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  1. IGB
  2. IGBF-1669

Investigate IGB service listing available genomes and versions

        Details

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

          Description

          Situation: In order to implement the metadata features - where a user can assign a genome and version to a file, we need a way to get a list of the available genomes and versions from IGB. The best way would be if the user had IGB running, BioViz would contact an IGB service that would return the list of genomes and versions, which the user could then select from. If the user does not have IGB running, then BioViz could pull the list of genomes and versions from IGBQuickload. If IGBQuickload is not available, then it would populate with a list of genomes and versions stored on BioViz, though it may not be up to date.

          Task: Investigate how to make an IGB service that would provide genome and version. Put any notes in the comment section.

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              Task - A task that needs to be done. IGBF-1670 Implement IGB service listing available genomes and versions

              • Major - Major loss of function.
              • Closed

                Activity

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                nfreese Nowlan Freese created issue -
                nfreese Nowlan Freese made changes -
                Field Original Value New Value
                Epic Link IGBF-1482 [ 17568 ]
                nfreese Nowlan Freese made changes -
                Link This issue blocks IGBF-1670 [ IGBF-1670 ]
                nfreese Nowlan Freese made changes -
                Assignee Srishti Tiwari [ stiwari8 ]
                nfreese Nowlan Freese made changes -
                Sprint Summer 2019 Sprint 9 [ 68 ]
                stiwari8 Srishti Tiwari (Inactive) made changes -
                Status Open [ 1 ] In Progress [ 3 ]
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                stiwari8 Srishti Tiwari (Inactive) added a comment - - edited

                If IGB is running:
                get list of species and versions from IGB as it may also contain species from custom quickload.

                If IGB is not running:
                fetch contents.txt from default quickload site and display species common names against the versions.
                (Note: in the metadata, only the species name with version will be stored.)
                We would avoid storing the list of genome and versions in the BioViz as it will create maintenance problems in future.

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                stiwari8 Srishti Tiwari (Inactive) added a comment - - edited If IGB is running: get list of species and versions from IGB as it may also contain species from custom quickload. If IGB is not running: fetch contents.txt from default quickload site and display species common names against the versions. (Note: in the metadata, only the species name with version will be stored.) We would avoid storing the list of genome and versions in the BioViz as it will create maintenance problems in future.
                ann.loraine Ann Loraine made changes -
                Sprint Summer 2019 Sprint 9 [ 68 ] Summer 2019 Sprint 9, Summer 2019 Sprint 10 [ 68, 69 ]
                ann.loraine Ann Loraine made changes -
                Rank Ranked higher
                stiwari8 Srishti Tiwari (Inactive) made changes -
                Status In Progress [ 3 ] Needs 1st Level Review [ 10005 ]
                stiwari8 Srishti Tiwari (Inactive) made changes -
                Resolution Done [ 10000 ]
                Status Needs 1st Level Review [ 10005 ] Closed [ 6 ]
                ann.loraine Ann Loraine made changes -
                Workflow Loraine Lab Workflow [ 18391 ] Fall 2019 Workflow Update [ 20114 ]
                ann.loraine Ann Loraine made changes -
                Workflow Fall 2019 Workflow Update [ 20114 ] Revised Fall 2019 Workflow Update [ 22249 ]

                  People

                  • Assignee:
                    stiwari8 Srishti Tiwari (Inactive)
                    Reporter:
                    nfreese Nowlan Freese
                  • Votes:
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                    Watchers:
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                    Dates

                    • Created:
                      Updated:
                      Resolved: