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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 -

              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.

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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.
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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.

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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.
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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

                People

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

                  • Created:
                    Updated: