Changes between Initial Version and Version 1 of Ticket #1051


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Timestamp:
May 16, 2018, 1:23:42 PM (6 years ago)
Author:
Nicklas Nordborg
Comment:

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  • Ticket #1051

    • Property Summary The Release exporter plug-in should create a script that always copy some data files → The Release exporter plug-in should assist when creating zip files with expression data

  • Ticket #1051 – Description

    initial v1  
    11Some of the data files that belong to Cufflinks and !StringTie raw bioassays need to be packaged as zip files for releasing to external partners. The !ReleaseArchive is not suitable since it contains other files and it is difficult to select the exact files that are needed:
    22
    3  * Cufflinks (should be copied to ./cufflinks/*)
     3 * Cufflinks
    44   - genes.fpkm_tracking
    55   - isoforms.fpkm_tracking
    66   - skipped.gtf
    77   - transcripts.gtf
    8  * !StringTie (should be copied to ./stringtie/*)
     8 * !StringTie
    99   - e2t.ctab
    1010   - e_data.ctab
    … …  
    1515   - transcript.gtf
    1616   - transcript_covered.gtf
     17
     18A simple solution is to create "list" files that list all files that are part of the data set. For example, `cufflinks.lst`:
     19{{{
     20./S000084/l.r.m.c.lib.g/k.a/t/genes.fpkm_tracking
     21./S000084/l.r.m.c.lib.g/k.a/t/isoforms.fpkm_tracking
     22./S000084/l.r.m.c.lib.g/k.a/t/skipped.gtf
     23./S000084/l.r.m.c.lib.g/k.a/t/transcripts.gtf
     24...
     25}}}
     26
     27The `zip` command can then be used to create `cufflinks.zip` with all Cufflinks data:
     28{{{
     29zip -@ cufflinks.zip < cufflinks.lst
     30}}}