Package	Files	Average Method Complexity	TOTAL Coverage
jalview.io jalview.io	55.0 55	4.1578193 4.16	0.53880864 0.5388086453.9%

Class	Methods	Average Method Complexity	TOTAL Coverage
AlignmentProperties AlignmentProperties	5.0 5	3.2 3.2	0.0 0.00%
DBRefFile DBRefFile	2.0 2	1.0 1	0.0 0.00%
HtmlFile HtmlFile	15.0 15	1.4 1.4	0.0 0.00%
InputStreamParser InputStreamParser	2.0 2	1.0 1	0.0 0.00%
JPredFile JPredFile	11.0 11	4.0 4	0.0 0.00%
JSONFile.JSONExportSettings JSONFile.JSONExportSettings	10.0 10	1.0 1	0.0 0.00%
JnetAnnotationMaker JnetAnnotationMaker	2.0 2	21.0 21	0.0 0.00%
ModellerDescription.resCode ModellerDescription.resCode	2.0 2	1.0 1	0.0 0.00%
SimpleBlastFile SimpleBlastFile	6.0 6	8.0 8	0.0 0.00%
VamsasAppDatastore VamsasAppDatastore	51.0 51	7.2941175 7.29	0.0 0.00%
WSWUBlastClient WSWUBlastClient	3.0 3	5.0 5	0.0 0.00%
WSWUBlastClient.BlastThread WSWUBlastClient.BlastThread	3.0 3	2.3333333 2.33	0.0 0.00%
WSWUBlastClient.ImageTwirler WSWUBlastClient.ImageTwirler	2.0 2	3.5 3.5	0.0 0.00%
ModellerDescription ModellerDescription	14.0 14	4.785714 4.79	0.14553991 0.1455399114.6%
AMSAFile AMSAFile	4.0 4	3.5 3.5	0.18867925 0.1886792518.9%
PDBFeatureSettings PDBFeatureSettings	4.0 4	2.25 2.25	0.21428572 0.2142857221.4%
JalviewFileChooser JalviewFileChooser	23.0 23	2.8695652 2.87	0.2735043 0.273504327.4%
FormatAdapter FormatAdapter	16.0 16	1.75 1.75	0.2783505 0.278350527.8%
AppletFormatAdapter AppletFormatAdapter	18.0 18	4.6666665 4.67	0.2893082 0.289308228.9%
FileParse FileParse	34.0 34	2.735294 2.74	0.52380955 0.5238095552.4%
HTMLOutput HTMLOutput	11.0 11	2.4545455 2.45	0.5625 0.562556.2%
NewickFile NewickFile	26.0 26	4.3076925 4.31	0.5829493 0.582949358.3%
BioJsHTMLOutput BioJsHTMLOutput	13.0 13	2.6153846 2.62	0.58536583 0.5853658358.5%
JalviewFileFilter JalviewFileFilter	12.0 12	2.8333333 2.83	0.5882353 0.588235358.8%
IntKeyStringValueEntry IntKeyStringValueEntry	2.0 2	1.0 1	0.6 0.660%
FastaFile FastaFile	8.0 8	3.625 3.62	0.6146789 0.614678961.5%
FileLoader FileLoader	17.0 17	4.0588236 4.06	0.6165413 0.616541361.7%
BackupFilenameParts BackupFilenameParts	8.0 8	3.0 3	0.6216216 0.621621662.2%
FileFormat FileFormat	53.0 53	1.018868 1.02	0.64102566 0.6410256664.1%
JalviewFileView JalviewFileView	6.0 6	3.3333333 3.33	0.6506024 0.650602465.1%
RnamlFile RnamlFile	9.0 9	2.6666667 2.67	0.65882355 0.6588235565.9%
BackupFiles BackupFiles	23.0 23	3.5217392 3.52	0.6725146 0.672514667.3%
PIRFile PIRFile	5.0 5	4.8 4.8	0.6759259 0.675925967.6%
FeaturesFile FeaturesFile	29.0 29	5.6551723 5.66	0.7195846 0.719584672%
TCoffeeScoreFile TCoffeeScoreFile	14.0 14	5.0 5	0.71984434 0.7198443472%
StructureFile StructureFile	32.0 32	1.9375 1.94	0.73333335 0.7333333573.3%
Jalview2xmlBase Jalview2xmlBase	5.0 5	2.0 2	0.7407407 0.740740774.1%
AnnotationFile AnnotationFile	25.0 25	11.84 11.84	0.7443609 0.744360974.4%
BLCFile BLCFile	6.0 6	5.6666665 5.67	0.7557252 0.755725275.6%
StockholmFile StockholmFile	17.0 17	10.3529415 10.35	0.756393 0.75639375.6%
IdentifyFile IdentifyFile	9.0 9	9.444445 9.44	0.7570422 0.757042275.7%
HtmlSvgOutput HtmlSvgOutput	10.0 10	2.2 2.2	0.7642276 0.764227676.4%
ClustalFile ClustalFile	6.0 6	6.1666665 6.17	0.8013245 0.801324580.1%
AlignFile AlignFile	25.0 25	1.68 1.68	0.8015873 0.801587380.2%
PhylipFile PhylipFile	7.0 7	3.7142856 3.71	0.8108108 0.810810881.1%
SequenceAnnotationReport SequenceAnnotationReport	13.0 13	6.5384617 6.54	0.8110749 0.811074981.1%
PfamFile PfamFile	6.0 6	4.1666665 4.17	0.82828283 0.8282828382.8%
JSONFile JSONFile	25.0 25	4.4 4.4	0.8329718 0.832971883.3%
TCoffeeScoreFile.Header TCoffeeScoreFile.Header	2.0 2	1.5 1.5	0.8333333 0.833333383.3%
JalviewFileChooser.RecentlyOpened JalviewFileChooser.RecentlyOpened	3.0 3	2.0 2	0.85294116 0.8529411685.3%
MSFfile MSFfile	6.0 6	8.166667 8.17	0.8967136 0.896713689.7%
BackupFilesPresetEntry BackupFilesPresetEntry	6.0 6	2.3333333 2.33	0.9117647 0.911764791.2%
PileUpfile PileUpfile	4.0 4	5.0 5	0.9222222 0.922222292.2%
BackupFilenameFilter BackupFilenameFilter	2.0 2	2.0 2	0.9285714 0.928571492.9%
ScoreMatrixFile ScoreMatrixFile	9.0 9	5.7777777 5.78	0.959596 0.95959696%
FileFormats FileFormats	11.0 11	1.6363636 1.64	0.98 0.9898%
AnnotationFile.ViewDef AnnotationFile.ViewDef	1.0 1	1.0 1	1.0 1.0100%
FileFormatException FileFormatException	1.0 1	1.0 1	1.0 1.0100%
TCoffeeScoreFile.Block TCoffeeScoreFile.Block	3.0 3	1.0 1	1.0 1.0100%