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  1. Jalview
  2. JAL-4449

Ensembl sequence retrieval broken in 2.11.4.0rc2

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      noticed whilst reviewing JAL-3018 and JAL-3982 - Ensembl fetch completely fails for Jalview Test/2.11.4.0rc2.

      Errors are
      java.lang.IllegalStateException: connect in progress
      at java.base/sun.net.www.protocol.http.HttpURLConnection.setRequestMethod(HttpURLConnection.java:568)
      at java.base/sun.net.www.protocol.https.HttpsURLConnectionImpl.setRequestMethod(HttpsURLConnectionImpl.java:370)
      at jalview.ext.ensembl.EnsemblRestClient.tryConnection(EnsemblRestClient.java:354)
      at jalview.ext.ensembl.EnsemblRestClient.getJSON(EnsemblRestClient.java:299)
      at jalview.ext.ensembl.EnsemblRestClient.getJSON(EnsemblRestClient.java:514)
      at jalview.ext.ensembl.EnsemblLookup.getResult(EnsemblLookup.java:221)
      at jalview.ext.ensembl.EnsemblLookup.getGeneId(EnsemblLookup.java:142)
      at jalview.ext.ensembl.EnsemblLookup.getGeneId(EnsemblLookup.java:129)
      at jalview.ext.ensembl.EnsemblGene.getGeneIds(EnsemblGene.java:253)
      at jalview.ext.ensembl.EnsemblGene.getSequenceRecords(EnsemblGene.java:142)
      at jalview.gui.SequenceFetcher.fetchMultipleAccessions(SequenceFetcher.java:746)
      at jalview.gui.SequenceFetcher.run(SequenceFetcher.java:594)
      at java.base/java.lang.Thread.run(Thread.java:829)



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            Assignee:
            soares Ben Soares
            Reporter:
            jprocter James Procter
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              Created:
              Updated:
              Resolved: