Details
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Type:
Bug
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Status: Open
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Priority:
Trivial
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Resolution: Unresolved
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Affects Version/s: 2.11.5.0
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Fix Version/s: 2.12.0
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Component/s: web service bug
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Labels:None
Description
Noticed the output below in the log for a non-existent PFAM retrieval. The dialog reports 'Couldn't retrieve PF0200008' - might be nicer to detect when we get a 'does not exist' response.
INFO - Error retrieving PF020008 from PFAM (Full)
jalview.io.FileFormatException: Formats currently supported are
Fasta, PFAM, Stockholm, PIR, BLC, AMSA, HTML, RNAML, JSON, PileUp, MSF, Clustal, PHYLIP, GenBank Flatfile, ENA Flatfile, GFF or Jalview features, PDB, mmCIF, and Jalview.
at jalview.io.AppletFormatAdapter.readFile(AppletFormatAdapter.java:252) ~[jalview.jar:2.11.5.0-test]
at jalview.io.FormatAdapter.readFile(FormatAdapter.java:236) ~[jalview.jar:2.11.5.0-test]
at jalview.io.AppletFormatAdapter.readFile(AppletFormatAdapter.java:161) ~[jalview.jar:2.11.5.0-test]
at jalview.io.AppletFormatAdapter.readFile(AppletFormatAdapter.java:154) ~[jalview.jar:2.11.5.0-test]
at jalview.io.FormatAdapter.readFile(FormatAdapter.java:245) ~[jalview.jar:2.11.5.0-test]
at jalview.ws.dbsources.Xfam.getSequenceRecords(Xfam.java:70) ~[jalview.jar:2.11.5.0-test]
at jalview.gui.SequenceFetcher.fetchSingleAccession(SequenceFetcher.java:841) [jalview.jar:2.11.5.0-test]
at jalview.gui.SequenceFetcher.run(SequenceFetcher.java:623) [jalview.jar:2.11.5.0-test]
at java.lang.Thread.run(Thread.java:750) [?:1.8.0_372]
INFO - Error retrieving PF020008 from PFAM (Full)
jalview.io.FileFormatException: Formats currently supported are
Fasta, PFAM, Stockholm, PIR, BLC, AMSA, HTML, RNAML, JSON, PileUp, MSF, Clustal, PHYLIP, GenBank Flatfile, ENA Flatfile, GFF or Jalview features, PDB, mmCIF, and Jalview.
at jalview.io.AppletFormatAdapter.readFile(AppletFormatAdapter.java:252) ~[jalview.jar:2.11.5.0-test]
at jalview.io.FormatAdapter.readFile(FormatAdapter.java:236) ~[jalview.jar:2.11.5.0-test]
at jalview.io.AppletFormatAdapter.readFile(AppletFormatAdapter.java:161) ~[jalview.jar:2.11.5.0-test]
at jalview.io.AppletFormatAdapter.readFile(AppletFormatAdapter.java:154) ~[jalview.jar:2.11.5.0-test]
at jalview.io.FormatAdapter.readFile(FormatAdapter.java:245) ~[jalview.jar:2.11.5.0-test]
at jalview.ws.dbsources.Xfam.getSequenceRecords(Xfam.java:70) ~[jalview.jar:2.11.5.0-test]
at jalview.gui.SequenceFetcher.fetchSingleAccession(SequenceFetcher.java:841) [jalview.jar:2.11.5.0-test]
at jalview.gui.SequenceFetcher.run(SequenceFetcher.java:623) [jalview.jar:2.11.5.0-test]
at java.lang.Thread.run(Thread.java:750) [?:1.8.0_372]