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  1. IGB
  2. IGBF-4065

Add new bread wheat genome

        Details

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

          Situation: While working on IGBF-3409, I discovered that a new version of the bread wheat genome (T_aestivum_May_2021) has been released to NCBI.

          Task: Add the latest T. aestivum genome assembly (IWGSC CS RefSeq v2.1) to IGB.

          Link to data: https://www.ncbi.nlm.nih.gov/datasets/genome/GCF_018294505.1/
          Documentation: https://docs.google.com/document/d/1v9caFNNQK-Az_7ztAV6TTMUbm9LUajvbnD-QBJpcSwY/edit?usp=sharing

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              pkulzer Paige Kulzer (Inactive) added a comment -

              This genome will be added as part of the upcoming GenArk integration (see https://hgdownload.soe.ucsc.edu/hubs/plants/index.html). Closing this ticket!

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              pkulzer Paige Kulzer (Inactive) added a comment - This genome will be added as part of the upcoming GenArk integration (see https://hgdownload.soe.ucsc.edu/hubs/plants/index.html ). Closing this ticket!
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              ann.loraine Ann Loraine added a comment - - edited

              Note from Ann:

              Please DO NOT add the 2bit file for this genome to the version control subversion system. Use the "file" tag to point to a 2bit file hosted elsewhere. This is because the data file is too large and costly to host using our infrastructure. We should use other groups to host this ginormous data file for us, or use a different deployment method, not amazon EBS, which is what our subversion repository uses.

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              ann.loraine Ann Loraine added a comment - - edited Note from Ann: Please DO NOT add the 2bit file for this genome to the version control subversion system. Use the "file" tag to point to a 2bit file hosted elsewhere. This is because the data file is too large and costly to host using our infrastructure. We should use other groups to host this ginormous data file for us, or use a different deployment method, not amazon EBS, which is what our subversion repository uses.

                People

                • Assignee:
                  pkulzer Paige Kulzer (Inactive)
                  Reporter:
                  pkulzer Paige Kulzer (Inactive)
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                    Updated:
                    Resolved: