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  1. IGB
  2. IGBF-3738

Update find junctions repo even more - main branch, bitbucket pipeline, more readme text

        Details

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

          Description

          Three additional tasks to update / improve the find junction code in bitbucket:

          1) Now that find junctions is recommended to be built using JDK 21, we need to update the bitbucket pipelines file. The pipeline might not even run, so this task may take some effort to debug it.

          2) Also, we may also want to indicate in the README which genome a user needs to open in order to view the "test" bed file, and explain to the user what they ought to see in IGB when they do that. That way, if there is a problem, they will know.

          3) Lastly, let's change the main development branch from "master" to "main".

            Attachments

              Issue Links

              relates to

              Documentation - When documentation is missing or wrong IGBF-3679 Document instructions for compiling FindJunctions via Bitbucket

              • Minor - Minor loss of function, or other problem where easy workaround is present.
              • Closed

              Documentation - When documentation is missing or wrong IGBF-3680 Improve documentation: Explain how our FindJunctions is different from Top Hat find junctions feature

              • Minor - Minor loss of function, or other problem where easy workaround is present.
              • Closed

                Activity

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                ann.loraine Ann Loraine created issue -
                ann.loraine Ann Loraine made changes -
                Field Original Value New Value
                Epic Link IGBF-1765 [ 17855 ]
                ann.loraine Ann Loraine made changes -
                Link This issue relates to IGBF-3680 [ IGBF-3680 ]
                ann.loraine Ann Loraine made changes -
                Link This issue relates to IGBF-3679 [ IGBF-3679 ]
                ann.loraine Ann Loraine made changes -
                Summary Update find junctions repository bitbucket pipelines file Update find junctions repo even more - main branch, bitbucket pipeline, more readme text
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Assignee Jaya Sravani Sirigineedi [ jsirigin ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Status To-Do [ 10305 ] In Progress [ 3 ]
                ann.loraine Ann Loraine made changes -
                Epic Link IGBF-1765 [ 17855 ] IGBF-1531 [ 17617 ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Status In Progress [ 3 ] To-Do [ 10305 ]
                ann.loraine Ann Loraine made changes -
                Sprint Summer 1 [ 195 ] Summer 1, Summer 2 [ 195, 196 ]
                ann.loraine Ann Loraine made changes -
                Rank Ranked higher
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Status To-Do [ 10305 ] In Progress [ 3 ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Status In Progress [ 3 ] Needs 1st Level Review [ 10005 ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Assignee Jaya Sravani Sirigineedi [ jsirigin ]
                ann.loraine Ann Loraine made changes -
                Sprint Summer 1, Summer 2 [ 195, 196 ] Summer 1, Summer 2, Summer 3 [ 195, 196, 197 ]
                ann.loraine Ann Loraine made changes -
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                ann.loraine Ann Loraine made changes -
                Status Needs 1st Level Review [ 10005 ] First Level Review in Progress [ 10301 ]
                ann.loraine Ann Loraine made changes -
                Status First Level Review in Progress [ 10301 ] Ready for Pull Request [ 10304 ]
                ann.loraine Ann Loraine made changes -
                Assignee Jaya Sravani Sirigineedi [ jsirigin ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Status Ready for Pull Request [ 10304 ] Pull Request Submitted [ 10101 ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Assignee Jaya Sravani Sirigineedi [ jsirigin ]
                ann.loraine Ann Loraine made changes -
                Status Pull Request Submitted [ 10101 ] Reviewing Pull Request [ 10303 ]
                ann.loraine Ann Loraine made changes -
                Status Reviewing Pull Request [ 10303 ] Merged Needs Testing [ 10002 ]
                ann.loraine Ann Loraine made changes -
                Status Merged Needs Testing [ 10002 ] Post-merge Testing In Progress [ 10003 ]
                ann.loraine Ann Loraine made changes -
                Status Post-merge Testing In Progress [ 10003 ] To-Do [ 10305 ]
                ann.loraine Ann Loraine made changes -
                Sprint Summer 1, Summer 2, Summer 3 [ 195, 196, 197 ] Summer 1, Summer 2, Summer 4 [ 195, 196, 198 ]
                ann.loraine Ann Loraine made changes -
                Sprint Summer 1, Summer 2, Summer 4 [ 195, 196, 198 ] Summer 1, Summer 2, Summer 5 [ 195, 196, 199 ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Status To-Do [ 10305 ] In Progress [ 3 ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Assignee Jaya Sravani Sirigineedi [ jsirigin ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Assignee Jaya Sravani Sirigineedi [ jsirigin ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Status In Progress [ 3 ] Needs 1st Level Review [ 10005 ]
                ann.loraine Ann Loraine made changes -
                Assignee Ann Loraine [ aloraine ]
                ann.loraine Ann Loraine made changes -
                Sprint Summer 1, Summer 2, Summer 5 [ 195, 196, 199 ] Summer 1, Summer 2, Summer 5, Summer 6 [ 195, 196, 199, 200 ]
                ann.loraine Ann Loraine made changes -
                Rank Ranked higher
                ann.loraine Ann Loraine made changes -
                Status Needs 1st Level Review [ 10005 ] First Level Review in Progress [ 10301 ]
                ann.loraine Ann Loraine made changes -
                Status First Level Review in Progress [ 10301 ] Ready for Pull Request [ 10304 ]
                ann.loraine Ann Loraine made changes -
                Assignee Ann Loraine [ aloraine ] Jaya Sravani Sirigineedi [ jsirigin ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Status Ready for Pull Request [ 10304 ] Pull Request Submitted [ 10101 ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Assignee Jaya Sravani Sirigineedi [ jsirigin ]
                ann.loraine Ann Loraine made changes -
                Status Pull Request Submitted [ 10101 ] Reviewing Pull Request [ 10303 ]
                ann.loraine Ann Loraine made changes -
                Status Reviewing Pull Request [ 10303 ] Merged Needs Testing [ 10002 ]
                ann.loraine Ann Loraine made changes -
                Assignee Ann Loraine [ aloraine ]
                ann.loraine Ann Loraine made changes -
                Sprint Summer 1, Summer 2, Summer 5, Summer 6 [ 195, 196, 199, 200 ] Summer 1, Summer 2, Summer 5, Summer 6, Summer 7 [ 195, 196, 199, 200, 201 ]
                ann.loraine Ann Loraine made changes -
                Rank Ranked higher
                ann.loraine Ann Loraine made changes -
                Assignee Ann Loraine [ aloraine ]
                nfreese Nowlan Freese made changes -
                Assignee Nowlan Freese [ nfreese ]
                nfreese Nowlan Freese made changes -
                Assignee Nowlan Freese [ nfreese ] Paige Kulzer [ pkulzer ]
                pkulzer Paige Kulzer made changes -
                Status Merged Needs Testing [ 10002 ] Post-merge Testing In Progress [ 10003 ]
                pkulzer Paige Kulzer made changes -
                Resolution Done [ 10000 ]
                Status Post-merge Testing In Progress [ 10003 ] Closed [ 6 ]
                pkulzer Paige Kulzer made changes -
                Assignee Paige Kulzer [ pkulzer ] Jaya Sravani Sirigineedi [ jsirigin ]

                  People

                  • Assignee:
                    jsirigin Jaya Sravani Sirigineedi (Inactive)
                    Reporter:
                    ann.loraine Ann Loraine
                  • Votes:
                    0 Vote for this issue
                    Watchers:
                    3 Start watching this issue

                    Dates

                    • Created:
                      Updated:
                      Resolved: