- AlignmentFileI getAlignmentFile(String inFile, DataSourceType sourceType)
- throws IOException;
-
- // TODO can we get rid of one of these methods?
- AlignmentFileI getAlignmentFile(FileParse source) throws IOException;
-
- AlignmentFileI getAlignmentFile(AlignmentI al);
-
- AlignmentFileI getAlignmentFile();