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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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            chirag24 Chirag Chandrahas Shetty (Inactive) created issue -
            chirag24 Chirag Chandrahas Shetty (Inactive) made changes -
            Field Original Value New Value
            Epic Link IGBF-2831 [ 19524 ]
            chirag24 Chirag Chandrahas Shetty (Inactive) made changes -
            Status To-Do [ 10305 ] In Progress [ 3 ]
            chirag24 Chirag Chandrahas Shetty (Inactive) made changes -
            Assignee Chirag Chandrahas Shetty [ chirag24 ]
            chirag24 Chirag Chandrahas Shetty (Inactive) made changes -
            Description To create a contents.txt file we just need following two fields from the API.
            1) Genome name
            2) 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

             
            chirag24 Chirag Chandrahas Shetty (Inactive) made changes -
            Status In Progress [ 3 ] Needs 1st Level Review [ 10005 ]
            chirag24 Chirag Chandrahas Shetty (Inactive) made changes -
            Assignee Chirag Chandrahas Shetty [ chirag24 ]
            chirag24 Chirag Chandrahas Shetty (Inactive) made changes -
            Summary Create contents.txt file using UCSC APIs Create contents.txt and genome.txt file using UCSC APIs
            chirag24 Chirag Chandrahas Shetty (Inactive) made changes -
            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 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
            inaylor Irvin Naylor (Inactive) made changes -
            Assignee Irvin Naylor [ inaylor ]
            inaylor Irvin Naylor (Inactive) made changes -
            Status Needs 1st Level Review [ 10005 ] First Level Review in Progress [ 10301 ]
            inaylor Irvin Naylor (Inactive) made changes -
            Status First Level Review in Progress [ 10301 ] Ready for Pull Request [ 10304 ]
            chirag24 Chirag Chandrahas Shetty (Inactive) made changes -
            Assignee Irvin Naylor [ inaylor ] Chirag Chandrahas Shetty [ chirag24 ]
            chirag24 Chirag Chandrahas Shetty (Inactive) made changes -
            Status Ready for Pull Request [ 10304 ] Pull Request Submitted [ 10101 ]
            chirag24 Chirag Chandrahas Shetty (Inactive) made changes -
            Assignee Chirag Chandrahas Shetty [ chirag24 ] Irvin Naylor [ inaylor ]
            inaylor Irvin Naylor (Inactive) made changes -
            Status Pull Request Submitted [ 10101 ] Reviewing Pull Request [ 10303 ]
            inaylor Irvin Naylor (Inactive) made changes -
            Assignee Irvin Naylor [ inaylor ] Chirag Chandrahas Shetty [ chirag24 ]
            inaylor Irvin Naylor (Inactive) made changes -
            Status Reviewing Pull Request [ 10303 ] Merged Needs Testing [ 10002 ]
            inaylor Irvin Naylor (Inactive) made changes -
            Status Merged Needs Testing [ 10002 ] Post-merge Testing In Progress [ 10003 ]
            inaylor Irvin Naylor (Inactive) made changes -
            Resolution Done [ 10000 ]
            Status Post-merge Testing In Progress [ 10003 ] Closed [ 6 ]
            chirag24 Chirag Chandrahas Shetty (Inactive) made changes -
            Link This issue blocks IGBF-2878 [ IGBF-2878 ]

              People

              • Assignee:
                chirag24 Chirag Chandrahas Shetty (Inactive)
                Reporter:
                chirag24 Chirag Chandrahas Shetty (Inactive)
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                Watchers:
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                Dates

                • Created:
                  Updated:
                  Resolved: