Details
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Type: New Feature
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Status: Closed (View Workflow)
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Priority: Major
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Resolution: Done
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Affects Version/s: None
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Fix Version/s: 9.1.6 Major Release
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Labels:None
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Story Points:3
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Epic Link:
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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.
[~aloraine] - Could you tell me where I could read more about it in IGB wiki or steps to reproduce the above? I am not totally clear about this yet.