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  1. IGB
  2. IGBF-2537

Enable Quickload to specify the 2bit file for a genome

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    • Story Points:
      3
    • Sprint:
      Fall 1: 14 Sep - 25 Sep, Fall 2: 28 Sep - 9 Oct, Fall 3: Oct 12 - Oct 23, Fall 6 Nov 30 - Dec 11

      Description

      Currently, IGB assumes that the genome sequence for a genome version resides physically on the same server as the Quickload metadata files and that the genome version file is named for the genome.

      (For details see, the wiki documentation on IGB Quickload.)

      Modify this so that a user can specific the genome file using the "file" tag.

      e.g.,

      <file name="foo.2bit" reference="true"/>
      

      and

      <file name="https://example.com/foo.2bit" reference="True"/>
      

      and

      <file name="http://example.com/foo.2bit" reference="True"/>
      

      For example 2bit files corresponding to various genomes, see:

      This location contains multiple subdirectories for different genome versions. For example,

      contains a file named mm10.2bit (http://hgdownload.soe.ucsc.edu/goldenPath/mm10/bigZips/mm10.2bit) which contains the same data shown for IGB genome version M_musculus_Dec_2011.

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            • Assignee:
              noor91zahara Noor Zahara (Inactive)
              Reporter:
              ann.loraine Ann Loraine
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                Updated:
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