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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
        • Labels:

          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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              Task - A task that needs to be done. IGBF-2878 Implement TrackHub Application 2 which is an endpoint for all the IGB requests.

              • Major - Major loss of function.
              • Closed

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                chirag24 Chirag Chandrahas Shetty (Inactive) added a comment - - edited

                diff: https://bitbucket.org/chirag06/track-hub-converter-webapp/commits/branch/IGBF-2875

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

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                inaylor Irvin Naylor (Inactive) 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.
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                chirag24 Chirag Chandrahas Shetty (Inactive) added a comment -

                PR: https://bitbucket.org/Inaylor01/track-hub-converter-webapp/pull-requests/3

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                chirag24 Chirag Chandrahas Shetty (Inactive) added a comment - PR: https://bitbucket.org/Inaylor01/track-hub-converter-webapp/pull-requests/3
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                inaylor Irvin Naylor (Inactive) 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.

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                inaylor Irvin Naylor (Inactive) 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 (Inactive)
                    Reporter:
                    chirag24 Chirag Chandrahas Shetty (Inactive)
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                    • Created:
                      Updated:
                      Resolved: