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  1. IGB
  2. IGBF-2875

Create contents.txt and genome.txt file using UCSC APIs

    Details

    • Type: Task
    • Status: Closed (View Workflow)
    • Priority: Major
    • Resolution: Done
    • Affects Version/s: None
    • Fix Version/s: None
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      Description

      To create a contents.txt file we just need following two fields from the API https://api.genome.ucsc.edu/list/hubGenomes?hubUrl=http://hgdownload.soe.ucsc.edu/hubs/mouseStrains/hub.txt.
      1) Genome name
      2) Description

      To create genome file we need chromosome name and its size. We can get this information from the following API
      https://api.genome.ucsc.edu/list/chromosomes?hubUrl=http://hgdownload.soe.ucsc.edu/hubs/mouseStrains/hub.txt;genome=CAST_EiJ;track=assembly

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            chirag24 Chirag Chandrahas Shetty added a comment - - edited diff: https://bitbucket.org/chirag06/track-hub-converter-webapp/commits/branch/IGBF-2875
            Hide
            inaylor Irvin Naylor added a comment -

            Tested create_resources.txt, the script returned the correctly formatted contents.txt and genome.txt file in the console. Recommending pull request.

            Show
            inaylor Irvin Naylor added a comment - Tested create_resources.txt, the script returned the correctly formatted contents.txt and genome.txt file in the console. Recommending pull request.
            Show
            chirag24 Chirag Chandrahas Shetty added a comment - PR: https://bitbucket.org/Inaylor01/track-hub-converter-webapp/pull-requests/3
            Hide
            inaylor Irvin Naylor added a comment -

            Pull request has been merged to main on trackhub repo: https://bitbucket.org/Inaylor01/track-hub-converter-webapp/src/main/

            Moving to closed.

            Show
            inaylor Irvin Naylor added a comment - Pull request has been merged to main on trackhub repo: https://bitbucket.org/Inaylor01/track-hub-converter-webapp/src/main/ Moving to closed.

              People

              • Assignee:
                chirag24 Chirag Chandrahas Shetty
                Reporter:
                chirag24 Chirag Chandrahas Shetty
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                • Created:
                  Updated:
                  Resolved: