Uses of Class
pal.alignment.AlignmentParseException

Packages that use AlignmentParseException
pal.alignment Classes dealing with sequence alignments, including methods for reading and printing in several possible formats, as well as rearranging and concatenating. 
 

Uses of AlignmentParseException in pal.alignment
 

Methods in pal.alignment that throw AlignmentParseException
static Alignment[] AlignmentReaders.readAllPhylipClustalAlignments(java.io.Reader r, DataType dt)
          Read an alignment in phylip/clustal/simple format.
static Alignment AlignmentReaders.readPhylipClustalAlignment(java.io.Reader r, DataType dt)
          Read an alignment in phylip/clustal/simple format.
static void AlignmentReaders.readPhylipClustalAlignment(java.io.Reader r, DataType dt, AlignmentReceiver receiver)
          Read an alignment in phylip/clustal/simple format.
 

Constructors in pal.alignment that throw AlignmentParseException
ReadAlignment(java.io.PushbackReader input)
          read from stream
ReadAlignment(java.lang.String file)
          read from file
ReadAlignmentOld(java.io.PushbackReader input)
          read from stream
ReadAlignmentOld(java.lang.String file)
          read from file