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