Class jalview.io.FeaturesFileTest
|
100%
successful |
Tests
| Test | Duration | Result |
|---|---|---|
| readGff3File | 0.010s | passed |
| simpleGff3FileClass | 0.001s | passed |
| simpleGff3FileLoader | 0.033s | passed |
| simpleGff3RelaxedIdMatching | 0.001s | passed |
| testOutputFeatureFilters | 0.001s | passed |
| testParse | 0.033s | passed |
| testParseFilters | 0s | passed |
| testParse_jalviewFeaturesOnly | 0.010s | passed |
| testParse_mixedJalviewGff | 0.012s | passed |
| testParse_pureGff3 | 0.012s | passed |
| testPrintGffFormat | 0.012s | passed |
| testPrintGffFormat_withFilters | 0.011s | passed |
| testPrintJalviewFormat | 0.021s | passed |
| testPrintJalviewFormat_withFilters | 0.015s | passed |
Standard output
Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@3f515336 Attempting to connect with ClustalOWS... File format identified as Features Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@3fbb50a3 Attempting to connect with TcoffeeWS... Reading file: examples/uniref50.fa File format identified as Fasta Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@5a02eec1 Attempting to connect with ProbconsWS... Reading file: examples/uniref50.fa File format identified as Fasta Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@2ac0925 Reading file: examples/uniref50.fa File format identified as Fasta Attempting to connect with MSAprobsWS... Reading file: examples/uniref50.fa File format identified as Fasta Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@58494c11 Reading file: examples/uniref50.fa File format identified as Fasta Attempting to connect with GLprobsWS... Reading file: examples/uniref50.fa File format identified as Fasta Reading file: examples/uniref50.fa File format identified as Fasta Discovered service: http://www.compbio.dundee.ac.uk/jabaws jalview.ws.jws2.jabaws2.Jws2Instance@4b4cda51 Attempting to connect with AAConWS... Reading file: examples/uniref50.fa File format identified as Fasta
Standard error
Aug 13, 2020 12:06:26 PM compbio.ws.client.Jws2Client connect INFO: Connected successfully! Ignoring unknown pragma: ##source-version exonerate:protein2genome:local 2.2.0 Ignoring unknown pragma: ##date 2015-01-16 Ignoring unknown pragma: ##type DNA SO term cds invalid Ignoring unknown pragma: ##source-version exonerate:protein2genome:local 2.2.0 Ignoring unknown pragma: ##date 2015-01-16 Ignoring unknown pragma: ##type DNA Ignoring unknown pragma: ##source-version exonerate:protein2genome:local 2.2.0 Ignoring unknown pragma: ##date 2015-01-16 Ignoring unknown pragma: ##type DNA Aug 13, 2020 12:06:26 PM compbio.ws.client.Jws2Client connect INFO: Connected successfully! Ignoring unknown pragma: ##source-version exonerate:protein2genome:local 2.2.0 Ignoring unknown pragma: ##date 2015-01-16 Ignoring unknown pragma: ##type DNA Aug 13, 2020 12:06:26 PM compbio.ws.client.Jws2Client connect INFO: Connected successfully! Aug 13, 2020 12:06:26 PM compbio.ws.client.Jws2Client connect INFO: Connected successfully! SO term METAL invalid SO term Pfam invalid Aug 13, 2020 12:06:26 PM compbio.ws.client.Jws2Client connect INFO: Connected successfully! Aug 13, 2020 12:06:26 PM compbio.ws.client.Jws2Client connect INFO: Connected successfully!