Project	Packages	Average Method Complexity	TOTAL Coverage
Clover database Tue Nov 4 2025 11:21:43 GMT Clover database Tue Nov 4 2025 11:21:43 GMT	114.0 114	2.8285468 2.83	0.39551926 0.3955192639.6%

Package	Files	Average Method Complexity	TOTAL Coverage
darrylbu.util darrylbu.util	1.0 1	2.7222223 2.72	0.0 0.00%
ext.edu.ucsf.rbvi.strucviz2 ext.edu.ucsf.rbvi.strucviz2	9.0 9	2.56383 2.56	0.0 0.00%
ext.edu.ucsf.rbvi.strucviz2.port ext.edu.ucsf.rbvi.strucviz2.port	1.0 1	3.0769231 3.08	0.0 0.00%
jalview.analytics jalview.analytics	1.0 1	2.8064516 2.81	0.0 0.00%
jalview.api.structures jalview.api.structures	1.0 1	1.0 1	0.0 0.00%
jalview.appletgui jalview.appletgui	42.0 42	3.3568282 3.36	0.0 0.00%
jalview.bin.groovy jalview.bin.groovy	2.0 2	1.75 1.75	0.0 0.00%
jalview.exceptions jalview.exceptions	1.0 1	1.0 1	0.0 0.00%
jalview.ext.paradise jalview.ext.paradise	1.0 1	1.2 1.2	0.0 0.00%
jalview.ext.varna jalview.ext.varna	3.0 3	7.3333335 7.33	0.0 0.00%
jalview.fts.service.alphafold jalview.fts.service.alphafold	1.0 1	2.8333333 2.83	0.0 0.00%
jalview.fts.service.uniprot jalview.fts.service.uniprot	2.0 2	2.682927 2.68	0.0 0.00%
jalview.httpserver jalview.httpserver	2.0 2	1.875 1.88	0.0 0.00%
jalview.io.exceptions jalview.io.exceptions	1.0 1	1.0 1	0.0 0.00%
jalview.io.packed jalview.io.packed	4.0 4	2.6785715 2.68	0.0 0.00%
jalview.io.vamsas jalview.io.vamsas	9.0 9	3.4782608 3.48	0.0 0.00%
jalview.javascript jalview.javascript	6.0 6	3.92 3.92	0.0 0.00%
jalview.javascript.json jalview.javascript.json	1.0 1	1.0 1	0.0 0.00%
jalview.javascript.web jalview.javascript.web	3.0 3	1.75 1.75	0.0 0.00%
jalview.rest jalview.rest	1.0 1	1.5 1.5	0.0 0.00%
jalview.util.dialogrunner jalview.util.dialogrunner	2.0 2	1.0 1	0.0 0.00%
jalview.ws.io.mime jalview.ws.io.mime	3.0 3	1.2222222 1.22	0.0 0.00%
jalview.ws.jws2.dm jalview.ws.jws2.dm	5.0 5	1.5952381 1.6	0.0 0.00%
jalview.ws.params jalview.ws.params	9.0 9	1.0 1	0.0 0.00%
jalview.ws.params.simple jalview.ws.params.simple	5.0 5	1.4347826 1.43	0.0 0.00%
org.stackoverflowusers.file org.stackoverflowusers.file	1.0 1	1.8333334 1.83	0.0 0.00%
uk.ac.ebi.picr.model uk.ac.ebi.picr.model	4.0 4	1.62 1.62	0.0 0.00%
uk.ac.ebi.www uk.ac.ebi.www	7.0 7	1.8395061 1.84	0.0 0.00%
uk.ac.ebi.www.picr.AccessionMappingService uk.ac.ebi.www.picr.AccessionMappingService	4.0 4	2.2608695 2.26	0.0 0.00%
vamsas.objects.simple vamsas.objects.simple	22.0 22	1.6068965 1.61	0.0 0.00%
jalview.xml.binding.sifts jalview.xml.binding.sifts	4.0 4	1.0746269 1.07	0.0032467532 0.00324675320.3%
jalview.ws.gui jalview.ws.gui	1.0 1	3.6 3.6	0.028169014 0.0281690142.8%
ext.vamsas ext.vamsas	18.0 18	2.1666667 2.17	0.03849115 0.038491153.8%
jalview.ws.jws1 jalview.ws.jws1	11.0 11	3.456 3.46	0.04825901 0.048259014.8%
jalview.xml.binding.uniprot jalview.xml.binding.uniprot	37.0 37	1.2043269 1.2	0.07514945 0.075149457.5%
org.json org.json	20.0 20	3.975352 3.98	0.07769986 0.077699867.8%
org.json.simple org.json.simple	6.0 6	2.5873015 2.59	0.10193322 0.1019332210.2%
com.stevesoft.pat.wrap com.stevesoft.pat.wrap	6.0 6	1.4166666 1.42	0.105882354 0.10588235410.6%
jalview.ws jalview.ws	10.0 10	3.8235295 3.82	0.116883114 0.11688311411.7%
jalview.ws.sifts jalview.ws.sifts	4.0 4	2.2727273 2.27	0.1289833 0.128983312.9%
junit.extensions junit.extensions	2.0 2	2.3 2.3	0.15120275 0.1512027515.1%
com.stevesoft.pat com.stevesoft.pat	77.0 77	5.1231027 5.12	0.15734208 0.1573420815.7%
jalview.xml.binding.embl jalview.xml.binding.embl	5.0 5	1.1132076 1.11	0.17994858 0.1799485818%
jalview.ws.jws2 jalview.ws.jws2	17.0 17	3.4774776 3.48	0.18434164 0.1843416418.4%
jalview.ext.ensembl jalview.ext.ensembl	18.0 18	2.0677083 2.07	0.19192635 0.1919263519.2%
mc_view mc_view	10.0 10	4.016 4.02	0.19545859 0.1954585919.5%
jalview.ws.seqfetcher jalview.ws.seqfetcher	3.0 3	2.7083333 2.71	0.21755725 0.2175572521.8%
jalview.jbgui jalview.jbgui	24.0 24	1.2603352 1.26	0.26438916 0.2643891626.4%
jalview.gui jalview.gui	99.0 99	2.8947732 2.89	0.30870077 0.3087007730.9%
jalview.ws.ebi jalview.ws.ebi	1.0 1	3.3 3.3	0.31858408 0.3185840831.9%
jalview.ext.rbvi.chimera jalview.ext.rbvi.chimera	7.0 7	1.8414634 1.84	0.32920355 0.3292035532.9%
jalview.ws.rest.params jalview.ws.rest.params	7.0 7	2.2444444 2.24	0.35805628 0.3580562835.8%
jalview.ws.rest jalview.ws.rest	9.0 9	2.9241378 2.92	0.3653603 0.365360336.5%
jalview.ws.dbsources jalview.ws.dbsources	18.0 18	2.5151515 2.52	0.4149755 0.414975541.5%
jalview.bin jalview.bin	18.0 18	4.0724235 4.07	0.41568998 0.4156899841.6%
jalview.math jalview.math	7.0 7	3.0204082 3.02	0.42368641 0.4236864142.4%
jalview.controller jalview.controller	3.0 3	4.9333334 4.93	0.42711863 0.4271186342.7%
jalview.ext.pymol jalview.ext.pymol	2.0 2	2.3333333 2.33	0.4471831 0.447183144.7%
org.jibble.epsgraphics org.jibble.epsgraphics	3.0 3	1.6944444 1.69	0.4610028 0.461002846.1%
org.json.simple.parser org.json.simple.parser	6.0 6	4.5208335 4.52	0.46751592 0.4675159246.8%
jalview.ext.android jalview.ext.android	4.0 4	2.265625 2.27	0.47048903 0.4704890347%
jalview.api.analysis jalview.api.analysis	3.0 3	1.0 1	0.5 0.550%
jalview.ws.uimodel jalview.ws.uimodel	1.0 1	1.0 1	0.5121951 0.512195151.2%
jalview.fts.service.threedbeacons jalview.fts.service.threedbeacons	3.0 3	2.2105262 2.21	0.5145631 0.514563151.5%
jalview.log jalview.log	4.0 4	1.7446809 1.74	0.5235849 0.523584952.4%
jalview.fts.service.pdb jalview.fts.service.pdb	2.0 2	3.1 3.1	0.54521275 0.5452127554.5%
jalview.ext.htsjdk jalview.ext.htsjdk	2.0 2	2.375 2.38	0.545977 0.54597754.6%
jalview.commands jalview.commands	9.0 9	4.4492755 4.45	0.5596745 0.559674556%
jalview.fts.core jalview.fts.core	6.0 6	2.0496895 2.05	0.56125355 0.5612535556.1%
jalview.io jalview.io	59.0 59	4.0701756 4.07	0.57220465 0.5722046557.2%
jalview.structure jalview.structure	20.0 20	2.7635136 2.76	0.5816815 0.581681558.2%
jalview.datamodel.annotations jalview.datamodel.annotations	3.0 3	1.1904762 1.19	0.5882353 0.588235358.8%
jalview.util jalview.util	44.0 44	3.5027523 3.5	0.59479326 0.5947932659.5%
jalview.renderer.seqfeatures jalview.renderer.seqfeatures	2.0 2	7.0 7	0.59810126 0.5981012659.8%
jalview.workers jalview.workers	12.0 12	2.8 2.8	0.6136364 0.613636461.4%
jalview.ext.jmol jalview.ext.jmol	4.0 4	3.0086956 3.01	0.613694 0.61369461.4%
jalview.renderer jalview.renderer	11.0 11	6.3061223 6.31	0.61981183 0.6198118362%
jalview.structures.models jalview.structures.models	2.0 2	3.0588236 3.06	0.625 0.62562.5%
jalview.bin.argparser jalview.bin.argparser	9.0 9	3.0786026 3.08	0.6425909 0.642590964.3%
jalview.analysis jalview.analysis	34.0 34	4.5956044 4.6	0.6771432 0.677143267.7%
jalview.io.vcf jalview.io.vcf	1.0 1	4.3714285 4.37	0.6992 0.699269.9%
jalview.io.cache jalview.io.cache	2.0 2	2.1666667 2.17	0.70742357 0.7074235770.7%
jalview.gui.structurechooser jalview.gui.structurechooser	4.0 4	3.4363637 3.44	0.72129035 0.7212903572.1%
jalview.datamodel jalview.datamodel	87.0 87	2.827381 2.83	0.73162425 0.7316242573.2%
jalview.json.binding.biojs jalview.json.binding.biojs	2.0 2	1.125 1.12	0.73333335 0.7333333573.3%
jalview.project jalview.project	1.0 1	6.991803 6.99	0.7457921 0.745792174.6%
jalview.json.binding.biojson.v1 jalview.json.binding.biojson.v1	8.0 8	1.2300885 1.23	0.7526502 0.752650275.3%
jalview.viewmodel jalview.viewmodel	9.0 9	1.8529412 1.85	0.7587169 0.758716975.9%
jalview.analysis.scoremodels jalview.analysis.scoremodels	9.0 9	2.5384614 2.54	0.78272253 0.7827225378.3%
jalview.ws.datamodel.alphafold jalview.ws.datamodel.alphafold	2.0 2	2.725 2.72	0.78409094 0.7840909478.4%
jalview.xml.binding.jalview jalview.xml.binding.jalview	27.0 27	1.1166667 1.12	0.7844156 0.784415678.4%
jalview.ws.jws2.jabaws2 jalview.ws.jws2.jabaws2	2.0 2	2.3125 2.31	0.8130841 0.813084181.3%
jalview.viewmodel.seqfeatures jalview.viewmodel.seqfeatures	4.0 4	2.9041095 2.9	0.8307906 0.830790683.1%
jalview.ext.so jalview.ext.so	1.0 1	2.6111112 2.61	0.85 0.8585%
jalview.ws.utils jalview.ws.utils	1.0 1	5.0 5	0.85714287 0.8571428785.7%
jalview.urls jalview.urls	7.0 7	1.9101124 1.91	0.866782 0.86678286.7%
jalview.schemes jalview.schemes	37.0 37	2.1713288 2.17	0.88010824 0.8801082488%
jalview.io.gff jalview.io.gff	11.0 11	4.1538463 4.15	0.8828383 0.882838388.3%
jalview.util.imagemaker jalview.util.imagemaker	1.0 1	1.2727273 1.27	0.9354839 0.935483993.5%
jalview.datamodel.features jalview.datamodel.features	13.0 13	2.8039215 2.8	0.9420142 0.942014294.2%
jalview.util.matcher jalview.util.matcher	3.0 3	2.8947368 2.89	0.96666664 0.9666666496.7%
jalview.urls.applet jalview.urls.applet	1.0 1	1.0 1	1.0 1.0100%
jalview.urls.desktop jalview.urls.desktop	1.0 1	1.0 1	1.0 1.0100%
jalview.viewmodel.annotationfilter jalview.viewmodel.annotationfilter	1.0 1	1.0 1	1.0 1.0100%
jalview.viewmodel.styles jalview.viewmodel.styles	1.0 1	1.020202 1.02	1.0 1.0100%