getCacheSuffixDefault(format), colSel, null);
}
- public String formatSequences(FileFormatI format, AlignmentI alignment,
- String[] omitHidden, int[] exportRange, ColumnSelection colSel,
- SequenceGroup sgp)
- {
- return formatSequences(format, alignment, omitHidden, exportRange,
- getCacheSuffixDefault(format), colSel, sgp);
- }
-
/**
* hack function to replace seuqences with visible sequence strings before
* generating a string of the alignment in the given format.
selectedOnly);
}
+ public AlignmentI readFromFile(AlignmentFileI source, FileFormatI format)
+ throws IOException
+ {
+ FileParse fp = new FileParse(source.getInFile(),
+ source.getDataSourceType());
+ return readFromFile(fp, format);
+ }
+
}