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  1. IGB
  2. IGBF-1423

Add potato genome assembly synonyms to IGB species.txt

        Details

        • Story Points:
          0.25
        • Sprint:
          Fall 2018 Sprint 3

          Description

          Modify species.txt in IGB codebase

          Add line from:

          http://igbquickload.org/quickload/species.txt

          Preserve alphabetical order in file.

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              Issue Links

              relates to

              Bug - A problem which impairs or prevents the functions of the product. HELP-276 Potato genome and transcriptome

              • To-Do

              Improvement - An improvement or enhancement to an existing feature or task. IGBF-1420 Add open access potato image to IGB start screen

              • Major - Major loss of function.
              • Closed

              Improvement - An improvement or enhancement to an existing feature or task. IGBF-1421 Add potato genome to IGB Quickload

              • Major - Major loss of function.
              • Closed

                Activity

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                ann.loraine Ann Loraine added a comment - - edited

                Fixed on branch https://bitbucket.org/aloraine/alorainefork/branch/IGBF-1423

                To test:

                • Reset preferences to defaults
                • De-activate main IGB Quickload (which contains species.txt file listing potato; IGB uses species.txt files from Quickload sites in addition to its own personal species.txt file packaged with the installer)
                • Add this test Quickload site: http://lorainelab-quickload.scidas.org/IGBF-1423
                • Quit then re-start IGB
                • Check that the species and genome menus list the potato genome, with tooltip on mouse-over the species menu entry

                Note: To re-create this site in current working directory:

                svn (subversion) lets you check out part of a repository. This is the potato genome directory.

                Show
                ann.loraine Ann Loraine added a comment - - edited Fixed on branch https://bitbucket.org/aloraine/alorainefork/branch/IGBF-1423 To test: Reset preferences to defaults De-activate main IGB Quickload (which contains species.txt file listing potato; IGB uses species.txt files from Quickload sites in addition to its own personal species.txt file packaged with the installer) Add this test Quickload site: http://lorainelab-quickload.scidas.org/IGBF-1423 Quit then re-start IGB Check that the species and genome menus list the potato genome, with tooltip on mouse-over the species menu entry Note : To re-create this site in current working directory: svn co https://svn.bioviz.org/repos/genomes/quickload/S_tuberosum_DM_Jul_2011 wget -O - http://igbquickload.org/quickload/contents.txt | grep S_tuberosum_DM_Jul_2011 > contents.txt svn (subversion) lets you check out part of a repository. This is the potato genome directory.
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                ann.loraine Ann Loraine added a comment -

                Passes functional review.

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                ann.loraine Ann Loraine added a comment - Passes functional review.
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                ann.loraine Ann Loraine added a comment -

                Merged into upstream master (git@bitbucket.org:lorainelab/integrated-genome-browser.git)

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                ann.loraine Ann Loraine added a comment - Merged into upstream master (git@bitbucket.org:lorainelab/integrated-genome-browser.git)

                  People

                  • Assignee:
                    ann.loraine Ann Loraine
                    Reporter:
                    ann.loraine Ann Loraine
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                    Dates

                    • Created:
                      Updated:
                      Resolved: