable '__pyx_bstride_1_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7319:14: warning: variable '__pyx_bstride_0_track1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_12lee_perpendicular_distance': dipy/tracking/distances.c:7764:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7763:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7761:14: warning: variable '__pyx_bshape_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7760:14: warning: variable '__pyx_bstride_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7758:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7757:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7755:14: warning: variable '__pyx_bshape_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:7754:14: warning: variable '__pyx_bstride_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_f_4dipy_8tracking_9distances_clee_perpendicular_distance': dipy/tracking/distances.c:8013:9: warning: variable '__pyx_v_l1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_13lee_angle_distance': dipy/tracking/distances.c:8270:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8269:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8267:14: warning: variable '__pyx_bshape_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8266:14: warning: variable '__pyx_bstride_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8264:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8263:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8261:14: warning: variable '__pyx_bshape_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8260:14: warning: variable '__pyx_bstride_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_14approx_polygon_track': dipy/tracking/distances.c:8642:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8641:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8640:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:8639:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_15approximate_mdl_trajectory': dipy/tracking/distances.c:9095:14: warning: variable '__pyx_bshape_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9094:14: warning: variable '__pyx_bstride_0_fvec2' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9092:14: warning: variable '__pyx_bshape_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9091:14: warning: variable '__pyx_bstride_0_fvec1' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9089:14: warning: variable '__pyx_bshape_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9088:14: warning: variable '__pyx_bstride_0_fvec4' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9086:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9085:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9084:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9083:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9081:14: warning: variable '__pyx_bshape_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:9080:14: warning: variable '__pyx_bstride_0_fvec3' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_18track_dist_3pts': dipy/tracking/distances.c:10696:14: warning: variable '__pyx_bshape_1_b' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10695:14: warning: variable '__pyx_bshape_0_b' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10694:14: warning: variable '__pyx_bstride_1_b' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10693:14: warning: variable '__pyx_bstride_0_b' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10691:14: warning: variable '__pyx_bshape_1_a' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10690:14: warning: variable '__pyx_bshape_0_a' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10689:14: warning: variable '__pyx_bstride_1_a' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:10688:14: warning: variable '__pyx_bstride_0_a' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_19local_skeleton_clustering': dipy/tracking/distances.c:11271:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:11270:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:11269:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:11268:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:11253:8: warning: variable '__pyx_v_c' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_20local_skeleton_clustering_3pts': dipy/tracking/distances.c:12414:14: warning: variable '__pyx_bshape_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12413:14: warning: variable '__pyx_bshape_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12412:14: warning: variable '__pyx_bstride_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12411:14: warning: variable '__pyx_bstride_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12409:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12408:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12407:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:12406:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_21larch_3split': dipy/tracking/distances.c:13299:14: warning: variable '__pyx_bshape_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13298:14: warning: variable '__pyx_bshape_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13297:14: warning: variable '__pyx_bstride_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13296:14: warning: variable '__pyx_bstride_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13294:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13293:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13292:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:13291:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_22larch_3merge': dipy/tracking/distances.c:14199:14: warning: variable '__pyx_bshape_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14198:14: warning: variable '__pyx_bshape_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14197:14: warning: variable '__pyx_bstride_1_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14196:14: warning: variable '__pyx_bstride_0_h' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14194:14: warning: variable '__pyx_bshape_1_ch' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14193:14: warning: variable '__pyx_bshape_0_ch' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14192:14: warning: variable '__pyx_bstride_1_ch' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:14191:14: warning: variable '__pyx_bstride_0_ch' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_23point_track_sq_distance_check': dipy/tracking/distances.c:15050:14: warning: variable '__pyx_bshape_0_point' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15049:14: warning: variable '__pyx_bstride_0_point' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15047:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15046:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15045:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15044:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: In function '__pyx_pf_4dipy_8tracking_9distances_24track_roi_intersection_check': dipy/tracking/distances.c:15430:14: warning: variable '__pyx_bshape_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15429:14: warning: variable '__pyx_bshape_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15428:14: warning: variable '__pyx_bstride_1_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15427:14: warning: variable '__pyx_bstride_0_track' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15425:14: warning: variable '__pyx_bshape_1_roi' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15424:14: warning: variable '__pyx_bshape_0_roi' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15423:14: warning: variable '__pyx_bstride_1_roi' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c:15422:14: warning: variable '__pyx_bstride_0_roi' set but not used [-Wunused-but-set-variable] dipy/tracking/distances.c: At top level: /usr/lib/pymodules/python2.6/numpy/core/include/numpy/__multiarray_api.h:1532:1: warning: '_import_array' defined but not used [-Wunused-function] /usr/lib/pymodules/python2.6/numpy/core/include/numpy/__ufunc_api.h:226:1: warning: '_import_umath' defined but not used [-Wunused-function] gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions build/temp.linux-armv7l-2.6/dipy/tracking/distances.o -o build/lib.linux-armv7l-2.6/dipy/tracking/distances.so skipping 'dipy/tracking/vox2track.c' Cython extension (up-to-date) building 'dipy.tracking.vox2track' extension gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -I/usr/lib/pymodules/python2.6/numpy/core/include -I/usr/include/python2.6 -c dipy/tracking/vox2track.c -o build/temp.linux-armv7l-2.6/dipy/tracking/vox2track.o dipy/tracking/vox2track.c: In function '__pyx_pf_4dipy_8tracking_9vox2track_track_counts': dipy/tracking/vox2track.c:1219:14: warning: variable '__pyx_bshape_1_t' set but not used [-Wunused-but-set-variable] dipy/tracking/vox2track.c:1218:14: warning: variable '__pyx_bshape_0_t' set but not used [-Wunused-but-set-variable] dipy/tracking/vox2track.c:1217:14: warning: variable '__pyx_bstride_1_t' set but not used [-Wunused-but-set-variable] dipy/tracking/vox2track.c:1216:14: warning: variable '__pyx_bstride_0_t' set but not used [-Wunused-but-set-variable] dipy/tracking/vox2track.c: At top level: /usr/lib/pymodules/python2.6/numpy/core/include/numpy/__multiarray_api.h:1532:1: warning: '_import_array' defined but not used [-Wunused-function] /usr/lib/pymodules/python2.6/numpy/core/include/numpy/__ufunc_api.h:226:1: warning: '_import_umath' defined but not used [-Wunused-function] gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions build/temp.linux-armv7l-2.6/dipy/tracking/vox2track.o -o build/lib.linux-armv7l-2.6/dipy/tracking/vox2track.so skipping 'dipy/tracking/propspeed.c' Cython extension (up-to-date) building 'dipy.tracking.propspeed' extension gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC -I/usr/lib/pymodules/python2.6/numpy/core/include -I/usr/include/python2.6 -c dipy/tracking/propspeed.c -o build/temp.linux-armv7l-2.6/dipy/tracking/propspeed.o dipy/tracking/propspeed.c: In function '__pyx_pf_4dipy_8tracking_9propspeed_ndarray_offset': dipy/tracking/propspeed.c:1161:14: warning: variable '__pyx_bshape_0_strides' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:1160:14: warning: variable '__pyx_bstride_0_strides' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:1158:14: warning: variable '__pyx_bshape_0_indices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:1157:14: warning: variable '__pyx_bstride_0_indices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c: In function '__pyx_pf_4dipy_8tracking_9propspeed_1eudx_both_directions': dipy/tracking/propspeed.c:2332:14: warning: variable '__pyx_bshape_3_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2331:14: warning: variable '__pyx_bshape_2_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2330:14: warning: variable '__pyx_bshape_1_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2329:14: warning: variable '__pyx_bshape_0_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2328:14: warning: variable '__pyx_bstride_3_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2327:14: warning: variable '__pyx_bstride_2_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2326:14: warning: variable '__pyx_bstride_1_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2325:14: warning: variable '__pyx_bstride_0_qa' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2323:14: warning: variable '__pyx_bshape_1_odf_vertices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2322:14: warning: variable '__pyx_bshape_0_odf_vertices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2321:14: warning: variable '__pyx_bstride_1_odf_vertices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2320:14: warning: variable '__pyx_bstride_0_odf_vertices' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2318:14: warning: variable '__pyx_bshape_3_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2317:14: warning: variable '__pyx_bshape_2_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2316:14: warning: variable '__pyx_bshape_1_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2315:14: warning: variable '__pyx_bshape_0_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2314:14: warning: variable '__pyx_bstride_3_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2313:14: warning: variable '__pyx_bstride_2_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2312:14: warning: variable '__pyx_bstride_1_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2311:14: warning: variable '__pyx_bstride_0_ind' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2309:14: warning: variable '__pyx_bshape_0_seed' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2308:14: warning: variable '__pyx_bstride_0_seed' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c:2295:9: warning: variable '__pyx_v_pvstr' set but not used [-Wunused-but-set-variable] dipy/tracking/propspeed.c: At top level: /usr/lib/pymodules/python2.6/numpy/core/include/numpy/__ufunc_api.h:226:1: warning: '_import_umath' defined but not used [-Wunused-function] dipy/tracking/propspeed.c: In function '__pyx_pf_4dipy_8tracking_9propspeed_1eudx_both_directions': dipy/tracking/propspeed.c:2734:17: warning: '__pyx_v_ftmp' may be used uninitialized in this function [-Wuninitialized] gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions build/temp.linux-armv7l-2.6/dipy/tracking/propspeed.o -o build/lib.linux-armv7l-2.6/dipy/tracking/propspeed.so running install_lib creating /«PKGBUILDDIR»/debian/tmp creating /«PKGBUILDDIR»/debian/tmp/usr creating /«PKGBUILDDIR»/debian/tmp/usr/lib creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6 creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/boots copying build/lib.linux-armv7l-2.6/dipy/boots/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/boots copying build/lib.linux-armv7l-2.6/dipy/boots/resampling.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/boots copying build/lib.linux-armv7l-2.6/dipy/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/testing copying build/lib.linux-armv7l-2.6/dipy/testing/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/testing copying build/lib.linux-armv7l-2.6/dipy/testing/_paramtestpy3.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/testing copying build/lib.linux-armv7l-2.6/dipy/testing/lightunit.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/testing copying build/lib.linux-armv7l-2.6/dipy/testing/_paramtestpy2.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/testing copying build/lib.linux-armv7l-2.6/dipy/testing/nosepatch.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/testing copying build/lib.linux-armv7l-2.6/dipy/testing/spherepoints.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/testing creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/align copying build/lib.linux-armv7l-2.6/dipy/align/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/align copying build/lib.linux-armv7l-2.6/dipy/align/aniso2iso.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/align creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/io copying build/lib.linux-armv7l-2.6/dipy/io/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/io copying build/lib.linux-armv7l-2.6/dipy/io/pickles.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/io creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/io/tests copying build/lib.linux-armv7l-2.6/dipy/io/tests/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/io/tests copying build/lib.linux-armv7l-2.6/dipy/io/tests/test_dpy.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/io/tests copying build/lib.linux-armv7l-2.6/dipy/io/dpy.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/io copying build/lib.linux-armv7l-2.6/dipy/io/utils.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/io copying build/lib.linux-armv7l-2.6/dipy/io/bvectxt.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/io creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst copying build/lib.linux-armv7l-2.6/dipy/reconst/dti.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst copying build/lib.linux-armv7l-2.6/dipy/reconst/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst copying build/lib.linux-armv7l-2.6/dipy/reconst/qball.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst copying build/lib.linux-armv7l-2.6/dipy/reconst/maskedview.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst copying build/lib.linux-armv7l-2.6/dipy/reconst/gqi.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.6/dipy/reconst/tests/test_maskedview.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.6/dipy/reconst/tests/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.6/dipy/reconst/tests/test_qball.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.6/dipy/reconst/tests/test_reco_utils.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.6/dipy/reconst/tests/test_modelarray.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.6/dipy/reconst/tests/test_dti.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.6/dipy/reconst/tests/test_dandelion.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.6/dipy/reconst/tests/test_sphere_max.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.6/dipy/reconst/tests/test_gqsampling.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.6/dipy/reconst/modelarray.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst copying build/lib.linux-armv7l-2.6/dipy/reconst/dandelion.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst copying build/lib.linux-armv7l-2.6/dipy/reconst/recspeed.so -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/core copying build/lib.linux-armv7l-2.6/dipy/core/onetime.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/core copying build/lib.linux-armv7l-2.6/dipy/core/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/core copying build/lib.linux-armv7l-2.6/dipy/core/triangle_subdivide.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/core copying build/lib.linux-armv7l-2.6/dipy/core/geometry.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/core copying build/lib.linux-armv7l-2.6/dipy/core/graph.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/core copying build/lib.linux-armv7l-2.6/dipy/core/profile.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/core creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/core/tests copying build/lib.linux-armv7l-2.6/dipy/core/tests/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/core/tests copying build/lib.linux-armv7l-2.6/dipy/core/tests/test_geometry.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/core/tests copying build/lib.linux-armv7l-2.6/dipy/core/tests/test_graph.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/core/tests copying build/lib.linux-armv7l-2.6/dipy/core/rng.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/core copying build/lib.linux-armv7l-2.6/dipy/core/meshes.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/core copying build/lib.linux-armv7l-2.6/dipy/core/sphere_stats.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/core creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking copying build/lib.linux-armv7l-2.6/dipy/tracking/metrics.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking copying build/lib.linux-armv7l-2.6/dipy/tracking/propagation.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking copying build/lib.linux-armv7l-2.6/dipy/tracking/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking copying build/lib.linux-armv7l-2.6/dipy/tracking/distances.so -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking/tests copying build/lib.linux-armv7l-2.6/dipy/tracking/tests/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking/tests copying build/lib.linux-armv7l-2.6/dipy/tracking/tests/test_learning.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking/tests copying build/lib.linux-armv7l-2.6/dipy/tracking/tests/test_track_volumes.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking/tests copying build/lib.linux-armv7l-2.6/dipy/tracking/tests/test_propagation.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking/tests copying build/lib.linux-armv7l-2.6/dipy/tracking/tests/test_distances.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking/tests copying build/lib.linux-armv7l-2.6/dipy/tracking/tests/test_metrics.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking/tests copying build/lib.linux-armv7l-2.6/dipy/tracking/propspeed.so -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking copying build/lib.linux-armv7l-2.6/dipy/tracking/learning.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking copying build/lib.linux-armv7l-2.6/dipy/tracking/vox2track.so -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking copying build/lib.linux-armv7l-2.6/dipy/info.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/utils copying build/lib.linux-armv7l-2.6/dipy/utils/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/utils copying build/lib.linux-armv7l-2.6/dipy/utils/spheremakers.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/utils copying build/lib.linux-armv7l-2.6/dipy/utils/tripwire.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/utils creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/utils/tests copying build/lib.linux-armv7l-2.6/dipy/utils/tests/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/utils/tests copying build/lib.linux-armv7l-2.6/dipy/utils/tests/test_arrfuncs.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/utils/tests copying build/lib.linux-armv7l-2.6/dipy/utils/tests/test_spheremakers.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/utils/tests copying build/lib.linux-armv7l-2.6/dipy/utils/optpkg.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/utils copying build/lib.linux-armv7l-2.6/dipy/utils/arrfuncs.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/utils copying build/lib.linux-armv7l-2.6/dipy/COMMIT_INFO.txt -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/viz copying build/lib.linux-armv7l-2.6/dipy/viz/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/viz copying build/lib.linux-armv7l-2.6/dipy/viz/fvtk.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/viz copying build/lib.linux-armv7l-2.6/dipy/viz/colormap.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/viz creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/viz/tests copying build/lib.linux-armv7l-2.6/dipy/viz/tests/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/viz/tests copying build/lib.linux-armv7l-2.6/dipy/viz/tests/test_fvtk.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/viz/tests creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/small_101D.nii.gz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/eg_3voxels.pkl -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/evenly_distributed_sphere_642.npz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/small_101D.bval -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/C1.pkl.gz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/55dir_grad.bval -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/55dir_grad.bvec -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/fib2.pkl.gz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/fib0.pkl.gz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/tracks300.trk -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/small_101D.bvec -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/evenly_distributed_sphere_362.npz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/small_64D.bvals.npy -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/small_64D.gradients.npy -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/fib1.pkl.gz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/aniso_vox.nii.gz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/small_64D.nii -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data copying build/lib.linux-armv7l-2.6/dipy/data/C3.pkl.gz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/data creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/external copying build/lib.linux-armv7l-2.6/dipy/external/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/external creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/external/tests copying build/lib.linux-armv7l-2.6/dipy/external/tests/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/external/tests copying build/lib.linux-armv7l-2.6/dipy/external/fsl.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/external copying build/lib.linux-armv7l-2.6/dipy/pkg_info.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy running install_data creating /«PKGBUILDDIR»/debian/tmp/usr/share creating /«PKGBUILDDIR»/debian/tmp/usr/share/doc creating /«PKGBUILDDIR»/debian/tmp/usr/share/doc/dipy creating /«PKGBUILDDIR»/debian/tmp/usr/share/doc/dipy/examples copying doc/examples/nii_2_tracks.py -> /«PKGBUILDDIR»/debian/tmp/usr/share/doc/dipy/examples copying doc/examples/file_formats.py -> /«PKGBUILDDIR»/debian/tmp/usr/share/doc/dipy/examples copying doc/examples/find_correspondence.py -> /«PKGBUILDDIR»/debian/tmp/usr/share/doc/dipy/examples copying doc/examples/tractography_clustering.py -> /«PKGBUILDDIR»/debian/tmp/usr/share/doc/dipy/examples copying doc/examples/aniso_vox_2_isotropic.py -> /«PKGBUILDDIR»/debian/tmp/usr/share/doc/dipy/examples copying doc/examples/visualize_crossings.py -> /«PKGBUILDDIR»/debian/tmp/usr/share/doc/dipy/examples running install_egg_info Writing /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy-0.5.0.egg-info running install running build running build_py running build_ext skipping 'dipy/reconst/recspeed.c' Cython extension (up-to-date) skipping 'dipy/tracking/distances.c' Cython extension (up-to-date) skipping 'dipy/tracking/vox2track.c' Cython extension (up-to-date) skipping 'dipy/tracking/propspeed.c' Cython extension (up-to-date) running install_lib creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7 creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/boots copying build/lib.linux-armv7l-2.7/dipy/boots/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/boots copying build/lib.linux-armv7l-2.7/dipy/boots/resampling.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/boots copying build/lib.linux-armv7l-2.7/dipy/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/testing copying build/lib.linux-armv7l-2.7/dipy/testing/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/testing copying build/lib.linux-armv7l-2.7/dipy/testing/_paramtestpy3.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/testing copying build/lib.linux-armv7l-2.7/dipy/testing/lightunit.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/testing copying build/lib.linux-armv7l-2.7/dipy/testing/_paramtestpy2.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/testing copying build/lib.linux-armv7l-2.7/dipy/testing/nosepatch.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/testing copying build/lib.linux-armv7l-2.7/dipy/testing/spherepoints.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/testing creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/align copying build/lib.linux-armv7l-2.7/dipy/align/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/align copying build/lib.linux-armv7l-2.7/dipy/align/aniso2iso.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/align creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/io copying build/lib.linux-armv7l-2.7/dipy/io/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/io copying build/lib.linux-armv7l-2.7/dipy/io/pickles.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/io creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/io/tests copying build/lib.linux-armv7l-2.7/dipy/io/tests/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/io/tests copying build/lib.linux-armv7l-2.7/dipy/io/tests/test_dpy.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/io/tests copying build/lib.linux-armv7l-2.7/dipy/io/dpy.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/io copying build/lib.linux-armv7l-2.7/dipy/io/utils.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/io copying build/lib.linux-armv7l-2.7/dipy/io/bvectxt.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/io creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst copying build/lib.linux-armv7l-2.7/dipy/reconst/dti.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst copying build/lib.linux-armv7l-2.7/dipy/reconst/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst copying build/lib.linux-armv7l-2.7/dipy/reconst/qball.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst copying build/lib.linux-armv7l-2.7/dipy/reconst/maskedview.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst copying build/lib.linux-armv7l-2.7/dipy/reconst/gqi.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.7/dipy/reconst/tests/test_maskedview.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.7/dipy/reconst/tests/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.7/dipy/reconst/tests/test_qball.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.7/dipy/reconst/tests/test_reco_utils.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.7/dipy/reconst/tests/test_modelarray.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.7/dipy/reconst/tests/test_dti.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.7/dipy/reconst/tests/test_dandelion.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.7/dipy/reconst/tests/test_sphere_max.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.7/dipy/reconst/tests/test_gqsampling.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/tests copying build/lib.linux-armv7l-2.7/dipy/reconst/modelarray.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst copying build/lib.linux-armv7l-2.7/dipy/reconst/dandelion.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst copying build/lib.linux-armv7l-2.7/dipy/reconst/recspeed.so -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/core copying build/lib.linux-armv7l-2.7/dipy/core/onetime.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/core copying build/lib.linux-armv7l-2.7/dipy/core/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/core copying build/lib.linux-armv7l-2.7/dipy/core/triangle_subdivide.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/core copying build/lib.linux-armv7l-2.7/dipy/core/geometry.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/core copying build/lib.linux-armv7l-2.7/dipy/core/graph.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/core copying build/lib.linux-armv7l-2.7/dipy/core/profile.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/core creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/core/tests copying build/lib.linux-armv7l-2.7/dipy/core/tests/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/core/tests copying build/lib.linux-armv7l-2.7/dipy/core/tests/test_geometry.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/core/tests copying build/lib.linux-armv7l-2.7/dipy/core/tests/test_graph.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/core/tests copying build/lib.linux-armv7l-2.7/dipy/core/rng.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/core copying build/lib.linux-armv7l-2.7/dipy/core/meshes.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/core copying build/lib.linux-armv7l-2.7/dipy/core/sphere_stats.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/core creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking copying build/lib.linux-armv7l-2.7/dipy/tracking/metrics.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking copying build/lib.linux-armv7l-2.7/dipy/tracking/propagation.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking copying build/lib.linux-armv7l-2.7/dipy/tracking/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking copying build/lib.linux-armv7l-2.7/dipy/tracking/distances.so -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking/tests copying build/lib.linux-armv7l-2.7/dipy/tracking/tests/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking/tests copying build/lib.linux-armv7l-2.7/dipy/tracking/tests/test_learning.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking/tests copying build/lib.linux-armv7l-2.7/dipy/tracking/tests/test_track_volumes.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking/tests copying build/lib.linux-armv7l-2.7/dipy/tracking/tests/test_propagation.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking/tests copying build/lib.linux-armv7l-2.7/dipy/tracking/tests/test_distances.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking/tests copying build/lib.linux-armv7l-2.7/dipy/tracking/tests/test_metrics.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking/tests copying build/lib.linux-armv7l-2.7/dipy/tracking/propspeed.so -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking copying build/lib.linux-armv7l-2.7/dipy/tracking/learning.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking copying build/lib.linux-armv7l-2.7/dipy/tracking/vox2track.so -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking copying build/lib.linux-armv7l-2.7/dipy/info.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/utils copying build/lib.linux-armv7l-2.7/dipy/utils/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/utils copying build/lib.linux-armv7l-2.7/dipy/utils/spheremakers.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/utils copying build/lib.linux-armv7l-2.7/dipy/utils/tripwire.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/utils creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/utils/tests copying build/lib.linux-armv7l-2.7/dipy/utils/tests/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/utils/tests copying build/lib.linux-armv7l-2.7/dipy/utils/tests/test_arrfuncs.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/utils/tests copying build/lib.linux-armv7l-2.7/dipy/utils/tests/test_spheremakers.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/utils/tests copying build/lib.linux-armv7l-2.7/dipy/utils/optpkg.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/utils copying build/lib.linux-armv7l-2.7/dipy/utils/arrfuncs.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/utils copying build/lib.linux-armv7l-2.7/dipy/COMMIT_INFO.txt -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/viz copying build/lib.linux-armv7l-2.7/dipy/viz/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/viz copying build/lib.linux-armv7l-2.7/dipy/viz/fvtk.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/viz copying build/lib.linux-armv7l-2.7/dipy/viz/colormap.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/viz creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/viz/tests copying build/lib.linux-armv7l-2.7/dipy/viz/tests/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/viz/tests copying build/lib.linux-armv7l-2.7/dipy/viz/tests/test_fvtk.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/viz/tests creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/small_101D.nii.gz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/eg_3voxels.pkl -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/evenly_distributed_sphere_642.npz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/small_101D.bval -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/C1.pkl.gz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/55dir_grad.bval -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/55dir_grad.bvec -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/fib2.pkl.gz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/fib0.pkl.gz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/tracks300.trk -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/small_101D.bvec -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/evenly_distributed_sphere_362.npz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/small_64D.bvals.npy -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/small_64D.gradients.npy -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/fib1.pkl.gz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/aniso_vox.nii.gz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/small_64D.nii -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data copying build/lib.linux-armv7l-2.7/dipy/data/C3.pkl.gz -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/data creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/external copying build/lib.linux-armv7l-2.7/dipy/external/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/external creating /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/external/tests copying build/lib.linux-armv7l-2.7/dipy/external/tests/__init__.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/external/tests copying build/lib.linux-armv7l-2.7/dipy/external/fsl.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/external copying build/lib.linux-armv7l-2.7/dipy/pkg_info.py -> /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy running install_data copying doc/examples/nii_2_tracks.py -> /«PKGBUILDDIR»/debian/tmp/usr/share/doc/dipy/examples copying doc/examples/file_formats.py -> /«PKGBUILDDIR»/debian/tmp/usr/share/doc/dipy/examples copying doc/examples/find_correspondence.py -> /«PKGBUILDDIR»/debian/tmp/usr/share/doc/dipy/examples copying doc/examples/tractography_clustering.py -> /«PKGBUILDDIR»/debian/tmp/usr/share/doc/dipy/examples copying doc/examples/aniso_vox_2_isotropic.py -> /«PKGBUILDDIR»/debian/tmp/usr/share/doc/dipy/examples copying doc/examples/visualize_crossings.py -> /«PKGBUILDDIR»/debian/tmp/usr/share/doc/dipy/examples running install_egg_info Writing /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy-0.5.0.egg-info : # Prune duplicate LICENSE file find debian/ -name LICENSE -delete : # Only now lets build docs : # Copy pregenerated examples cp -rp doc-examples/doc/examples_built/* doc/examples_built/ export PYTHONPATH=$(/bin/ls -d /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/*-packages) \ MPLCONFIGDIR=/«PKGBUILDDIR»/build HOME=/«PKGBUILDDIR»/build; \ cd doc; /usr/bin/make html-after-examples make[2]: Entering directory `/«PKGBUILDDIR»/doc' # Standard html build after examples have been prepared sphinx-build -b html -d _build/doctrees . _build/html Making output directory... Running Sphinx v1.1.3 loading pickled environment... not yet created loading intersphinx inventory from http://docs.python.org/objects.inv... building [html]: targets for 75 source files that are out of date updating environment: 75 added, 0 changed, 0 removed reading sources... [ 1%] cite reading sources... [ 2%] devel/commit_codes reading sources... [ 4%] devel/gitwash/configure_git reading sources... [ 5%] devel/gitwash/development_workflow reading sources... [ 6%] devel/gitwash/dot2_dot3 reading sources... [ 8%] devel/gitwash/following_latest reading sources... [ 9%] devel/gitwash/forking_hell reading sources... [ 10%] devel/gitwash/git_development reading sources... [ 12%] devel/gitwash/git_install reading sources... [ 13%] devel/gitwash/git_intro reading sources... [ 14%] devel/gitwash/git_resources reading sources... [ 16%] devel/gitwash/index reading sources... [ 17%] devel/gitwash/patching reading sources... [ 18%] devel/gitwash/set_up_fork reading sources... [ 20%] devel/index reading sources... [ 21%] devel/intro reading sources... [ 22%] devel/make_release reading sources... [ 24%] developers reading sources... [ 25%] documentation reading sources... [ 26%] examples_built/aniso_vox_2_isotropic reading sources... [ 28%] examples_built/file_formats reading sources... [ 29%] examples_built/find_correspondence reading sources... [ 30%] examples_built/nii_2_tracks reading sources... [ 32%] examples_built/tractography_clustering reading sources... [ 33%] examples_built/visualize_crossings reading sources... [ 34%] examples_index reading sources... [ 36%] faq reading sources... [ 37%] glossary reading sources... [ 38%] index reading sources... [ 40%] installation reading sources... [ 41%] introduction reading sources... [ 42%] mission reading sources... [ 44%] note_about_examples reading sources... [ 45%] reference/align reading sources... [ 46%] reference/boots /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/boots/resampling.py:12: FutureWarning: This module is most likely to change both as a name and in structure in the future warnings.warn("This module is most likely to change both as a name and in structure in the future",FutureWarning) reading sources... [ 48%] reference/core reading sources... [ 49%] reference/data reading sources... [ 50%] reference/dipy.align.aniso2iso reading sources... [ 52%] reference/dipy.boots.resampling reading sources... [ 53%] reference/dipy.core.geometry reading sources... [ 54%] reference/dipy.core.graph reading sources... [ 56%] reference/dipy.core.meshes reading sources... [ 57%] reference/dipy.core.onetime reading sources... [ 58%] reference/dipy.core.profile reading sources... [ 60%] reference/dipy.core.rng reading sources... [ 61%] reference/dipy.core.sphere_stats reading sources... [ 62%] reference/dipy.core.triangle_subdivide reading sources... [ 64%] reference/dipy.external.fsl reading sources... [ 65%] reference/dipy.io.bvectxt reading sources... [ 66%] reference/dipy.io.dpy reading sources... [ 68%] reference/dipy.io.pickles reading sources... [ 69%] reference/dipy.reconst.dandelion /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/dandelion.py:8: FutureWarning: This module is most likely to change both as a name and in structure in the future warnings.warn("This module is most likely to change both as a name and in structure in the future",FutureWarning) reading sources... [ 70%] reference/dipy.reconst.dti reading sources... [ 72%] reference/dipy.reconst.gqi /«PKGBUILDDIR»/doc/sphinxext/docscrape.py:117: UserWarning: Unknown section Properties warn("Unknown section %s" % key) reading sources... [ 73%] reference/dipy.reconst.maskedview reading sources... [ 74%] reference/dipy.reconst.modelarray reading sources... [ 76%] reference/dipy.reconst.qball /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/qball.py:8: FutureWarning: This module is most likely to change both as a name and in structure in the future warnings.warn("This module is most likely to change both as a name and in structure in the future",FutureWarning) reading sources... [ 77%] reference/dipy.tracking.distances /«PKGBUILDDIR»/doc/sphinxext/docscrape.py:117: UserWarning: Unknown section Visualization warn("Unknown section %s" % key) reading sources... [ 78%] reference/dipy.tracking.learning reading sources... [ 80%] reference/dipy.tracking.metrics reading sources... [ 81%] reference/dipy.tracking.propagation reading sources... [ 82%] reference/dipy.tracking.propspeed reading sources... [ 84%] reference/dipy.tracking.vox2track reading sources... [ 85%] reference/dipy.viz.fvtk reading sources... [ 86%] reference/external reading sources... [ 88%] reference/index reading sources... [ 89%] reference/io reading sources... [ 90%] reference/reconst reading sources... [ 92%] reference/tracking reading sources... [ 93%] reference/viz reading sources... [ 94%] theory/b_and_q reading sources... [ 96%] theory/bmatrix reading sources... [ 97%] theory/gqi reading sources... [ 98%] theory/index reading sources... [100%] theory/spherical /«PKGBUILDDIR»/doc/devel/gitwash/configure_git.rst:101: WARNING: Duplicate explicit target name: "nipy". /«PKGBUILDDIR»/doc/devel/gitwash/configure_git.rst:103: WARNING: Duplicate explicit target name: "dipy". /«PKGBUILDDIR»/doc/devel/gitwash/configure_git.rst:133: WARNING: Duplicate explicit target name: "nipy mailing list". /«PKGBUILDDIR»/doc/devel/gitwash/configure_git.rst:144: WARNING: Duplicate explicit target name: "git". /«PKGBUILDDIR»/doc/devel/gitwash/configure_git.rst:21: ERROR: Duplicate target name, cannot be used as a unique reference: "git". /«PKGBUILDDIR»/doc/devel/gitwash/development_workflow.rst:245: WARNING: Duplicate explicit target name: "nipy". /«PKGBUILDDIR»/doc/devel/gitwash/development_workflow.rst:247: WARNING: Duplicate explicit target name: "dipy". /«PKGBUILDDIR»/doc/devel/gitwash/development_workflow.rst:277: WARNING: Duplicate explicit target name: "nipy mailing list". /«PKGBUILDDIR»/doc/devel/gitwash/development_workflow.rst:288: WARNING: Duplicate explicit target name: "git". /«PKGBUILDDIR»/doc/devel/gitwash/development_workflow.rst:7: ERROR: Duplicate target name, cannot be used as a unique reference: "dipy". /«PKGBUILDDIR»/doc/devel/gitwash/development_workflow.rst:7: ERROR: Duplicate target name, cannot be used as a unique reference: "git". /«PKGBUILDDIR»/doc/devel/gitwash/development_workflow.rst:14: ERROR: Duplicate target name, cannot be used as a unique reference: "dipy". /«PKGBUILDDIR»/doc/devel/gitwash/development_workflow.rst:14: ERROR: Duplicate target name, cannot be used as a unique reference: "dipy". /«PKGBUILDDIR»/doc/devel/gitwash/development_workflow.rst:35: ERROR: Duplicate target name, cannot be used as a unique reference: "dipy". /«PKGBUILDDIR»/doc/devel/gitwash/development_workflow.rst:43: ERROR: Duplicate target name, cannot be used as a unique reference: "git". /«PKGBUILDDIR»/doc/devel/gitwash/following_latest.rst:48: WARNING: Duplicate explicit target name: "nipy". 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/«PKGBUILDDIR»/doc/reference/dipy.align.aniso2iso.rst:2: WARNING: Title underline too short. :mod:`dipy.align.aniso2iso` ========================= /«PKGBUILDDIR»/doc/reference/dipy.boots.resampling.rst:2: WARNING: Title underline too short. :mod:`dipy.boots.resampling` ========================= [u'bootstrap(x, statistic=, B=1000, alpha=0.95)', u':module: dipy.boots.resampling', u'', u'', u'', u'Bootstrap resampling _[1] to accurately estimate the standard error and ', u'confidence interval of a desired statistic of a probability distribution ', u'function (pdf).', u'', u'', u':Parameters:', u'', u' **x** : ndarray (N, 1)', u'', u' Observable sample to resample. N should be reasonably large.', u'', u' **statistic** : method (optional)', u'', u' Method to calculate the desired statistic. (Default: calculate ', u' bootstrap standard error)', u'', u' **B** : integer (optional)', u'', u' Total number of bootstrap resamples in bootstrap pdf. (Default: 1000)', u'', u' **alpha** : float (optional)', u'', u' Percentile for confidence interval of the statistic. (Default: 0.05)', u'', u':Returns:', u'', u' **bs_pdf** : ndarray (M, 1)', u'', u' Jackknife probabilisty distribution function of the statistic.', u'', u' **se** : float', u'', u' Standard error of the statistic.', u'', u' **ci** : ndarray (2, 1)', u'', u' Confidence interval of the statistic.', u'', u'.. seealso::', u'', u' ', u' :obj:`numpy.std`, :obj:`numpy.random.random`', u' ', u'.. rubric:: Notes', u'', u'', u'Bootstrap resampling is non parametric. It is quite powerful in', u'determining the standard error and the confidence interval of a sample', u'distribution. The key characteristics of bootstrap is:', u'', u'1) uniform weighting among all samples (1/n)', u'2) resampling with replacement', u'', u'In general, the sample size should be large to ensure accuracy of the ', u'estimates. The number of bootstrap resamples should be large as well as ', u'that will also influence the accuracy of the estimate.', u'', u'.. rubric:: References', u'', u'.. [1] Efron, B., 1979. 1977 Rietz lecture--Bootstrap methods--Another', u' look at the jackknife. Ann. Stat. 7, 1-26.', u'', u'.. only:: latex']:59: WARNING: Duplicate explicit target name: "1". [u'jackknife(pdf, statistic=, M=None)', u':module: dipy.boots.resampling', u'', u'', u'', u'Jackknife resampling _[1] to quickly estimate the bias and standard ', u'error of a desired statistic in a probability distribution function (pdf).', u'', u'', u':Parameters:', u'', u' **pdf** : ndarray (N, 1)', u'', u' Probability distribution function to resample. N should be reasonably', u' large.', u'', u' **statistic** : method (optional)', u'', u' Method to calculate the desired statistic. (Default: calculate ', u' standard deviation)', u'', u' **M** : integer (M < N)', u'', u' Total number of samples in jackknife pdf. (Default: M == N)', u'', u':Returns:', u'', u' **jk_pdf** : ndarray (M, 1)', u'', u' Jackknife probabilisty distribution function of the statistic.', u'', u' **bias** : float', u'', u' Bias of the jackknife pdf of the statistic.', u'', u' **se** : float', u'', u' Standard error of the statistic.', u'', u'.. seealso::', u'', u' ', u' :obj:`numpy.std`, :obj:`numpy.mean`, :obj:`numpy.random.random`', u' ', u'.. rubric:: Notes', u'', u'', u'Jackknife resampling like bootstrap resampling is non parametric. However,', u'it requires a large distribution to be accurate and in some ways can be ', u'considered deterministic (if one removes the same set of samples, ', u'then one will get the same estimates of the bias and variance). ', u'', u'In the context of this implementation, the sample size should be at least ', u'larger than the asymptotic convergence of the statistic (ACstat); ', u'preferably, larger than ACstat + np.greater(ACbias, ACvar)', u'', u'The clear benefit of using jackknife is its ability to estimate the bias', u'of the statistic. The most powerful application of this is estimating the', u'bias of a bootstrap-estimated standard error. In fact, one could', u'"bootstrap the bootstrap" (nested bootstrap) of the estimated standard ', u'error, but the inaccuracy of the bootstrap to characterize the true mean', u'would incur a poor estimate of the bias (recall: bias = mean[sample_est] -', u'mean[true population])', u'', u'.. rubric:: References', u'', u'.. [1] Efron, B., 1979. 1977 Rietz lecture--Bootstrap methods--Another', u' look at the jackknife. Ann. Stat. 7, 1-26.', u'', u'.. only:: latex']:61: WARNING: Duplicate explicit target name: "1". [u'lambert_equal_area_projection_polar(theta, phi)', u':module: dipy.core.geometry', u'', u'', u'', u'Lambert Equal Area Projection from polar sphere to plane', u'', u'Return positions in (y1,y2) plane corresponding to the points', u'with polar coordinates (theta, phi) on the unit sphere, under the', u'Lambert Equal Area Projection mapping (see Mardia and Jupp (2000),', u'Directional Statistics, p. 161).', u'', u'See doc for ``sphere2cart`` for angle conventions', u'', u'- :math:`0 \\le \\theta \\le \\pi` and :math:`0 \\le \\phi \\le 2 \\pi`', u'- :math:`|(y_1,y_2)| \\le 2`', u'', u'The Lambert EAP maps the upper hemisphere to the planar disc of radius 1 ', u'and the lower hemisphere to the planar annulus between radii 1 and 2,', u'and *vice versa*. ', u'Parameters', u'----------', u'theta : array-like', u' theta spherical coordinates', u'phi : array-like', u' phi spherical coordinates', u'', u':Returns:', u'', u' **y** : (N,2) array', u'', u" planar coordinates of points following mapping by Lambert's EAP."]:21: ERROR: Unexpected indentation. [u'lambert_equal_area_projection_polar(theta, phi)', u':module: dipy.core.geometry', u'', u'', u'', u'Lambert Equal Area Projection from polar sphere to plane', u'', u'Return positions in (y1,y2) plane corresponding to the points', u'with polar coordinates (theta, phi) on the unit sphere, under the', u'Lambert Equal Area Projection mapping (see Mardia and Jupp (2000),', u'Directional Statistics, p. 161).', u'', u'See doc for ``sphere2cart`` for angle conventions', u'', u'- :math:`0 \\le \\theta \\le \\pi` and :math:`0 \\le \\phi \\le 2 \\pi`', u'- :math:`|(y_1,y_2)| \\le 2`', u'', u'The Lambert EAP maps the upper hemisphere to the planar disc of radius 1 ', u'and the lower hemisphere to the planar annulus between radii 1 and 2,', u'and *vice versa*. ', u'Parameters', u'----------', u'theta : array-like', u' theta spherical coordinates', u'phi : array-like', u' phi spherical coordinates', u'', u':Returns:', u'', u' **y** : (N,2) array', u'', u" planar coordinates of points following mapping by Lambert's EAP."]:22: WARNING: Block quote ends without a blank line; unexpected unindent. /«PKGBUILDDIR»/doc/reference/dipy.core.graph.rst:18: WARNING: toctree references unknown document u'reference/dipy.core.graph.Graph.add_edge' /«PKGBUILDDIR»/doc/reference/dipy.core.graph.rst:18: WARNING: toctree references unknown document u'reference/dipy.core.graph.Graph.add_node' /«PKGBUILDDIR»/doc/reference/dipy.core.graph.rst:18: WARNING: toctree references unknown document u'reference/dipy.core.graph.Graph.all_paths' /«PKGBUILDDIR»/doc/reference/dipy.core.graph.rst:18: WARNING: toctree references unknown document u'reference/dipy.core.graph.Graph.children' /«PKGBUILDDIR»/doc/reference/dipy.core.graph.rst:18: WARNING: toctree references unknown document u'reference/dipy.core.graph.Graph.del_node' /«PKGBUILDDIR»/doc/reference/dipy.core.graph.rst:18: WARNING: toctree references unknown document u'reference/dipy.core.graph.Graph.del_node_and_edges' /«PKGBUILDDIR»/doc/reference/dipy.core.graph.rst:18: WARNING: toctree references unknown document u'reference/dipy.core.graph.Graph.down' /«PKGBUILDDIR»/doc/reference/dipy.core.graph.rst:18: WARNING: toctree references unknown document u'reference/dipy.core.graph.Graph.down_short' /«PKGBUILDDIR»/doc/reference/dipy.core.graph.rst:18: WARNING: toctree references unknown document u'reference/dipy.core.graph.Graph.parents' /«PKGBUILDDIR»/doc/reference/dipy.core.graph.rst:18: WARNING: toctree references unknown document u'reference/dipy.core.graph.Graph.shortest_path' /«PKGBUILDDIR»/doc/reference/dipy.core.graph.rst:18: WARNING: toctree references unknown document u'reference/dipy.core.graph.Graph.up' /«PKGBUILDDIR»/doc/reference/dipy.core.graph.rst:18: WARNING: toctree references unknown document u'reference/dipy.core.graph.Graph.up_short' /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/core/onetime.py:docstring of dipy.core.onetime:13: WARNING: Explicit markup ends without a blank line; unexpected unindent. /«PKGBUILDDIR»/doc/reference/dipy.core.profile.rst:57: WARNING: toctree references unknown document u'reference/dipy.core.profile.Profiler.print_stats' /«PKGBUILDDIR»/doc/reference/dipy.core.triangle_subdivide.rst:2: WARNING: Title underline too short. :mod:`dipy.core.triangle_subdivide` ========================= /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/external/fsl.py:docstring of dipy.external.fsl.run_flirt_imgs:9: WARNING: Inline interpreted text or phrase reference start-string without end-string. /«PKGBUILDDIR»/doc/reference/dipy.io.pickles.rst:2: WARNING: Title underline too short. :mod:`dipy.io.pickles` ===================== /«PKGBUILDDIR»/doc/reference/dipy.reconst.dandelion.rst:17: WARNING: toctree references unknown document u'reference/dipy.reconst.dandelion.SphericalDandelion.ind' /«PKGBUILDDIR»/doc/reference/dipy.reconst.dandelion.rst:17: WARNING: toctree references unknown document u'reference/dipy.reconst.dandelion.SphericalDandelion.koukou' /«PKGBUILDDIR»/doc/reference/dipy.reconst.dandelion.rst:17: WARNING: toctree references unknown document u'reference/dipy.reconst.dandelion.SphericalDandelion.spherical_diffusivity' /«PKGBUILDDIR»/doc/reference/dipy.reconst.dandelion.rst:17: WARNING: toctree references unknown document u'reference/dipy.reconst.dandelion.SphericalDandelion.xa' /«PKGBUILDDIR»/doc/reference/dipy.reconst.dti.rst:100: WARNING: toctree references unknown document u'reference/dipy.reconst.dti.Tensor.D' /«PKGBUILDDIR»/doc/reference/dipy.reconst.dti.rst:100: WARNING: toctree references unknown document u'reference/dipy.reconst.dti.Tensor.mask' /«PKGBUILDDIR»/doc/reference/dipy.reconst.dti.rst:100: WARNING: toctree references unknown document u'reference/dipy.reconst.dti.Tensor.evals' /«PKGBUILDDIR»/doc/reference/dipy.reconst.dti.rst:100: WARNING: toctree references unknown document u'reference/dipy.reconst.dti.Tensor.evecs' [u"Tensor(data, b_values, grad_table, mask=True, thresh=None, fit_method='WLS', verbose=False, *args, **kargs)", u':module: dipy.reconst.dti', u'', u'', u'', u'Fits a diffusion tensor given diffusion-weighted signals and gradient info', u'', u'Tensor object that when initialized calculates single self diffusion', u'tensor [R6]_ in each voxel using selected fitting algorithm', u'(DEFAULT: weighted least squares [R7]_)', u'Requires a given gradient table, b value for each diffusion-weighted', u'gradient vector, and image data given all as arrays.', u'', u':Parameters:', u'', u' **data** : array ([X, Y, Z, ...], g)', u'', u' Diffusion-weighted signals. The dimension corresponding to the', u' diffusion weighting must be the last dimenssion', u'', u' **bval** : array (g,)', u'', u' Diffusion weighting factor b for each vector in gtab.', u'', u' **gtab** : array (g, 3)', u'', u' Diffusion gradient table found in DICOM header as a array.', u'', u' **mask** : array, optional', u'', u' The tensor will only be fit where mask is True. Mask must must', u' broadcast to the shape of data and must have fewer dimensions than data', u'', u' **thresh** : float, default = None', u'', u' The tensor will not be fit where data[bval == 0] < thresh. If multiple', u' b0 volumes are given, the minimum b0 signal is used.', u'', u" **fit_method** : funciton or string, default = 'WLS'", u'', u' The method to be used to fit the given data to a tensor. Any function', u' that takes the B matrix and the data and returns eigen values and eigen', u' vectors can be passed as the fit method. Any of the common fit methods', u' can be passed as a string.', u'', u' ***args, **kargs :** : ', u'', u' Any other arguments or keywards will be passed to fit_method.', u' ', u'', u' **common fit methods:** : ', u'', u" 'WLS' : weighted least squares", u' dti.wls_fit_tensor', u" 'LS' : ordinary least squares", u' dti.ols_fit_tensor', u'', u'.. seealso::', u'', u' ', u' :obj:`dipy.io.bvectxt.read_bvec_file`, :obj:`dipy.core.qball.ODF`', u' ', u'.. rubric:: Notes', u'', u'', u'Due to the fact that diffusion MRI entails large volumes (e.g. [256,256,', u'50,64]), memory can be an issue. Therefore, only the following parameters ', u'of the self diffusion tensor are cached for each voxel:', u'', u'- All three eigenvalues', u'- Primary and secondary eigenvectors', u'', u'From these cached parameters, one can presumably construct any desired', u'parameter.', u'', u'.. rubric:: References', u'', u'.. [R6] Basser, P.J., Mattiello, J., LeBihan, D., 1994. Estimation of ', u' the effective self-diffusion tensor from the NMR spin echo. J Magn ', u' Reson B 103, 247-254.', u'.. [R7] Basser, P., Pierpaoli, C., 1996. Microstructural and physiological', u' features of tissues elucidated by quantitative diffusion-tensor MRI. ', u' Journal of Magnetic Resonance 111, 209-219.', u'', u'.. only:: latex', u'', u' [R6]_, [R7]_', u'', u'.. rubric:: Examples', u'', u'', u'For a complete example have a look at the main dipy/examples folder ', u'', u'.. rubric:: Attributes', u'', u'.. autosummary::', u' :toctree:', u'', u' D', u' mask', u' evals', u' evecs', u'= ============ ==========', u'B array (g, 7) ', u' Design matrix or B matrix constructed from given gradient table and', u' b-value vector.', u'= ============ ==========', u'', u'.. rubric:: Methods', u'', u'.. autosummary::', u' :toctree:', u'', u' fa', u' md', u'', u'', u'.. py:attribute:: Tensor.D', u' :module: dipy.reconst.dti', u'', u' ', u' ', u' Self diffusion tensor', u' ', u' ', u'', u'.. py:attribute:: Tensor.evals', u' :module: dipy.reconst.dti', u'', u' ', u' ', u' Returns the eigenvalues of the tensor as an array', u' ', u' ', u'', u'.. py:attribute:: Tensor.evecs', u' :module: dipy.reconst.dti', u'', u' ', u' ', u' Returns the eigenvectors of teh tensor as an array', u' ', u' ', u'', u'.. py:method:: Tensor.fa()', u' :module: dipy.reconst.dti', u'', u' ', u' ', u' Fractional anisotropy (FA) calculated from cached eigenvalues. ', u' ', u' ', u' :Returns:', u' ', u' **fa** : array (V, 1)', u' ', u' Calculated FA. Note: range is 0 <= FA <= 1.', u' ', u' .. rubric:: Notes', u' ', u' ', u' FA is calculated with the following equation:', u' ', u' .. math::', u' ', u' FA = \\sqrt{\\frac{1}{2}\\frac{(\\lambda_1-\\lambda_2)^2+(\\lambda_1-', u' \\lambda_3)^2+(\\lambda_2-lambda_3)^2}{\\lambda_1^2+', u' \\lambda_2^2+\\lambda_3^2} }', u' ', u'', u'.. py:method:: Tensor.ind()', u' :module: dipy.reconst.dti', u'', u' ', u' ', u' Quantizes eigenvectors with maximum eigenvalues on an', u' evenly distributed sphere so that the can be used for tractography.', u' ', u' ', u' :Returns:', u' ', u' **IN** : array, shape(x,y,z) integer indices for the points of the', u' ', u' ', u' ', u' **evenly distributed sphere representing tensor eigenvectors of** : ', u' ', u' ', u' ', u' **maximum eigenvalue** : ', u' ', u' ', u' ', u'', u'.. py:method:: Tensor.md()', u' :module: dipy.reconst.dti', u'', u' ', u' ', u' Mean diffusitivity (MD) calculated from cached eigenvalues. ', u' ', u' ', u' :Returns:', u' ', u' **md** : array (V, 1)', u' ', u' Calculated MD.', u' ', u' .. rubric:: Notes', u' ', u' ', u' MD is calculated with the following equation:', u' ', u' .. math::', u' ', u' ADC = \\frac{\\lambda_1+\\lambda_2+\\lambda_3}{3}']:96: WARNING: Explicit markup ends without a blank line; unexpected unindent. [u"Tensor(data, b_values, grad_table, mask=True, thresh=None, fit_method='WLS', verbose=False, *args, **kargs)", u':module: dipy.reconst.dti', u'', u'', u'', u'Fits a diffusion tensor given diffusion-weighted signals and gradient info', u'', u'Tensor object that when initialized calculates single self diffusion', u'tensor [R6]_ in each voxel using selected fitting algorithm', u'(DEFAULT: weighted least squares [R7]_)', u'Requires a given gradient table, b value for each diffusion-weighted', u'gradient vector, and image data given all as arrays.', u'', u':Parameters:', u'', u' **data** : array ([X, Y, Z, ...], g)', u'', u' Diffusion-weighted signals. The dimension corresponding to the', u' diffusion weighting must be the last dimenssion', u'', u' **bval** : array (g,)', u'', u' Diffusion weighting factor b for each vector in gtab.', u'', u' **gtab** : array (g, 3)', u'', u' Diffusion gradient table found in DICOM header as a array.', u'', u' **mask** : array, optional', u'', u' The tensor will only be fit where mask is True. Mask must must', u' broadcast to the shape of data and must have fewer dimensions than data', u'', u' **thresh** : float, default = None', u'', u' The tensor will not be fit where data[bval == 0] < thresh. If multiple', u' b0 volumes are given, the minimum b0 signal is used.', u'', u" **fit_method** : funciton or string, default = 'WLS'", u'', u' The method to be used to fit the given data to a tensor. Any function', u' that takes the B matrix and the data and returns eigen values and eigen', u' vectors can be passed as the fit method. Any of the common fit methods', u' can be passed as a string.', u'', u' ***args, **kargs :** : ', u'', u' Any other arguments or keywards will be passed to fit_method.', u' ', u'', u' **common fit methods:** : ', u'', u" 'WLS' : weighted least squares", u' dti.wls_fit_tensor', u" 'LS' : ordinary least squares", u' dti.ols_fit_tensor', u'', u'.. seealso::', u'', u' ', u' :obj:`dipy.io.bvectxt.read_bvec_file`, :obj:`dipy.core.qball.ODF`', u' ', u'.. rubric:: Notes', u'', u'', u'Due to the fact that diffusion MRI entails large volumes (e.g. [256,256,', u'50,64]), memory can be an issue. Therefore, only the following parameters ', u'of the self diffusion tensor are cached for each voxel:', u'', u'- All three eigenvalues', u'- Primary and secondary eigenvectors', u'', u'From these cached parameters, one can presumably construct any desired', u'parameter.', u'', u'.. rubric:: References', u'', u'.. [R6] Basser, P.J., Mattiello, J., LeBihan, D., 1994. Estimation of ', u' the effective self-diffusion tensor from the NMR spin echo. J Magn ', u' Reson B 103, 247-254.', u'.. [R7] Basser, P., Pierpaoli, C., 1996. Microstructural and physiological', u' features of tissues elucidated by quantitative diffusion-tensor MRI. ', u' Journal of Magnetic Resonance 111, 209-219.', u'', u'.. only:: latex', u'', u' [R6]_, [R7]_', u'', u'.. rubric:: Examples', u'', u'', u'For a complete example have a look at the main dipy/examples folder ', u'', u'.. rubric:: Attributes', u'', u'.. autosummary::', u' :toctree:', u'', u' D', u' mask', u' evals', u' evecs', u'= ============ ==========', u'B array (g, 7) ', u' Design matrix or B matrix constructed from given gradient table and', u' b-value vector.', u'= ============ ==========', u'', u'.. rubric:: Methods', u'', u'.. autosummary::', u' :toctree:', u'', u' fa', u' md', u'', u'', u'.. py:attribute:: Tensor.D', u' :module: dipy.reconst.dti', u'', u' ', u' ', u' Self diffusion tensor', u' ', u' ', u'', u'.. py:attribute:: Tensor.evals', u' :module: dipy.reconst.dti', u'', u' ', u' ', u' Returns the eigenvalues of the tensor as an array', u' ', u' ', u'', u'.. py:attribute:: Tensor.evecs', u' :module: dipy.reconst.dti', u'', u' ', u' ', u' Returns the eigenvectors of teh tensor as an array', u' ', u' ', u'', u'.. py:method:: Tensor.fa()', u' :module: dipy.reconst.dti', u'', u' ', u' ', u' Fractional anisotropy (FA) calculated from cached eigenvalues. ', u' ', u' ', u' :Returns:', u' ', u' **fa** : array (V, 1)', u' ', u' Calculated FA. Note: range is 0 <= FA <= 1.', u' ', u' .. rubric:: Notes', u' ', u' ', u' FA is calculated with the following equation:', u' ', u' .. math::', u' ', u' FA = \\sqrt{\\frac{1}{2}\\frac{(\\lambda_1-\\lambda_2)^2+(\\lambda_1-', u' \\lambda_3)^2+(\\lambda_2-lambda_3)^2}{\\lambda_1^2+', u' \\lambda_2^2+\\lambda_3^2} }', u' ', u'', u'.. py:method:: Tensor.ind()', u' :module: dipy.reconst.dti', u'', u' ', u' ', u' Quantizes eigenvectors with maximum eigenvalues on an', u' evenly distributed sphere so that the can be used for tractography.', u' ', u' ', u' :Returns:', u' ', u' **IN** : array, shape(x,y,z) integer indices for the points of the', u' ', u' ', u' ', u' **evenly distributed sphere representing tensor eigenvectors of** : ', u' ', u' ', u' ', u' **maximum eigenvalue** : ', u' ', u' ', u' ', u'', u'.. py:method:: Tensor.md()', u' :module: dipy.reconst.dti', u'', u' ', u' ', u' Mean diffusitivity (MD) calculated from cached eigenvalues. ', u' ', u' ', u' :Returns:', u' ', u' **md** : array (V, 1)', u' ', u' Calculated MD.', u' ', u' .. rubric:: Notes', u' ', u' ', u' MD is calculated with the following equation:', u' ', u' .. math::', u' ', u' ADC = \\frac{\\lambda_1+\\lambda_2+\\lambda_3}{3}']:96: ERROR: Malformed table. Column span alignment problem at line offset 2. = ============ ========== B array (g, 7) Design matrix or B matrix constructed from given gradient table and b-value vector. = ============ ========== /«PKGBUILDDIR»/doc/reference/dipy.reconst.dti.rst:115: WARNING: toctree references unknown document u'reference/dipy.reconst.dti.Tensor.fa' /«PKGBUILDDIR»/doc/reference/dipy.reconst.dti.rst:115: WARNING: toctree references unknown document u'reference/dipy.reconst.dti.Tensor.md' [u'wls_fit_tensor(design_matrix, data, min_signal=1)', u':module: dipy.reconst.dti', u'', u'', u'', u'Computes weighted least squares (WLS) fit to calculate self-diffusion ', u'tensor using a linear regression model [1]_.', u'', u'', u':Parameters:', u'', u' **design_matrix** : array (g, 7)', u'', u' Design matrix holding the covariants used to solve for the regression', u' coefficients.', u'', u' **data** : array ([X, Y, Z, ...], g)', u'', u' Data or response variables holding the data. Note that the last ', u' dimension should contain the data. It makes no copies of data.', u'', u' **min_signal** : default = 1', u'', u' All values below min_signal are repalced with min_signal. This is done', u' in order to avaid taking log(0) durring the tensor fitting.', u'', u':Returns:', u'', u' **eigvals** : array (..., 3)', u'', u' Eigenvalues from eigen decomposition of the tensor.', u'', u' **eigvecs** : array (..., 3, 3)', u'', u' Associated eigenvectors from eigen decomposition of the tensor.', u' Eigenvectors are columnar (e.g. eigvecs[:,j] is associated with ', u' eigvals[j])', u'', u'.. seealso::', u'', u' ', u' :obj:`decompose_tensor`', u' ', u'.. rubric:: Notes', u'', u'', u'In Chung, et al. 2006, the regression of the WLS fit needed an unbiased', u'preliminary estimate of the weights and therefore the ordinary least ', u'squares (OLS) estimates were used. A "two pass" method was implemented:', u'', u' 1. calculate OLS estimates of the data', u' 2. apply the OLS estimates as weights to the WLS fit of the data ', u'', u'This ensured heteroscadasticity could be properly modeled for various ', u'types of bootstrap resampling (namely residual bootstrap).', u'', u'.. math::', u'', u' y = \\mathrm{data} \\\\', u' X = \\mathrm{design matrix} \\\\', u' \\hat{\\beta}_\\mathrm{WLS} = \\mathrm{desired regression coefficients (e.g. tensor)}\\\\', u' \\\\', u' \\hat{\\beta}_\\mathrm{WLS} = (X^T W X)^{-1} X^T W y \\\\', u' \\\\', u' W = \\mathrm{diag}((X \\hat{\\beta}_\\mathrm{OLS})^2),', u' \\mathrm{where} \\hat{\\beta}_\\mathrm{OLS} = (X^T X)^{-1} X^T y', u'', u'.. rubric:: References', u'', u'.. _[1] Chung, SW., Lu, Y., Henry, R.G., 2006. Comparison of bootstrap', u' approaches for estimation of uncertainties of DTI parameters.', u' NeuroImage 33, 531-541.', u'', u'.. only:: latex']:66: WARNING: malformed hyperlink target. /«PKGBUILDDIR»/doc/reference/dipy.reconst.gqi.rst:57: WARNING: toctree references unknown document u'reference/dipy.reconst.gqi.GeneralizedQSampling.ind' /«PKGBUILDDIR»/doc/reference/dipy.reconst.gqi.rst:57: WARNING: toctree references unknown document u'reference/dipy.reconst.gqi.GeneralizedQSampling.npa' /«PKGBUILDDIR»/doc/reference/dipy.reconst.gqi.rst:57: WARNING: toctree references unknown document u'reference/dipy.reconst.gqi.GeneralizedQSampling.odf' /«PKGBUILDDIR»/doc/reference/dipy.reconst.gqi.rst:57: WARNING: toctree references unknown document u'reference/dipy.reconst.gqi.GeneralizedQSampling.qa' /«PKGBUILDDIR»/doc/reference/dipy.reconst.maskedview.rst:2: WARNING: Title underline too short. :mod:`dipy.reconst.maskedview` ========================= /«PKGBUILDDIR»/doc/reference/dipy.reconst.maskedview.rst:36: WARNING: toctree references unknown document u'reference/dipy.reconst.maskedview.MaskedView.copy' /«PKGBUILDDIR»/doc/reference/dipy.reconst.maskedview.rst:36: WARNING: toctree references unknown document u'reference/dipy.reconst.maskedview.MaskedView.filled' /«PKGBUILDDIR»/doc/reference/dipy.reconst.maskedview.rst:36: WARNING: toctree references unknown document u'reference/dipy.reconst.maskedview.MaskedView.get_size' [u'real_sph_harm(m, n, theta, phi)', u':module: dipy.reconst.qball', u'', u'', u'', u'Compute real spherical harmonics, where the real harmonic :math:`Y^m_n` is', u'defined to be:', u' Real(:math:`Y^m_n`) * sqrt(2) if m > 0', u' :math:`Y^m_n` if m == 0', u' Imag(:math:`Y^m_n`) * sqrt(2) if m < 0', u'', u'This may take scalar or array arguments. The inputs will be broadcasted', u'against each other.', u'', u':Parameters:', u'', u' **- `m`** : int |m| <= n', u'', u' The order of the harmonic.', u' - `n` : int >= 0', u' The degree of the harmonic.', u' - `theta` : float [0, 2*pi]', u' The azimuthal (longitudinal) coordinate.', u' - `phi` : float [0, pi]', u' The polar (colatitudinal) coordinate.', u'', u':Returns:', u'', u' **- `y_mn`** : real float', u'', u' The real harmonic :math:`Y^m_n` sampled at `theta` and `phi`.', u' ', u'', u' **:See also:** : ', u'', u' scipy.special.sph_harm']:5: ERROR: Unexpected indentation. [u'real_sph_harm(m, n, theta, phi)', u':module: dipy.reconst.qball', u'', u'', u'', u'Compute real spherical harmonics, where the real harmonic :math:`Y^m_n` is', u'defined to be:', u' Real(:math:`Y^m_n`) * sqrt(2) if m > 0', u' :math:`Y^m_n` if m == 0', u' Imag(:math:`Y^m_n`) * sqrt(2) if m < 0', u'', u'This may take scalar or array arguments. The inputs will be broadcasted', u'against each other.', u'', u':Parameters:', u'', u' **- `m`** : int |m| <= n', u'', u' The order of the harmonic.', u' - `n` : int >= 0', u' The degree of the harmonic.', u' - `theta` : float [0, 2*pi]', u' The azimuthal (longitudinal) coordinate.', u' - `phi` : float [0, pi]', u' The polar (colatitudinal) coordinate.', u'', u':Returns:', u'', u' **- `y_mn`** : real float', u'', u' The real harmonic :math:`Y^m_n` sampled at `theta` and `phi`.', u' ', u'', u' **:See also:** : ', u'', u' scipy.special.sph_harm']:17: WARNING: Block quote ends without a blank line; unexpected unindent. [u'real_sph_harm(m, n, theta, phi)', u':module: dipy.reconst.qball', u'', u'', u'', u'Compute real spherical harmonics, where the real harmonic :math:`Y^m_n` is', u'defined to be:', u' Real(:math:`Y^m_n`) * sqrt(2) if m > 0', u' :math:`Y^m_n` if m == 0', u' Imag(:math:`Y^m_n`) * sqrt(2) if m < 0', u'', u'This may take scalar or array arguments. The inputs will be broadcasted', u'against each other.', u'', u':Parameters:', u'', u' **- `m`** : int |m| <= n', u'', u' The order of the harmonic.', u' - `n` : int >= 0', u' The degree of the harmonic.', u' - `theta` : float [0, 2*pi]', u' The azimuthal (longitudinal) coordinate.', u' - `phi` : float [0, pi]', u' The polar (colatitudinal) coordinate.', u'', u':Returns:', u'', u' **- `y_mn`** : real float', u'', u' The real harmonic :math:`Y^m_n` sampled at `theta` and `phi`.', u' ', u'', u' **:See also:** : ', u'', u' scipy.special.sph_harm']:14: ERROR: Undefined substitution referenced: "m". [u'larch_3merge', u':module: dipy.tracking.distances', u'', u'', u'', u'Reassign tracks to existing clusters by merging clusters that their representative tracks are not very distant i.e. less than sqd_thr. Using tracks consisting of 3 points (first, mid and last). This is necessary after running larch_fast_split after multiple split in different levels (squared thresholds) as some of them have created independent clusters.', u'Parameters', u'----------- ', u'C : graph with clusters', u' of indices 3tracks (tracks consisting of 3 points only)', u'sqd_trh: float', u' squared euclidean distance threshold', u'', u'', u':Returns:', u'', u' **C** : dict', u'', u' a tree graph containing the clusters']:7: ERROR: Unexpected indentation. [u'larch_3merge', u':module: dipy.tracking.distances', u'', u'', u'', u'Reassign tracks to existing clusters by merging clusters that their representative tracks are not very distant i.e. less than sqd_thr. Using tracks consisting of 3 points (first, mid and last). This is necessary after running larch_fast_split after multiple split in different levels (squared thresholds) as some of them have created independent clusters.', u'Parameters', u'----------- ', u'C : graph with clusters', u' of indices 3tracks (tracks consisting of 3 points only)', u'sqd_trh: float', u' squared euclidean distance threshold', u'', u'', u':Returns:', u'', u' **C** : dict', u'', u' a tree graph containing the clusters']:8: WARNING: Block quote ends without a blank line; unexpected unindent. [u'larch_3split', u':module: dipy.tracking.distances', u'', u'', u'', u'Generate a first pass clustering using 3 points (first, mid and last) on the tracks only.', u'', u'', u':Parameters:', u'', u' **tracks** : sequence', u'', u' of tracks as arrays, shape (N1,3) .. (Nm,3)', u' ', u'', u' **indices** : sequence', u'', u' of integer indices of tracks ', u' ', u'', u' **trh** : float', u'', u' squared euclidean distance threshold', u'', u':Returns:', u'', u' **C** : dict, a tree graph containing the clusters', u'', u' ', u'', u'.. rubric:: Notes', u'', u'', u'If a 3 point track (3track) is far away from all clusters then add a new', u'cluster and assign this 3track as the rep(representative) track for the new', u'cluster. Otherwise the rep 3track of each cluster is the average track of', u'the cluster.', u'', u'.. rubric:: Examples', u'', u'', u'>>> import numpy as np', u'>>> from dipy.viz import fvtk ', u'>>> from dipy.tracking.distances as pf', u'>>> tracks=[np.array([[0,0,0],[1,0,0,],[2,0,0]],dtype=np.float32), ', u'>>> np.array([[3,0,0],[3.5,1,0],[4,2,0]],dtype=np.float32),', u'>>> np.array([[3.2,0,0],[3.7,1,0],[4.4,2,0]],dtype=np.float32),', u'>>> np.array([[3.4,0,0],[3.9,1,0],[4.6,2,0]],dtype=np.float32),', u'>>> np.array([[0,0.2,0],[1,0.2,0],[2,0.2,0]],dtype=np.float32),', u'>>> np.array([[2,0.2,0],[1,0.2,0],[0,0.2,0]],dtype=np.float32),', u'>>> np.array([[0,0,0],[0,1,0],[0,2,0]],dtype=np.float32),', u'>>> np.array([[0.2,0,0],[0.2,1,0],[0.2,2,0]],dtype=np.float32),', u'>>> np.array([[-0.2,0,0],[-0.2,1,0],[-0.2,2,0]],dtype=np.float32)]', u'>>> C=pf.larch_fast_split(tracks,None,0.5)', u'', u'Here is an example of how to visualize the clustering above', u'', u'r=fvtk.ren()', u'fvtk.add(r,fvtk.line(tracks,fvtk.red))', u'fvtk.show(r)', u'for c in C:', u' color=np.random.rand(3)', u" for i in C[c]['indices']:", u' fos.add(r,fvtk.line(tracks[i],color))', u'fvtk.show(r)', u'for c in C:', u" fvtk.add(r,fos.line(C[c]['rep3']/C[c]['N'],fos.white))", u'fvtk.show(r)']:52: ERROR: Unexpected indentation. [u'larch_3split', u':module: dipy.tracking.distances', u'', u'', u'', u'Generate a first pass clustering using 3 points (first, mid and last) on the tracks only.', u'', u'', u':Parameters:', u'', u' **tracks** : sequence', u'', u' of tracks as arrays, shape (N1,3) .. (Nm,3)', u' ', u'', u' **indices** : sequence', u'', u' of integer indices of tracks ', u' ', u'', u' **trh** : float', u'', u' squared euclidean distance threshold', u'', u':Returns:', u'', u' **C** : dict, a tree graph containing the clusters', u'', u' ', u'', u'.. rubric:: Notes', u'', u'', u'If a 3 point track (3track) is far away from all clusters then add a new', u'cluster and assign this 3track as the rep(representative) track for the new', u'cluster. Otherwise the rep 3track of each cluster is the average track of', u'the cluster.', u'', u'.. rubric:: Examples', u'', u'', u'>>> import numpy as np', u'>>> from dipy.viz import fvtk ', u'>>> from dipy.tracking.distances as pf', u'>>> tracks=[np.array([[0,0,0],[1,0,0,],[2,0,0]],dtype=np.float32), ', u'>>> np.array([[3,0,0],[3.5,1,0],[4,2,0]],dtype=np.float32),', u'>>> np.array([[3.2,0,0],[3.7,1,0],[4.4,2,0]],dtype=np.float32),', u'>>> np.array([[3.4,0,0],[3.9,1,0],[4.6,2,0]],dtype=np.float32),', u'>>> np.array([[0,0.2,0],[1,0.2,0],[2,0.2,0]],dtype=np.float32),', u'>>> np.array([[2,0.2,0],[1,0.2,0],[0,0.2,0]],dtype=np.float32),', u'>>> np.array([[0,0,0],[0,1,0],[0,2,0]],dtype=np.float32),', u'>>> np.array([[0.2,0,0],[0.2,1,0],[0.2,2,0]],dtype=np.float32),', u'>>> np.array([[-0.2,0,0],[-0.2,1,0],[-0.2,2,0]],dtype=np.float32)]', u'>>> C=pf.larch_fast_split(tracks,None,0.5)', u'', u'Here is an example of how to visualize the clustering above', u'', u'r=fvtk.ren()', u'fvtk.add(r,fvtk.line(tracks,fvtk.red))', u'fvtk.show(r)', u'for c in C:', u' color=np.random.rand(3)', u" for i in C[c]['indices']:", u' fos.add(r,fvtk.line(tracks[i],color))', u'fvtk.show(r)', u'for c in C:', u" fvtk.add(r,fos.line(C[c]['rep3']/C[c]['N'],fos.white))", u'fvtk.show(r)']:55: WARNING: Block quote ends without a blank line; unexpected unindent. [u'larch_3split', u':module: dipy.tracking.distances', u'', u'', u'', u'Generate a first pass clustering using 3 points (first, mid and last) on the tracks only.', u'', u'', u':Parameters:', u'', u' **tracks** : sequence', u'', u' of tracks as arrays, shape (N1,3) .. (Nm,3)', u' ', u'', u' **indices** : sequence', u'', u' of integer indices of tracks ', u' ', u'', u' **trh** : float', u'', u' squared euclidean distance threshold', u'', u':Returns:', u'', u' **C** : dict, a tree graph containing the clusters', u'', u' ', u'', u'.. rubric:: Notes', u'', u'', u'If a 3 point track (3track) is far away from all clusters then add a new', u'cluster and assign this 3track as the rep(representative) track for the new', u'cluster. Otherwise the rep 3track of each cluster is the average track of', u'the cluster.', u'', u'.. rubric:: Examples', u'', u'', u'>>> import numpy as np', u'>>> from dipy.viz import fvtk ', u'>>> from dipy.tracking.distances as pf', u'>>> tracks=[np.array([[0,0,0],[1,0,0,],[2,0,0]],dtype=np.float32), ', u'>>> np.array([[3,0,0],[3.5,1,0],[4,2,0]],dtype=np.float32),', u'>>> np.array([[3.2,0,0],[3.7,1,0],[4.4,2,0]],dtype=np.float32),', u'>>> np.array([[3.4,0,0],[3.9,1,0],[4.6,2,0]],dtype=np.float32),', u'>>> np.array([[0,0.2,0],[1,0.2,0],[2,0.2,0]],dtype=np.float32),', u'>>> np.array([[2,0.2,0],[1,0.2,0],[0,0.2,0]],dtype=np.float32),', u'>>> np.array([[0,0,0],[0,1,0],[0,2,0]],dtype=np.float32),', u'>>> np.array([[0.2,0,0],[0.2,1,0],[0.2,2,0]],dtype=np.float32),', u'>>> np.array([[-0.2,0,0],[-0.2,1,0],[-0.2,2,0]],dtype=np.float32)]', u'>>> C=pf.larch_fast_split(tracks,None,0.5)', u'', u'Here is an example of how to visualize the clustering above', u'', u'r=fvtk.ren()', u'fvtk.add(r,fvtk.line(tracks,fvtk.red))', u'fvtk.show(r)', u'for c in C:', u' color=np.random.rand(3)', u" for i in C[c]['indices']:", u' fos.add(r,fvtk.line(tracks[i],color))', u'fvtk.show(r)', u'for c in C:', u" fvtk.add(r,fos.line(C[c]['rep3']/C[c]['N'],fos.white))", u'fvtk.show(r)']:57: ERROR: Unexpected indentation. [u'larch_3split', u':module: dipy.tracking.distances', u'', u'', u'', u'Generate a first pass clustering using 3 points (first, mid and last) on the tracks only.', u'', u'', u':Parameters:', u'', u' **tracks** : sequence', u'', u' of tracks as arrays, shape (N1,3) .. (Nm,3)', u' ', u'', u' **indices** : sequence', u'', u' of integer indices of tracks ', u' ', u'', u' **trh** : float', u'', u' squared euclidean distance threshold', u'', u':Returns:', u'', u' **C** : dict, a tree graph containing the clusters', u'', u' ', u'', u'.. rubric:: Notes', u'', u'', u'If a 3 point track (3track) is far away from all clusters then add a new', u'cluster and assign this 3track as the rep(representative) track for the new', u'cluster. Otherwise the rep 3track of each cluster is the average track of', u'the cluster.', u'', u'.. rubric:: Examples', u'', u'', u'>>> import numpy as np', u'>>> from dipy.viz import fvtk ', u'>>> from dipy.tracking.distances as pf', u'>>> tracks=[np.array([[0,0,0],[1,0,0,],[2,0,0]],dtype=np.float32), ', u'>>> np.array([[3,0,0],[3.5,1,0],[4,2,0]],dtype=np.float32),', u'>>> np.array([[3.2,0,0],[3.7,1,0],[4.4,2,0]],dtype=np.float32),', u'>>> np.array([[3.4,0,0],[3.9,1,0],[4.6,2,0]],dtype=np.float32),', u'>>> np.array([[0,0.2,0],[1,0.2,0],[2,0.2,0]],dtype=np.float32),', u'>>> np.array([[2,0.2,0],[1,0.2,0],[0,0.2,0]],dtype=np.float32),', u'>>> np.array([[0,0,0],[0,1,0],[0,2,0]],dtype=np.float32),', u'>>> np.array([[0.2,0,0],[0.2,1,0],[0.2,2,0]],dtype=np.float32),', u'>>> np.array([[-0.2,0,0],[-0.2,1,0],[-0.2,2,0]],dtype=np.float32)]', u'>>> C=pf.larch_fast_split(tracks,None,0.5)', u'', u'Here is an example of how to visualize the clustering above', u'', u'r=fvtk.ren()', u'fvtk.add(r,fvtk.line(tracks,fvtk.red))', u'fvtk.show(r)', u'for c in C:', u' color=np.random.rand(3)', u" for i in C[c]['indices']:", u' fos.add(r,fvtk.line(tracks[i],color))', u'fvtk.show(r)', u'for c in C:', u" fvtk.add(r,fos.line(C[c]['rep3']/C[c]['N'],fos.white))", u'fvtk.show(r)']:58: WARNING: Block quote ends without a blank line; unexpected unindent. [u'lee_perpendicular_distance', u':module: dipy.tracking.distances', u'', u'', u'', u'Based on Lee , Han & Whang SIGMOD07.', u'Calculates perpendicular distance metric for the distance between two line segments', u'', u'This function assumes that norm(end0-start0)>norm(end1-start1)', u'i.e. that the first segment will be bigger than the second one.', u'Parameters', u'------------', u' start0 : float array(3,)', u' end0 : float array(3,)', u' start1 : float array(3,)', u' end1 : float array(3,)', u'', u':Returns:', u'', u' **perpendicular_distance: float** : ', u'', u' ', u'', u'.. rubric:: Notes', u'', u'', u'l0 = np.inner(end0-start0,end0-start0)', u'l1 = np.inner(end1-start1,end1-start1)', u'', u'k0=end0-start0', u'', u'u1 = np.inner(start1-start0,k0)/l0', u'u2 = np.inner(end1-start0,k0)/l0', u'', u'ps = start0+u1*k0', u'pe = start0+u2*k0', u'', u'lperp1 = np.sqrt(np.inner(ps-start1,ps-start1)) ', u'lperp2 = np.sqrt(np.inner(pe-end1,pe-end1))', u'', u'if lperp1+lperp2 > 0.:', u' return (lperp1**2+lperp2**2)/(lperp1+lperp2)', u'else:', u' return 0.', u'', u'.. rubric:: Examples', u'', u'', u'>>> import dipy.core.performance as pf', u'>>> pf.lee_perpendicular_distance([0,0,0],[1,0,0],[3,4,5],[5,4,3])', u'5.9380966767403436 ']:10: ERROR: Unexpected indentation. docstring of dipy.tracking.distances.local_skeleton_clustering:38: WARNING: Inline emphasis start-string without end-string. [u'local_skeleton_clustering', u':module: dipy.tracking.distances', u'', u'', u'', u'Efficient tractography clustering ', u'', u'Every track can needs to have the same number of points. ', u'Use dipy.tracking.metrics.downsample to restrict the number of points', u'', u':Parameters:', u'', u' **tracks** : sequence', u'', u' of tracks as arrays, shape (N,3) .. (N,3) where N=points', u'', u' **d_thr** : float, average euclidean distance threshold', u'', u' ', u'', u':Returns:', u'', u' **C** : dict', u'', u' ', u'', u'.. seealso::', u'', u' ', u' :obj:`dipy.tracking.metrics.downsample`', u' ', u'.. rubric:: Notes', u'', u'', u'The distance calculated between two tracks', u'', u't_1 t_2', u'', u'0* a *0 ', u' \\ | ', u' \\ |', u' 1* |', u' | b *1', u' | \\ ', u' 2* c *2', u'', u'is equal to (a+b+c)/3 where a the euclidean distance between t_1[0] and t_2[0], ', u'b between t_1[1] and t_2[1] and c between t_1[2] and t_2[2]. Also the fliped', u'', u'.. rubric:: Examples', u'', u'', u'>>> from dipy.tracking.distances import local_skeleton_clustering', u'>>> tracks=[np.array([[0,0,0],[1,0,0,],[2,0,0]]), ', u' np.array([[3,0,0],[3.5,1,0],[4,2,0]]),', u' np.array([[3.2,0,0],[3.7,1,0],[4.4,2,0]]),', u' np.array([[3.4,0,0],[3.9,1,0],[4.6,2,0]]),', u' np.array([[0,0.2,0],[1,0.2,0],[2,0.2,0]]),', u' np.array([[2,0.2,0],[1,0.2,0],[0,0.2,0]]),', u' np.array([[0,0,0],[0,1,0],[0,2,0]])]', u'>>> C=local_skeleton_clustering(tracks,d_thr=0.5,3)']:34: ERROR: Unexpected indentation. docstring of dipy.tracking.distances.local_skeleton_clustering:36: WARNING: Inline emphasis start-string without end-string. [u'local_skeleton_clustering', u':module: dipy.tracking.distances', u'', u'', u'', u'Efficient tractography clustering ', u'', u'Every track can needs to have the same number of points. ', u'Use dipy.tracking.metrics.downsample to restrict the number of points', u'', u':Parameters:', u'', u' **tracks** : sequence', u'', u' of tracks as arrays, shape (N,3) .. (N,3) where N=points', u'', u' **d_thr** : float, average euclidean distance threshold', u'', u' ', u'', u':Returns:', u'', u' **C** : dict', u'', u' ', u'', u'.. seealso::', u'', u' ', u' :obj:`dipy.tracking.metrics.downsample`', u' ', u'.. rubric:: Notes', u'', u'', u'The distance calculated between two tracks', u'', u't_1 t_2', u'', u'0* a *0 ', u' \\ | ', u' \\ |', u' 1* |', u' | b *1', u' | \\ ', u' 2* c *2', u'', u'is equal to (a+b+c)/3 where a the euclidean distance between t_1[0] and t_2[0], ', u'b between t_1[1] and t_2[1] and c between t_1[2] and t_2[2]. Also the fliped', u'', u'.. rubric:: Examples', u'', u'', u'>>> from dipy.tracking.distances import local_skeleton_clustering', u'>>> tracks=[np.array([[0,0,0],[1,0,0,],[2,0,0]]), ', u' np.array([[3,0,0],[3.5,1,0],[4,2,0]]),', u' np.array([[3.2,0,0],[3.7,1,0],[4.4,2,0]]),', u' np.array([[3.4,0,0],[3.9,1,0],[4.6,2,0]]),', u' np.array([[0,0.2,0],[1,0.2,0],[2,0.2,0]]),', u' np.array([[2,0.2,0],[1,0.2,0],[0,0.2,0]]),', u' np.array([[0,0,0],[0,1,0],[0,2,0]])]', u'>>> C=local_skeleton_clustering(tracks,d_thr=0.5,3)']:36: WARNING: Block quote ends without a blank line; unexpected unindent. docstring of dipy.tracking.distances.local_skeleton_clustering:38: WARNING: Inline emphasis start-string without end-string. [u'local_skeleton_clustering_3pts', u':module: dipy.tracking.distances', u'', u'', u'', u'Does a first pass clustering', u'', u'Every track can only have 3 pts neither less or more. ', u'Use dipy.tracking.metrics.downsample to restrict the number of points', u'', u':Parameters:', u'', u' **tracks** : sequence', u'', u' of tracks as arrays, shape (N,3) .. (N,3) where N=3', u'', u' **d_thr** : float, average euclidean distance threshold', u'', u' ', u'', u':Returns:', u'', u' **C** : dict', u'', u' ', u'', u'.. rubric:: Notes', u'', u'', u'It is possible to visualize the clustering C from the example', u'above using the fvtk module ', u'', u'r=fvtk.ren()', u'for c in C:', u' color=np.random.rand(3)', u" for i in C[c]['indices']:", u' fvtk.add(r,fos.line(tracks[i],color))', u'fvtk.show(r)', u'', u'.. rubric:: Examples', u'', u'', u'>>> from dipy.viz import fvtk', u'>>> tracks=[np.array([[0,0,0],[1,0,0,],[2,0,0]]), ', u' np.array([[3,0,0],[3.5,1,0],[4,2,0]]),', u' np.array([[3.2,0,0],[3.7,1,0],[4.4,2,0]]),', u' np.array([[3.4,0,0],[3.9,1,0],[4.6,2,0]]),', u' np.array([[0,0.2,0],[1,0.2,0],[2,0.2,0]]),', u' np.array([[2,0.2,0],[1,0.2,0],[0,0.2,0]]),', u' np.array([[0,0,0],[0,1,0],[0,2,0]])]', u'>>> C=local_skeleton_clustering(tracks,d_thr=0.5)']:27: ERROR: Unexpected indentation. [u'local_skeleton_clustering_3pts', u':module: dipy.tracking.distances', u'', u'', u'', u'Does a first pass clustering', u'', u'Every track can only have 3 pts neither less or more. ', u'Use dipy.tracking.metrics.downsample to restrict the number of points', u'', u':Parameters:', u'', u' **tracks** : sequence', u'', u' of tracks as arrays, shape (N,3) .. (N,3) where N=3', u'', u' **d_thr** : float, average euclidean distance threshold', u'', u' ', u'', u':Returns:', u'', u' **C** : dict', u'', u' ', u'', u'.. rubric:: Notes', u'', u'', u'It is possible to visualize the clustering C from the example', u'above using the fvtk module ', u'', u'r=fvtk.ren()', u'for c in C:', u' color=np.random.rand(3)', u" for i in C[c]['indices']:", u' fvtk.add(r,fos.line(tracks[i],color))', u'fvtk.show(r)', u'', u'.. rubric:: Examples', u'', u'', u'>>> from dipy.viz import fvtk', u'>>> tracks=[np.array([[0,0,0],[1,0,0,],[2,0,0]]), ', u' np.array([[3,0,0],[3.5,1,0],[4,2,0]]),', u' np.array([[3.2,0,0],[3.7,1,0],[4.4,2,0]]),', u' np.array([[3.4,0,0],[3.9,1,0],[4.6,2,0]]),', u' np.array([[0,0.2,0],[1,0.2,0],[2,0.2,0]]),', u' np.array([[2,0.2,0],[1,0.2,0],[0,0.2,0]]),', u' np.array([[0,0,0],[0,1,0],[0,2,0]])]', u'>>> C=local_skeleton_clustering(tracks,d_thr=0.5)']:29: ERROR: Unexpected indentation. [u'local_skeleton_clustering_3pts', u':module: dipy.tracking.distances', u'', u'', u'', u'Does a first pass clustering', u'', u'Every track can only have 3 pts neither less or more. ', u'Use dipy.tracking.metrics.downsample to restrict the number of points', u'', u':Parameters:', u'', u' **tracks** : sequence', u'', u' of tracks as arrays, shape (N,3) .. (N,3) where N=3', u'', u' **d_thr** : float, average euclidean distance threshold', u'', u' ', u'', u':Returns:', u'', u' **C** : dict', u'', u' ', u'', u'.. rubric:: Notes', u'', u'', u'It is possible to visualize the clustering C from the example', u'above using the fvtk module ', u'', u'r=fvtk.ren()', u'for c in C:', u' color=np.random.rand(3)', u" for i in C[c]['indices']:", u' fvtk.add(r,fos.line(tracks[i],color))', u'fvtk.show(r)', u'', u'.. rubric:: Examples', u'', u'', u'>>> from dipy.viz import fvtk', u'>>> tracks=[np.array([[0,0,0],[1,0,0,],[2,0,0]]), ', u' np.array([[3,0,0],[3.5,1,0],[4,2,0]]),', u' np.array([[3.2,0,0],[3.7,1,0],[4.4,2,0]]),', u' np.array([[3.4,0,0],[3.9,1,0],[4.6,2,0]]),', u' np.array([[0,0.2,0],[1,0.2,0],[2,0.2,0]]),', u' np.array([[2,0.2,0],[1,0.2,0],[0,0.2,0]]),', u' np.array([[0,0,0],[0,1,0],[0,2,0]])]', u'>>> C=local_skeleton_clustering(tracks,d_thr=0.5)']:30: WARNING: Block quote ends without a blank line; unexpected unindent. /«PKGBUILDDIR»/doc/reference/dipy.tracking.metrics.rst:2: WARNING: Title underline too short. :mod:`dipy.tracking.metrics` ========================= [u'EuDX(a, ind, seeds=10000, odf_vertices=None, a_low=0.0239, step_sz=0.5, ang_thr=60.0, length_thr=0.0, total_weight=0.5)', u':module: dipy.tracking.propagation', u'', u'', u'', u'Euler Delta Crossings', u'', u'Generates tracks with termination criteria defined by a', u"delta function [R8]_ and it has similarities with FACT algorithm [R9]_ and Basser's method ", u'but uses trilinear interpolation.', u'', u'Can be used with any reconstruction method as DTI, DSI, QBI, GQI which can', u'calculate an orientation distribution function and find the local peaks of', u'that function. For example a single tensor model can give you only', u'one peak a dual tensor model 2 peaks and quantitative anisotropy', u'method as used in GQI can give you 3,4,5 or even more peaks. ', u'', u'The parameters of the delta function are checking thresholds for the', u'direction propagation magnitude and the angle of propagation.', u'', u'A specific number of seeds is defined randomly and then the tracks', u'are generated for that seed if the delta function returns true.', u'', u'Trilinear interpolation is being used for defining the weights of', u'the propagation.', u'', u'.. rubric:: References', u'', u'.. [R8] Yeh. et al. Generalized Q-Sampling Imaging, TMI 2010.', u'', u'.. [R9] Mori et al. Three-dimensional tracking of axonal projections', u'in the brain by magnetic resonance imaging. Ann. Neurol. 1999.', u'', u'.. only:: latex', u'', u' [R8]_, [R9]_']:29: WARNING: Explicit markup ends without a blank line; unexpected unindent. [u'colors(v, colormap, auto=True)', u':module: dipy.viz.fvtk', u'', u'', u'', u'Create colors from a specific colormap and return it ', u'as an array of shape (N,3) where every row gives the corresponding', u'r,g,b value. The colormaps we use are similar with that of pylab.', u'', u"Current options for colormaps are 'jet','blues','blue_red', 'accent'", u'', u'.. rubric:: Notes', u'', u'', u'If you want to add more colormaps here is what you could do. Go to', u'this website http://www.scipy.org/Cookbook/Matplotlib/Show_colormaps', u'see which colormap you need and then get in pylab using the cm.datad ', u'dictionary.', u'', u"e.g. cm.datad['jet']", u'', u" {'blue': ((0.0, 0.5, 0.5),", u' (0.11, 1, 1),', u' (0.34000000000000002, 1, 1),', u' (0.65000000000000002, 0, 0),', u' (1, 0, 0)),', u" 'green': ((0.0, 0, 0),", u' (0.125, 0, 0),', u' (0.375, 1, 1),', u' (0.64000000000000001, 1, 1),', u' (0.91000000000000003, 0, 0),', u' (1, 0, 0)),', u" 'red': ((0.0, 0, 0),", u' (0.34999999999999998, 0, 0),', u' (0.66000000000000003, 1, 1),', u' (0.89000000000000001, 1, 1),', u' (1, 0.5, 0.5))}']:23: WARNING: Block quote ends without a blank line; unexpected unindent. [u'volume(vol, voxsz=(1.0, 1.0, 1.0), affine=None, center_origin=1, info=0, maptype=0, trilinear=1, iso=0, iso_thr=100, opacitymap=None, colormap=None)', u':module: dipy.viz.fvtk', u'', u'', u'', u'Create a volume and return a volumetric actor using volumetric rendering. ', u'This function has many different interesting capabilities. The maptype, opacitymap and colormap are the most crucial parameters here.', u'', u'', u':Parameters:', u'', u' **vol** : array, shape (N, M, K), dtype uint8', u'', u' an array representing the volumetric dataset that we want to visualize using volumetric rendering ', u' ', u'', u' **voxsz** : sequence of 3 floats', u'', u' default (1., 1., 1.)', u' ', u'', u' **affine** : array, shape (4,4), default None', u'', u' as given by volumeimages ', u' ', u'', u' **center_origin** : int {0,1}, default 1', u'', u' it considers that the center of the volume is the ', u' point (-vol.shape[0]/2.0+0.5,-vol.shape[1]/2.0+0.5,-vol.shape[2]/2.0+0.5)', u' ', u'', u' **info** : int {0,1}, default 1', u'', u' if 1 it prints out some info about the volume, the method and the dataset.', u' ', u'', u' **trilinear: int {0,1}, default 1** : ', u'', u' Use trilinear interpolation, default 1, gives smoother rendering. If you want faster interpolation use 0 (Nearest).', u' ', u'', u' **maptype** : int {0,1}, default 0,', u'', u' The maptype is a very important parameter which affects the raycasting algorithm in use for the rendering. ', u' The options are:', u' If 0 then vtkVolumeTextureMapper2D is used.', u' If 1 then vtkVolumeRayCastFunction is used.', u' ', u'', u' **iso** : int {0,1} default 0,', u'', u' If iso is 1 and maptype is 1 then we use vtkVolumeRayCastIsosurfaceFunction which generates an isosurface at ', u' the predefined iso_thr value. If iso is 0 and maptype is 1 vtkVolumeRayCastCompositeFunction is used.', u' ', u'', u' **iso_thr** : int, default 100,', u'', u' if iso is 1 then then this threshold in the volume defines the value which will be used to create the isosurface.', u' ', u'', u' **opacitymap** : array, shape (N,2), default None.', u'', u' The opacity map assigns a transparency coefficient to every point in the volume.', u' The default value uses the histogram of the volume to calculate the opacitymap.', u'', u' **colormap** : array, shape (N,4), default None.', u'', u' The color map assigns a color value to every point in the volume.', u' When None from the histogram it uses a red-blue colormap.', u'', u':Returns:', u'', u' **vtkVolume** : ', u'', u' ', u'', u'.. rubric:: Notes', u'', u'', u'What is the difference between TextureMapper2D and RayCastFunction? ', u"Coming soon... See VTK user's guide [book] & The Visualization Toolkit [book] and VTK's online documentation & online docs.", u'', u'What is the difference between RayCastIsosurfaceFunction and RayCastCompositeFunction?', u"Coming soon... See VTK user's guide [book] & The Visualization Toolkit [book] and VTK's online documentation & online docs.", u'', u'What about trilinear interpolation?', u'Coming soon... well when time permits really ... :-)', u'', u'.. rubric:: Examples', u'', u'', u'First example random points ', u'', u'>>> from dipy.viz import fvtk', u'>>> import numpy as np', u'>>> vol=100*np.random.rand(100,100,100)', u">>> vol=vol.astype('uint8')", u'>>> print vol.min(), vol.max()', u'0 99', u'>>> r = fvtk.ren()', u'>>> v = fvtk.volume(vol)', u'>>> fvtk.add(r,v)', u'>>> #fvtk.show(r)', u'', u'Second example with a more complicated function', u'', u'>>> from dipy.viz import fvtk', u'>>> import numpy as np', u'>>> x, y, z = np.ogrid[-10:10:20j, -10:10:20j, -10:10:20j]', u'>>> s = np.sin(x*y*z)/(x*y*z)', u'>>> r = fvtk.ren()', u'>>> v = fvtk.volume(s)', u'>>> fvtk.add(r,v)', u'>>> #fvtk.show(r)', u'', u'If you find this function too complicated you can always use mayavi. ', u'Please do not forget to use the -wthread switch in ipython if you are running mayavi.', u'', u'from enthought.mayavi import mlab ', u'import numpy as np', u'x, y, z = np.ogrid[-10:10:20j, -10:10:20j, -10:10:20j]', u's = np.sin(x*y*z)/(x*y*z)', u'mlab.pipeline.volume(mlab.pipeline.scalar_field(s))', u'mlab.show()', u'', u'More mayavi demos are available here:', u'', u'http://code.enthought.com/projects/mayavi/docs/development/html/mayavi/mlab.html']:23: WARNING: Block quote ends without a blank line; unexpected unindent. /«PKGBUILDDIR»/doc/reference/reconst.rst:7: WARNING: toctree references unknown document u'reference/dipy.reconst.recspeed' looking for now-outdated files... none found pickling environment... done /«PKGBUILDDIR»/doc/devel/gitwash/dot2_dot3.rst:: WARNING: document isn't included in any toctree /«PKGBUILDDIR»/doc/glossary.rst:: WARNING: document isn't included in any toctree /«PKGBUILDDIR»/doc/reference/dipy.reconst.dandelion.rst:: WARNING: document isn't included in any toctree /«PKGBUILDDIR»/doc/reference/dipy.reconst.qball.rst:: WARNING: document isn't included in any toctree /«PKGBUILDDIR»/doc/theory/b_and_q.rst:: WARNING: document isn't included in any toctree /«PKGBUILDDIR»/doc/theory/bmatrix.rst:: WARNING: document isn't included in any toctree /«PKGBUILDDIR»/doc/theory/gqi.rst:: WARNING: document isn't included in any toctree checking consistency... done preparing documents... done writing output... 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The HTML pages are in _build/html. make[2]: Leaving directory `/«PKGBUILDDIR»/doc' rm doc/_build/html/_static/jquery.js rm -r doc/_build/html/_sources rm: cannot remove `doc/_build/html/_sources': No such file or directory make[1]: [override_dh_auto_install] Error 1 (ignored) : # objects inventory is of no use for the package rm doc/_build/html/objects.inv : # Run tests later on : # cd build to prevent use of local/not-built source tree cd build; \ for PYTHON in python2.6 python2.7; do \ echo "I: Running Dipy unittests using $PYTHON"; \ PYTHONPATH=$(/bin/ls -d /«PKGBUILDDIR»/debian/tmp/usr/lib/$PYTHON/*-packages) \ MPLCONFIGDIR=/tmp/ \ $PYTHON /usr/bin/nosetests dipy; \ done I: Running Dipy unittests using python2.6 /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/dandelion.py:8: FutureWarning: This module is most likely to change both as a name and in structure in the future warnings.warn("This module is most likely to change both as a name and in structure in the future",FutureWarning) /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/qball.py:8: FutureWarning: This module is most likely to change both as a name and in structure in the future warnings.warn("This module is most likely to change both as a name and in structure in the future",FutureWarning) ...............................S/«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/dandelion.py:88: RuntimeWarning: divide by zero encountered in log lg=np.log(s[1:])-np.log(s[0]) /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/dandelion.py:89: RuntimeWarning: divide by zero encountered in log d=ob*(np.log(s[1:])-np.log(s[0])) .................../«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/dti.py:209: RuntimeWarning: invalid value encountered in divide / (ev1*ev1 + ev2*ev2 + ev3*ev3)) ............/«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/dti.py:209: RuntimeWarning: invalid value encountered in double_scalars / (ev1*ev1 + ev2*ev2 + ev3*ev3)) ........................../«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/gqi.py:172: RuntimeWarning: invalid value encountered in divide QA/=glob_norm_param .......................................S ---------------------------------------------------------------------- Ran 142 tests in 184.769s OK (SKIP=2) I: Running Dipy unittests using python2.7 /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/dandelion.py:8: FutureWarning: This module is most likely to change both as a name and in structure in the future warnings.warn("This module is most likely to change both as a name and in structure in the future",FutureWarning) /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/qball.py:8: FutureWarning: This module is most likely to change both as a name and in structure in the future warnings.warn("This module is most likely to change both as a name and in structure in the future",FutureWarning) ...............................S/«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/dandelion.py:88: RuntimeWarning: divide by zero encountered in log lg=np.log(s[1:])-np.log(s[0]) /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/dandelion.py:89: RuntimeWarning: divide by zero encountered in log d=ob*(np.log(s[1:])-np.log(s[0])) .................../«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/dti.py:209: RuntimeWarning: invalid value encountered in divide / (ev1*ev1 + ev2*ev2 + ev3*ev3)) ............/«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/dti.py:209: RuntimeWarning: invalid value encountered in double_scalars / (ev1*ev1 + ev2*ev2 + ev3*ev3)) ........................../«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/gqi.py:172: RuntimeWarning: invalid value encountered in divide QA/=glob_norm_param .......................................S ---------------------------------------------------------------------- Ran 142 tests in 173.057s OK (SKIP=2) make[1]: Leaving directory `/«PKGBUILDDIR»' dh_install -a -O--buildsystem=python_distutils dh_installdocs -a -O--buildsystem=python_distutils dh_installchangelogs -a -O--buildsystem=python_distutils dh_installexamples -a -O--buildsystem=python_distutils dh_installman -a -O--buildsystem=python_distutils dh_installcatalogs -a -O--buildsystem=python_distutils dh_installcron -a -O--buildsystem=python_distutils dh_installdebconf -a -O--buildsystem=python_distutils dh_installemacsen -a -O--buildsystem=python_distutils dh_installifupdown -a -O--buildsystem=python_distutils dh_installinfo -a -O--buildsystem=python_distutils debian/rules override_dh_pysupport make[1]: Entering directory `/«PKGBUILDDIR»' : # I: Move libraries into the -lib and -lib-dbg packages find debian/python-dipy/ -iname *.so -delete || : # remove .so from indep pkg if present find: `debian/python-dipy/': No such file or directory find /«PKGBUILDDIR»/debian/tmp/ -iname *.so | \ while read so; do \ d=$(dirname $so); \ if [ ${so%_d.so} = ${so} ]; then suf=""; else suf="-dbg"; fi; \ d=$(echo $d | sed -e "s,/«PKGBUILDDIR»/debian/tmp/,debian/python-dipy-lib$suf/,g"); \ mkdir -p $d; echo "Moving $so under $d"; mv $so $d; \ done Moving /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/reconst/recspeed.so under debian/python-dipy-lib/usr/lib/python2.7/dist-packages/dipy/reconst Moving /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking/distances.so under debian/python-dipy-lib/usr/lib/python2.7/dist-packages/dipy/tracking Moving /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking/propspeed.so under debian/python-dipy-lib/usr/lib/python2.7/dist-packages/dipy/tracking Moving /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.7/dist-packages/dipy/tracking/vox2track.so under debian/python-dipy-lib/usr/lib/python2.7/dist-packages/dipy/tracking Moving /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/reconst/recspeed.so under debian/python-dipy-lib/usr/lib/python2.6/dist-packages/dipy/reconst Moving /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking/distances.so under debian/python-dipy-lib/usr/lib/python2.6/dist-packages/dipy/tracking Moving /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking/propspeed.so under debian/python-dipy-lib/usr/lib/python2.6/dist-packages/dipy/tracking Moving /«PKGBUILDDIR»/debian/tmp/usr/lib/python2.6/dist-packages/dipy/tracking/vox2track.so under debian/python-dipy-lib/usr/lib/python2.6/dist-packages/dipy/tracking dh_pysupport dh_pysupport: This program is deprecated, you should use dh_python2 instead. Migration guide: http://deb.li/dhs2p make[1]: Leaving directory `/«PKGBUILDDIR»' dh_installinit -a -O--buildsystem=python_distutils dh_installmenu -a -O--buildsystem=python_distutils dh_installmime -a -O--buildsystem=python_distutils dh_installmodules -a -O--buildsystem=python_distutils dh_installlogcheck -a -O--buildsystem=python_distutils dh_installlogrotate -a -O--buildsystem=python_distutils dh_installpam -a -O--buildsystem=python_distutils dh_installppp -a -O--buildsystem=python_distutils dh_installudev -a -O--buildsystem=python_distutils dh_installwm -a -O--buildsystem=python_distutils dh_installxfonts -a -O--buildsystem=python_distutils dh_installgsettings -a -O--buildsystem=python_distutils dh_bugfiles -a -O--buildsystem=python_distutils dh_ucf -a -O--buildsystem=python_distutils dh_lintian -a -O--buildsystem=python_distutils dh_gconf -a -O--buildsystem=python_distutils dh_icons -a -O--buildsystem=python_distutils dh_perl -a -O--buildsystem=python_distutils dh_usrlocal -a -O--buildsystem=python_distutils dh_link -a -O--buildsystem=python_distutils debian/rules override_dh_compress make[1]: Entering directory `/«PKGBUILDDIR»' dh_compress -X.py -X.html -X.css -X.jpg -X.txt -X.js -X.json -X.rtc -X.par -X.bin -Xobjects.inv make[1]: Leaving directory `/«PKGBUILDDIR»' dh_fixperms -a -O--buildsystem=python_distutils dh_strip -a -O--buildsystem=python_distutils dh_makeshlibs -a -O--buildsystem=python_distutils dh_shlibdeps -a -O--buildsystem=python_distutils dh_installdeb -a -O--buildsystem=python_distutils dh_gencontrol -a -O--buildsystem=python_distutils dh_md5sums -a -O--buildsystem=python_distutils dh_builddeb -a -O--buildsystem=python_distutils dpkg-deb: warning: 'debian/python-dipy-lib/DEBIAN/control' contains user-defined field 'Python-Version' dpkg-deb: warning: ignoring 1 warning about the control file(s) dpkg-deb: building package `python-dipy-lib' in `../python-dipy-lib_0.5.0-3_armhf.deb'. dpkg-genchanges -B -mbuildd >../dipy_0.5.0-3_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 dipy-0.5.0 dpkg-buildpackage: binary only upload (no source included) ──────────────────────────────────────────────────────────────────────────────── Build finished at 20120520-0905 Finished ──────── I: Built successfully ┌──────────────────────────────────────────────────────────────────────────────┐ │ Changes │ └──────────────────────────────────────────────────────────────────────────────┘ dipy_0.5.0-3_armhf.changes: ─────────────────────────── Format: 1.8 Date: Tue, 20 Sep 2011 15:37:06 -0400 Source: dipy Binary: python-dipy python-dipy-lib python-dipy-doc Architecture: armhf Version: 0.5.0-3 Distribution: testing Urgency: low Maintainer: buildd Changed-By: Yaroslav Halchenko Description: python-dipy - toolbox for analysis of MR diffusion imaging data python-dipy-doc - toolbox for analysis of MR diffusion imaging data -- documentatio python-dipy-lib - toolbox for analysis of MR diffusion imaging data -- extensions Changes: dipy (0.5.0-3) unstable; urgency=low . * Added patch up_explicit_cdefs_inits to prevent FTBFS with cython >= 0.15 Checksums-Sha1: 894fbb035c63092b75dd72b2aaa0876d85ff291a 375190 python-dipy-lib_0.5.0-3_armhf.deb Checksums-Sha256: 10bce93ed7f56e52e0404419d1e2ca51d6bc9fc83b56a6c4070b94232d977a65 375190 python-dipy-lib_0.5.0-3_armhf.deb Files: 15cb03132abe6da261b2e69f28944c5f 375190 python extra python-dipy-lib_0.5.0-3_armhf.deb ┌──────────────────────────────────────────────────────────────────────────────┐ │ Package contents │ └──────────────────────────────────────────────────────────────────────────────┘ python-dipy-lib_0.5.0-3_armhf.deb ───────────────────────────────── new debian package, version 2.0. size 375190 bytes: control archive= 1069 bytes. 610 bytes, 17 lines control 1017 bytes, 12 lines md5sums 192 bytes, 7 lines * postinst #!/bin/sh 195 bytes, 7 lines * prerm #!/bin/sh Package: python-dipy-lib Source: dipy Version: 0.5.0-3 Architecture: armhf Maintainer: NeuroDebian Team Installed-Size: 989 Depends: python (<< 2.8), python (>= 2.6), python-support (>= 0.90.0), libc6 (>= 2.13-28) Provides: python2.6-dipy-lib, python2.7-dipy-lib Section: python Priority: extra Homepage: http://nipy.org/dipy Description: toolbox for analysis of MR diffusion imaging data -- extensions Dipy is a toolbox for the analysis of diffusion magnetic resonance imaging data. . This package provides architecture-dependent builds of the extensions. Python-Version: 2.6, 2.7 drwxr-xr-x root/root 0 2012-05-20 09:04 ./ drwxr-xr-x root/root 0 2012-05-20 09:04 ./usr/ drwxr-xr-x root/root 0 2012-05-20 09:05 ./usr/share/ drwxr-xr-x root/root 0 2012-05-20 09:05 ./usr/share/python-support/ -rw-r--r-- root/root 456 2012-05-20 09:05 ./usr/share/python-support/python-dipy-lib.public drwxr-xr-x root/root 0 2012-05-20 09:04 ./usr/share/doc/ drwxr-xr-x root/root 0 2012-05-20 09:05 ./usr/share/doc/python-dipy-lib/ -rw-r--r-- root/root 486 2011-09-20 12:37 ./usr/share/doc/python-dipy-lib/changelog.Debian.gz -rw-r--r-- root/root 704 2011-02-13 06:07 ./usr/share/doc/python-dipy-lib/changelog.gz -rw-r--r-- root/root 2053 2011-09-20 12:37 ./usr/share/doc/python-dipy-lib/copyright drwxr-xr-x root/root 0 2012-05-20 09:05 ./usr/lib/ drwxr-xr-x root/root 0 2012-05-20 09:05 ./usr/lib/pyshared/ drwxr-xr-x root/root 0 2012-05-20 09:05 ./usr/lib/pyshared/python2.7/ drwxr-xr-x root/root 0 2012-05-20 09:05 ./usr/lib/pyshared/python2.7/dipy/ drwxr-xr-x root/root 0 2012-05-20 09:05 ./usr/lib/pyshared/python2.7/dipy/reconst/ -rw-r--r-- root/root 77096 2012-05-20 09:05 ./usr/lib/pyshared/python2.7/dipy/reconst/recspeed.so drwxr-xr-x root/root 0 2012-05-20 09:05 ./usr/lib/pyshared/python2.7/dipy/tracking/ -rw-r--r-- root/root 287516 2012-05-20 09:05 ./usr/lib/pyshared/python2.7/dipy/tracking/distances.so -rw-r--r-- root/root 54192 2012-05-20 09:05 ./usr/lib/pyshared/python2.7/dipy/tracking/propspeed.so -rw-r--r-- root/root 53468 2012-05-20 09:05 ./usr/lib/pyshared/python2.7/dipy/tracking/vox2track.so drwxr-xr-x root/root 0 2012-05-20 09:05 ./usr/lib/pyshared/python2.6/ drwxr-xr-x root/root 0 2012-05-20 09:05 ./usr/lib/pyshared/python2.6/dipy/ drwxr-xr-x root/root 0 2012-05-20 09:05 ./usr/lib/pyshared/python2.6/dipy/reconst/ -rw-r--r-- root/root 77348 2012-05-20 09:05 ./usr/lib/pyshared/python2.6/dipy/reconst/recspeed.so drwxr-xr-x root/root 0 2012-05-20 09:05 ./usr/lib/pyshared/python2.6/dipy/tracking/ -rw-r--r-- root/root 283812 2012-05-20 09:05 ./usr/lib/pyshared/python2.6/dipy/tracking/distances.so -rw-r--r-- root/root 50856 2012-05-20 09:05 ./usr/lib/pyshared/python2.6/dipy/tracking/propspeed.so -rw-r--r-- root/root 53720 2012-05-20 09:05 ./usr/lib/pyshared/python2.6/dipy/tracking/vox2track.so ┌──────────────────────────────────────────────────────────────────────────────┐ │ Post Build │ └──────────────────────────────────────────────────────────────────────────────┘ ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /«BUILDDIR» Reading package lists... Building dependency tree... Reading state information... 0 upgraded, 0 newly installed, 0 to remove and 19 not upgraded. Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: bsdmainutils* cython* debhelper* docutils-common* file* fontconfig* fontconfig-config* fonts-lyx* gettext* gettext-base* gir1.2-glib-2.0* groff-base* html2text* intltool-debian* libamd2.2.0* libatk1.0-0* libatk1.0-data* libavahi-client3* libavahi-common-data* libavahi-common3* libblas3gf* libcairo2* libcroco3* libcups2* libdatrie1* libdb4.8* libdbus-1-3* libexpat1* libexpat1-dev* libffi5* libfontconfig1* libfreetype6* libgcrypt11* libgdk-pixbuf2.0-0* libgdk-pixbuf2.0-common* libgfortran3* libgirepository-1.0-1* libglib2.0-0* libgnutls26* libgpg-error0* libgssapi-krb5-2* libgtk2.0-0* libgtk2.0-common* libjasper1* libjbig0* libjpeg8* libjs-jquery* libjs-sphinxdoc* libjs-underscore* libk5crypto3* libkeyutils1* libkrb5-3* libkrb5support0* liblapack3gf* libmagic1* libp11-kit0* libpango1.0-0* libpcre3* libpipeline1* libpixman-1-0* libpng12-0* libpython2.6* libpython2.7* libsqlite3-0* libssl-dev* libssl1.0.0* libtasn1-3* libthai-data* libthai0* libtiff4* libumfpack5.4.0* libunistring0* libx11-6* libx11-data* libxau6* libxcb-render0* libxcb-shm0* libxcb1* libxcomposite1* libxcursor1* libxdamage1* libxdmcp6* libxext6* libxfixes3* libxft2* libxi6* libxinerama1* libxml2* libxrandr2* libxrender1* libxss1* man-db* mime-support* po-debconf* python* python-all* python-all-dev* python-cairo* python-dateutil* python-dev* python-docutils* python-gi* python-gobject* python-gobject-2* python-jinja2* python-markupsafe* python-matplotlib* python-matplotlib-data* python-minimal* python-nibabel* python-nose* python-numpy* python-pkg-resources* python-pygments* python-pyparsing* python-roman* python-scipy* python-sphinx* python-support* python-tz* python2.6* python2.6-dev* python2.6-minimal* python2.7* python2.7-dev* python2.7-minimal* sbuild-build-depends-core-dummy* sbuild-build-depends-dipy-dummy* sgml-base* shared-mime-info* sphinx-common* tcl8.5* tk8.5* ttf-dejavu-core* x11-common* xml-core* zlib1g-dev* 0 upgraded, 0 newly installed, 137 to remove and 19 not upgraded. After this operation, 270 MB disk space will be freed. (Reading database ... 22345 files and directories currently installed.) Removing sbuild-build-depends-dipy-dummy ... Removing debhelper ... Removing man-db ... Purging configuration files for man-db ... Removing bsdmainutils ... Purging configuration files for bsdmainutils ... Removing cython ... Removing python-sphinx ... Removing python-docutils ... Removing docutils-common ... Purging configuration files for docutils-common ... Removing file ... Removing python-matplotlib ... Removing libgtk2.0-0:armhf ... Purging configuration files for libgtk2.0-0:armhf ... Removing libpango1.0-0:armhf ... Purging configuration files for libpango1.0-0:armhf ... Removing fontconfig ... Purging configuration files for fontconfig ... Removing tk8.5 ... Purging configuration files for tk8.5 ... Removing libxft2:armhf ... Purging configuration files for libxft2:armhf ... Removing python-cairo ... Removing libcairo2:armhf ... 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Purging configuration files for libxcb-shm0:armhf ... Removing libxcb-render0:armhf ... Purging configuration files for libxcb-render0:armhf ... Removing libxcb1:armhf ... Purging configuration files for libxcb1:armhf ... Removing libxau6:armhf ... Purging configuration files for libxau6: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 xml-core ... Purging configuration files for xml-core ... dpkg: warning: while removing xml-core, directory '/etc/sgml' not empty so not removed. Removing sgml-base ... Purging configuration files for sgml-base ... Removing tcl8.5 ... Purging configuration files for tcl8.5 ... 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 zlib1g-dev:armhf ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Architecture: armhf Build-Space: 38288 Build-Time: 1197 Distribution: testing Install-Time: 397 Job: dipy_0.5.0-3 Package: dipy Package-Time: 1613 Source-Version: 0.5.0-3 Space: 38288 Status: successful Version: 0.5.0-3 ──────────────────────────────────────────────────────────────────────────────── Finished at 20120520-0905 Build needed 00:26:53, 38288k disc space