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  1. IGB
  2. IGBF-4387

Investigate missing IGB link in eFP-Seq Browser

        Details

        • Type: Task
        • Status: To-Do (View Workflow)
        • Priority: Major
        • Resolution: Unresolved
        • Affects Version/s: None
        • Fix Version/s: None
        • Labels:
          None

          Description

          Situation: During the eFP-Seq Browser release testing Karthik found that the "Alignments in IGB" link was missing. Looking at the eFP-Seq Browser GitHub page, there is a file cgi-bin/core/custom.js that contains some logic to add the Alignments in IGB link:

          if (bam_type === "Amazon AWS") {
 append_str +=
  '<div id="igbLink_' +
  experimentno +
  '">Show: <a href="' +
  igbView_link +
  '" target="_blank" rel="noopener">Alignments in IGB</a></div>';
}

          Task: Determine why the Alignments in IGB link is no longer showing up in the eFP-Seq browser.

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              nfreese Nowlan Freese added a comment -

              Testing different datasets on the eFP-Seq browser for gene AT2G24270:

              • Araport 11 RNA-seq data: no link to view in IGB
              • Developmental transcriptome - Klepikova et al: no link to view in IGB
              • Guard Cell Drought: no link to view in IGB
              • Pollen: no link to view in IGB
              Show
              nfreese Nowlan Freese added a comment - Testing different datasets on the eFP-Seq browser for gene AT2G24270: Araport 11 RNA-seq data: no link to view in IGB Developmental transcriptome - Klepikova et al: no link to view in IGB Guard Cell Drought: no link to view in IGB Pollen: no link to view in IGB
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              ann.loraine Ann Loraine added a comment -

              I just now sent an email to the Provart group to let them know.

              Show
              ann.loraine Ann Loraine added a comment - I just now sent an email to the Provart group to let them know.
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              nfreese Nowlan Freese added a comment -

              After discussion with Ann Loraine, Dr. Loraine will reach out to the Provart lab. It is possible the data were moved from Amazon and this is causing an issue.

              Show
              nfreese Nowlan Freese added a comment - After discussion with Ann Loraine , Dr. Loraine will reach out to the Provart lab. It is possible the data were moved from Amazon and this is causing an issue.

                People

                • Assignee:
                  ann.loraine Ann Loraine
                  Reporter:
                  nfreese Nowlan Freese
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                  Dates

                  • Created:
                    Updated: