Merge branch 'develop' into features/JAL-653_JAL-1766_htslib_refseqsupport
[jalview.git] / src / jalview / io /
drwxr-xr-x   ..
-rw-r--r-- 42 .cvsignore
-rw-r--r-- 2653 AMSAFile.java
-rwxr-xr-x 9527 AlignFile.java
-rw-r--r-- 4133 AlignmentProperties.java
-rwxr-xr-x 51764 AnnotationFile.java
-rwxr-xr-x 24648 AppletFormatAdapter.java
-rwxr-xr-x 6303 BLCFile.java
-rw-r--r-- 12284 BioJsHTMLOutput.java
-rw-r--r-- 991 ClansFile.java
-rwxr-xr-x 6624 ClustalFile.java
-rw-r--r-- 1369 DBRefFile.java
-rwxr-xr-x 5336 FastaFile.java
-rwxr-xr-x 41747 FeaturesFile.java
-rwxr-xr-x 16576 FileLoader.java
-rwxr-xr-x 15161 FileParse.java
-rwxr-xr-x 11114 FormatAdapter.java
-rwxr-xr-x 12439 HTMLOutput.java
-rw-r--r-- 4493 HtmlFile.java
-rw-r--r-- 33381 HtmlSvgOutput.java
-rwxr-xr-x 11152 IdentifyFile.java
-rw-r--r-- 1610 InputStreamParser.java
-rwxr-xr-x 11731 JPredFile.java
-rw-r--r-- 28801 JSONFile.java
-rwxr-xr-x 8392 JalviewFileChooser.java
-rwxr-xr-x 4046 JalviewFileFilter.java
-rwxr-xr-x 3268 JalviewFileView.java
-rwxr-xr-x 8675 JnetAnnotationMaker.java
-rwxr-xr-x 9378 MSFfile.java
-rw-r--r-- 1329 MatrixFile.java
-rwxr-xr-x 10349 ModellerDescription.java
-rwxr-xr-x 27386 NewickFile.java
-rwxr-xr-x 5056 PIRFile.java
-rwxr-xr-x 4411 PfamFile.java
-rw-r--r-- 9438 PhylipFile.java
-rwxr-xr-x 4504 PileUpfile.java
-rw-r--r-- 6856 RnamlFile.java
-rw-r--r-- 11886 SequenceAnnotationReport.java
-rw-r--r-- 8758 SimpleBlastFile.java
-rw-r--r-- 37341 StockholmFile.java
-rw-r--r-- 17215 TCoffeeScoreFile.java
-rw-r--r-- 93354 VamsasAppDatastore.java
-rwxr-xr-x 8186 WSWUBlastClient.java
drwxr-xr-x - gff
drwxr-xr-x - packed
drwxr-xr-x - vamsas