Package	Files	Average Method Complexity	TOTAL Coverage
jalview.datamodel jalview.datamodel	87.0 87	2.8683054 2.87	0.7255109 0.725510972.6%

Class	Methods	Average Method Complexity	TOTAL Coverage
BinarySequence BinarySequence	8.0 8	2.75 2.75	0.0 0.00%
BinarySequence.InvalidSequenceTypeException BinarySequence.InvalidSequenceTypeException	1.0 1	1.0 1	0.0 0.00%
CigarCigar CigarCigar	2.0 2	2.5 2.5	0.0 0.00%
ContactListI ContactListI	1.0 1	1.0 1	0.0 0.00%
ContactListProviderI ContactListProviderI	2.0 2	1.0 1	0.0 0.00%
Provenance Provenance	3.0 3	1.3333334 1.33	0.0 0.00%
ProvenanceEntry ProvenanceEntry	5.0 5	1.0 1	0.0 0.00%
RnaViewerModel RnaViewerModel	1.0 1	1.0 1	0.0 0.00%
SFSortByBegin SFSortByBegin	1.0 1	1.0 1	0.0 0.00%
SecondaryStructureAnnotation SecondaryStructureAnnotation	3.0 3	1.3333334 1.33	0.0 0.00%
AlignmentOrder AlignmentOrder	15.0 15	2.2666667 2.27	0.042105265 0.0421052654.2%
Point Point	4.0 4	2.5 2.5	0.1 0.110%
ContactMatrixI ContactMatrixI	15.0 15	2.3333333 2.33	0.30097088 0.3009708830.1%
SequenceNode SequenceNode	7.0 7	1.7142857 1.71	0.30769232 0.3076923230.8%
ContactMatrix ContactMatrix	15.0 15	2.6 2.6	0.31617647 0.3161764731.6%
FeatureProperties FeatureProperties	2.0 2	2.5 2.5	0.33333334 0.3333333433.3%
AlignmentView AlignmentView	25.0 25	6.88 6.88	0.346211 0.34621134.6%
AlignmentView.ScGroup AlignmentView.ScGroup	4.0 4	1.5 1.5	0.42105263 0.4210526342.1%
SequencePoint SequencePoint	5.0 5	1.0 1	0.45454547 0.4545454745.5%
CigarArray CigarArray	12.0 12	4.1666665 4.17	0.48469388 0.4846938848.5%
SeqDistanceContactMatrix SeqDistanceContactMatrix	14.0 14	1.1428572 1.14	0.5 0.550%
SequenceGroup SequenceGroup	101.0 101	2.1188118 2.12	0.54634833 0.5463483354.6%
SecondaryStructureCount SecondaryStructureCount	22.0 22	3.1818182 3.18	0.546875 0.54687554.7%
SearchResults.Match SearchResults.Match	10.0 10	2.1 2.1	0.56060606 0.5606060656.1%
BinaryNode BinaryNode	31.0 31	1.548387 1.55	0.56666666 0.5666666656.7%
GroupSet GroupSet	17.0 17	1.8235294 1.82	0.57758623 0.5775862357.8%
ColumnSelection.IntList ColumnSelection.IntList	18.0 18	1.8333334 1.83	0.58878505 0.5887850558.9%
SequenceCursor SequenceCursor	5.0 5	1.6 1.6	0.6 0.660%
AlignExportSettingsAdapter AlignExportSettingsAdapter	11.0 11	1.0 1	0.61538464 0.6153846461.5%
AlignmentExportData AlignmentExportData	7.0 7	1.0 1	0.625 0.62562.5%
StructureViewerModel.StructureData StructureViewerModel.StructureData	7.0 7	1.0 1	0.625 0.62562.5%
Alignment Alignment	98.0 98	3.2448978 3.24	0.6443203 0.644320364.4%
ContactRange ContactRange	15.0 15	1.0 1	0.6666667 0.666666766.7%
Range Range	6.0 6	1.1666666 1.17	0.6666667 0.666666766.7%
AlignedCodon AlignedCodon	5.0 5	2.2 2.2	0.6969697 0.696969769.7%
SeqCigar SeqCigar	19.0 19	4.7894735 4.79	0.7042683 0.704268370.4%
Annotation Annotation	6.0 6	3.0 3	0.71428573 0.7142857371.4%
Mapping Mapping	23.0 23	3.2608695 3.26	0.7316017 0.731601773.2%
PDBEntry.Type PDBEntry.Type	5.0 5	1.2 1.2	0.75 0.7575%
GraphLine GraphLine	3.0 3	3.3333333 3.33	0.7586207 0.758620775.9%
FloatContactMatrix FloatContactMatrix	14.0 14	1.4285715 1.43	0.76 0.7676%
ColumnSelection ColumnSelection	24.0 24	4.3333335 4.33	0.7697595 0.769759577%
AlignmentAnnotation AlignmentAnnotation	56.0 56	5.321429 5.32	0.7790262 0.779026277.9%
AllColsCollection AllColsCollection	4.0 4	1.0 1	0.8 0.880%
StructureViewerModel StructureViewerModel	21.0 21	1.0 1	0.8 0.880%
VisibleColsCollection VisibleColsCollection	4.0 4	1.0 1	0.8 0.880%
CigarBase CigarBase	13.0 13	7.6153846 7.62	0.820059 0.82005982%
ContactMapHolder ContactMapHolder	5.0 5	3.2 3.2	0.8269231 0.826923182.7%
ContactListImpl ContactListImpl	8.0 8	2.125 2.12	0.8305085 0.830508583.1%
VisibleRowsCollection VisibleRowsCollection	5.0 5	1.0 1	0.8333333 0.833333383.3%
PDBEntry PDBEntry	43.0 43	2.2325583 2.23	0.8347826 0.834782683.5%
AllRowsCollection AllRowsCollection	5.0 5	1.0 1	0.84615386 0.8461538684.6%
Profile Profile	17.0 17	1.3529412 1.35	0.86885244 0.8688524486.9%
AlignedCodonFrame.SequenceToSequenceMapping AlignedCodonFrame.SequenceToSequenceMapping	10.0 10	3.5 3.5	0.875 0.87587.5%
SequenceFeature SequenceFeature	36.0 36	2.6388888 2.64	0.8776978 0.877697887.8%
SearchResults SearchResults	14.0 14	3.0714285 3.07	0.88461536 0.8846153688.5%
AlignedCodonFrame AlignedCodonFrame	29.0 29	3.3448277 3.34	0.90784985 0.9078498590.8%
DBRefSource DBRefSource	3.0 3	2.6666667 2.67	0.9166667 0.916666791.7%
Profiles Profiles	4.0 4	2.0 2	0.9166667 0.916666791.7%
RangeIterator RangeIterator	6.0 6	2.0 2	0.9189189 0.918918991.9%
Mapping.AlignedCodonIterator Mapping.AlignedCodonIterator	8.0 8	3.0 3	0.92045456 0.9204545692%
AlignmentAnnotation.AnnotCharSequence AlignmentAnnotation.AnnotCharSequence	6.0 6	2.8333333 2.83	0.9259259 0.925925992.6%
GeneLocus GeneLocus	7.0 7	1.1428572 1.14	0.9375 0.937593.8%
MappedFeatures MappedFeatures	5.0 5	6.0 6	0.94736844 0.9473684494.7%
DBRefEntry DBRefEntry	24.0 24	2.9166667 2.92	0.9520548 0.952054895.2%
Sequence Sequence	90.0 90	3.8666666 3.87	0.95242214 0.9524221495.2%
RangeElementsIterator RangeElementsIterator	5.0 5	2.0 2	0.96875 0.9687596.9%
HiddenSequences HiddenSequences	15.0 15	3.9333334 3.93	0.977169 0.97716997.7%
HiddenColumns HiddenColumns	33.0 33	2.969697 2.97	0.9976415 0.997641599.8%
AllColsIterator AllColsIterator	4.0 4	1.25 1.25	1.0 1.0100%
AllRowsIterator AllRowsIterator	4.0 4	1.25 1.25	1.0 1.0100%
GroupSetHolder GroupSetHolder	2.0 2	1.0 1	1.0 1.0100%
HiddenColumnsCursor HiddenColumnsCursor	8.0 8	2.75 2.75	1.0 1.0100%
HiddenCursorPosition HiddenCursorPosition	3.0 3	1.0 1	1.0 1.0100%
MappingType MappingType	7.0 7	1.0 1	1.0 1.0100%
ResidueCount ResidueCount	23.0 23	3.3913043 3.39	1.0 1.0100%
ResidueCount.SymbolCounts ResidueCount.SymbolCounts	1.0 1	1.0 1	1.0 1.0100%
SFSortByEnd SFSortByEnd	1.0 1	1.0 1	1.0 1.0100%
SecondaryStructureCount.SymbolCounts SecondaryStructureCount.SymbolCounts	1.0 1	1.0 1	1.0 1.0100%
Sequence.DBModList Sequence.DBModList	1.0 1	1.0 1	1.0 1.0100%
SequenceDummy SequenceDummy	4.0 4	1.0 1	1.0 1.0100%
StartRegionIterator StartRegionIterator	4.0 4	2.5 2.5	1.0 1.0100%
VisibleContigsIterator VisibleContigsIterator	4.0 4	2.75 2.75	1.0 1.0100%
VisibleRowsIterator VisibleRowsIterator	4.0 4	2.75 2.75	1.0 1.0100%