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  1. IGB
  2. IGBF-1217

add Genome in a Bottle data sets to IGB Quickload

        Details

        • Story Points:
          2
        • Epic Link:
        • Sprint:
          Fall 4 Oct 26 - Nov 6, Fall 5 Nov 9 - Nov 20, Fall 6 Nov 30 - Dec 11, Fall 7 Dec 14 - Dec 23

          Description

          This is a suggestion from Dr. Steve Chervitz of Personalis in Menlo Park.

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              is blocked by

              Task - A task that needs to be done. IGBF-2589 Fix ftp quickload

              • Major - Major loss of function.
              • Closed
              relates to

              Task - A task that needs to be done. IGBF-3125 Deploy human trackhub metadata on bitbucket

              • Major - Major loss of function.
              • Closed

              Improvement - An improvement or enhancement to an existing feature or task. IGBF-2761 Update GIAB annots.xml to point to S3

              • Major - Major loss of function.
              • Closed

              Updated Genome - After a genome has been updated and committed to SVN IGBF-2696 Add blacklist regions to IGB quickload for mouse, human, fruit fly

              • Major - Major loss of function.
              • Closed

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                11 older comments
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                ann.loraine Ann Loraine added a comment -

                A tag is merely a pointer to a specific commit. I'm not sure that you can re-attach it to a different commit after the fact. So I'm not sure how this will work....

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                ann.loraine Ann Loraine added a comment - A tag is merely a pointer to a specific commit. I'm not sure that you can re-attach it to a different commit after the fact. So I'm not sure how this will work....
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                nfreese Nowlan Freese added a comment -

                I have created a pull request with the changes to igbDefaultPrefs.json here:
                https://bitbucket.org/lorainelab/integrated-genome-browser/pull-requests/855

                To make the mirror I created a github repository and used the instructions here to create a git mirror.

                git clone --mirror https://github.com/exampleuser/repository-to-mirror.git
                cd repository-to-mirror.git
                git remote set-url --push origin https://github.com/exampleuser/mirrored
                git fetch -p origin
                git push --mirror

                Show
                nfreese Nowlan Freese added a comment - I have created a pull request with the changes to igbDefaultPrefs.json here: https://bitbucket.org/lorainelab/integrated-genome-browser/pull-requests/855 To make the mirror I created a github repository and used the instructions here to create a git mirror. git clone --mirror https://github.com/exampleuser/repository-to-mirror.git cd repository-to-mirror.git git remote set-url --push origin https://github.com/exampleuser/mirrored git fetch -p origin git push --mirror
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                ann.loraine Ann Loraine added a comment -

                PR is merged into IGB code base.

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                ann.loraine Ann Loraine added a comment - PR is merged into IGB code base.
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                ann.loraine Ann Loraine added a comment - - edited

                Moved to complete. Thank you Nowlan Freese!

                If there are additional tasks to be done (???), let's make new Jira issue for them.

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                ann.loraine Ann Loraine added a comment - - edited Moved to complete. Thank you Nowlan Freese ! If there are additional tasks to be done (???), let's make new Jira issue for them.
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                nfreese Nowlan Freese added a comment -

                Tested on 9.1.8 jar with no issues.

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                nfreese Nowlan Freese added a comment - Tested on 9.1.8 jar with no issues.

                  People

                  • Assignee:
                    nfreese Nowlan Freese
                    Reporter:
                    ann.loraine Ann Loraine
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                    • Created:
                      Updated:
                      Resolved: