- try\r
- {\r
- AlignFile afile = null;\r
-\r
- if (format.equalsIgnoreCase("FASTA"))\r
- {\r
- afile = new FastaFile();\r
- afile.addJVSuffix(\r
- jalview.bin.Cache.getDefault("FASTA_JVSUFFIX", true));\r
- }\r
- else if (format.equalsIgnoreCase("MSF"))\r
- {\r
- afile = new MSFfile();\r
- afile.addJVSuffix(\r
- jalview.bin.Cache.getDefault("MSF_JVSUFFIX", true));\r
- }\r
- else if (format.equalsIgnoreCase("PileUp"))\r
- {\r
- afile = new PileUpfile();\r
- afile.addJVSuffix(\r
- jalview.bin.Cache.getDefault("PILEUP_JVSUFFIX", true));\r
- }\r
- else if (format.equalsIgnoreCase("CLUSTAL"))\r
- {\r
- afile = new ClustalFile();\r
- afile.addJVSuffix(\r
- jalview.bin.Cache.getDefault("CLUSTAL_JVSUFFIX", true));\r
- }\r
- else if (format.equalsIgnoreCase("BLC"))\r
- {\r
- afile = new BLCFile();\r
- afile.addJVSuffix(\r
- jalview.bin.Cache.getDefault("BLC_JVSUFFIX", true));\r
- }\r
- else if (format.equalsIgnoreCase("PIR"))\r
- {\r
- afile = new PIRFile();\r
- afile.addJVSuffix(\r
- jalview.bin.Cache.getDefault("PIR_JVSUFFIX", true));\r
- }\r
- else if (format.equalsIgnoreCase("PFAM"))\r
- {\r
- afile = new PfamFile();\r
- afile.addJVSuffix(\r
- jalview.bin.Cache.getDefault("PFAM_JVSUFFIX", true));\r
- }\r