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  1. Jalview
  2. JAL-4562

CLI ignores additional annotation files specified via --annotations

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      Description

      Make 2 dummy annotation files:
      (base) jprocter@M-000764 examples % cat plantfdx*.ann
      JALVIEW_ANNOTATION
      # Created: Mon Dec 11 10:43:00 GMT 2006

      NO_GRAPH Iron Sulphur Contacts ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||Fe|||||Fe|||Fe||||||||||||||||||||||||||||||Fe||||||||||||||||||||||
      COLOUR Conservation 5d1500
      COLOUR Quality 560c00
      JALVIEW_ANNOTATION
      # Created: Mon Dec 11 10:43:00 GMT 2006

      NO_GRAPH Secondary Structure ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||1,E|E|E|||||2,E|E|E|E|E|E|E|E|||||3,H|H|H|H|H|||||||||||Fe|||||Fe|||Fe||4,E|E||||||5,E|E|||||||||||6,H|H|H|H||7,E||||Fe|||E|E||||9,E|E|E|E|E||||||||||

      then try to import them via:
      jalview --trace --headless --open plantfdx.fa --annotations plantfdx1.ann --annotations plantfdx2.ann

      Would expect to see both annotations (and at least a log message to confirm annotations are imported!) - but only the first one appears.

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            Assignee:
            soares Ben Soares
            Reporter:
            jsutges Javier Sanchez Utges
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