Unit test failures on develop

Some new test failures seem to have crept in:

AAStructureBindingModelTest

  • setUp calls StructureSelectionManager.setMapping(data, DataSourceType.PASTE) but PASTE is getting converted to FILE

JmolParserTest ‘expected localstruct but was localstruct.pdb’

JmolViewerTest NPEs in Jmol thread, not sure why

SeqPanelTest (failing test added for JAL-2563)

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Mungo Carstairs
Jalview Computational Scientist

The Barton Group
Division of Computational Biology

School of Life Sciences

University of Dundee, Dundee, Scotland, UK

www.jalview.org

www.compbio.dundee.ac.uk
g.m.carstairs@dundee.ac.uk

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New failing Network tests are:
jalview.ext.jmol.JmolViewerTest.testStructureLoadingViaURL
jalview.io.FileLoaderTest.testDownloadStructuresIfInputFromURL

Unknown state failing tests:
jalview.ws.sifts.SiftsClientTest.getSIFTsFileTest,getSiftsStructureMappingTest

Expected fails

jalview.ext.paradise.TestAnnotate3D.test1GIDbyId,testIdVsContent2GIS,
testPDBfileVsRNAML
jalview.ws.PDBSequenceFetcherTest.testRnaSeqRetrieve
jalview.ws.jabaws.RNAStructExportImport.testRNAStructExport

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On 30/05/2017 10:24, Mungo Carstairs (Staff) wrote:

Some new test failures seem to have crept in:

AAStructureBindingModelTest

- setUp calls StructureSelectionManager.setMapping(data,
DataSourceType.PASTE) but PASTE is getting converted to FILE

JmolParserTest 'expected localstruct but was localstruct.pdb'

JmolViewerTest NPEs in Jmol thread, not sure why

SeqPanelTest (failing test added for JAL-2563)

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*Mungo Carstairs*
Jalview Computational Scientist

The Barton Group
Division of Computational Biology

School of Life Sciences

University of Dundee, Dundee, Scotland, UK

www.jalview.org <http://www.jalview.org>

www.compbio.dundee.ac.uk <http://www.compbio.dundee.ac.uk>
g.m.carstairs@dundee.ac.uk <mailto:g.m.carstairs@dundee.ac.uk>

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Network test status update:

New failing Network tests are:
jalview.ext.jmol.JmolViewerTest.testStructureLoadingViaURL
jalview.io.FileLoaderTest.testDownloadStructuresIfInputFromURL

Thanks for fixing these, Charles.

Unknown state failing tests:
jalview.ws.sifts.SiftsClientTest.getSIFTsFileTest,getSiftsStructureMappingTest

This still fails - looks like the 'use SIFTS' beforeTest config is not
taking, at least on my machine:
jalview.ws.sifts.SiftsClientTest.getSiftsStructureMappingTest(SiftsClientTest.java:397)

which is:
Assert.assertTrue(SiftsSettings.isMapWithSifts());

HTH
Jim.
PS. testJvProps doesn't seem to set SIFTS at all.

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On 30/05/2017 12:31, James Procter wrote: