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  1. Bug Repository
  2. BUG-196

linkouts for Arabidopsis ESTs from BioViz DAS are broken

          Details

          • Type: Bug
          • Status: Closed (View Workflow)
          • Priority: Major
          • Resolution: Fixed
          • Labels:
            None
          • Environment:

            Integrated Genome Browser, version: 6.5 (8017)

            Description

            There are two problems: First, two "Genbank" options appear for Arabidopsis ESTs. They are the same, and both lead to error pages at NCBI. (See attached.)

            To repeat:

            (1) Launch IGB
            (2) Choose A_thaliana_Jun_2009
            (3) Choose BioViz (DAS2) -> EST (spliced, single map)
            (4) Zoom in to about 5-7 genes. Load data
            (5) Right click one loaded EST
            (6) Select 'Get more info' and NCBI and Google as options.
            (7) Follow both links and be sure that they bring up both pages properly.

              Attachments

                Issue Links

                relates to

                Task - A task that needs to be done. BUG-674 Weblinks

                • Blocker - Blocks development and/or testing work, production could not run.
                • Closed

                  Activity

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                  Hide
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                  ann.loraine Ann Loraine added a comment -

                  Please check or assign to Nick.

                  Show
                  ann.loraine Ann Loraine added a comment - Please check or assign to Nick.
                  Hide
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                  imnick Nick Ren (Inactive) added a comment -

                  After right click a loaded EST, I don't have an option "Get more info".

                  Is there anything wrong here?

                  Show
                  imnick Nick Ren (Inactive) added a comment - After right click a loaded EST, I don't have an option "Get more info". Is there anything wrong here?
                  Hide
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                  alyssa Alyssa Gulledge (Inactive) added a comment -

                  the menu does not offer 'get more information' but rather offers a 'web search' icon next to the actual site containing the data (NCBI, TAIR, etc.) For Arabidopsis, the linkout is TAIR.

                  Show
                  alyssa Alyssa Gulledge (Inactive) added a comment - the menu does not offer 'get more information' but rather offers a 'web search' icon next to the actual site containing the data (NCBI, TAIR, etc.) For Arabidopsis, the linkout is TAIR.
                  Hide
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                  imnick Nick Ren (Inactive) added a comment -

                  I follow the repeat step provided by Dr. Loraine.

                  After right click a loaded EST, the 'web search' icon does not display.

                  Show
                  imnick Nick Ren (Inactive) added a comment - I follow the repeat step provided by Dr. Loraine. After right click a loaded EST, the 'web search' icon does not display.
                  Hide
                  Permalink
                  hiralv Hiral Vora (Inactive) added a comment -

                  Seems to be fixed in r8259.

                  Show
                  hiralv Hiral Vora (Inactive) added a comment - Seems to be fixed in r8259.
                  Hide
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                  hiralv Hiral Vora (Inactive) added a comment -

                  Linkouts are fixed current version.

                  Show
                  hiralv Hiral Vora (Inactive) added a comment - Linkouts are fixed current version.
                  Hide
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                  kkubiak Katharine Kubiak (Inactive) added a comment -

                  Passed v9804 Windows

                  Get more info > Google or NCBI

                  Both links work.

                  Show
                  kkubiak Katharine Kubiak (Inactive) added a comment - Passed v9804 Windows Get more info > Google or NCBI Both links work.
                  Hide
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                  anuj Anuj Puram (Inactive) added a comment -

                  6.7.0 (9824) on Mac

                  There is no get more info link

                  instead it has a link to Google directly and that works fine

                  Show
                  anuj Anuj Puram (Inactive) added a comment - 6.7.0 (9824) on Mac There is no get more info link instead it has a link to Google directly and that works fine
                  Hide
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                  alyssa Alyssa Gulledge (Inactive) added a comment -

                  Passes both google and ncbi link outs.

                  Show
                  alyssa Alyssa Gulledge (Inactive) added a comment - Passes both google and ncbi link outs.
                  Hide
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                  fwang4 Fuquan Wang (Inactive) added a comment -

                  Passed on 7.0.0 (11945) Mac.
                  Both links works.

                  Show
                  fwang4 Fuquan Wang (Inactive) added a comment - Passed on 7.0.0 (11945) Mac. Both links works.
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                  richard Richard Linchangco (Inactive) added a comment - - edited

                  Passed V.13839, Mac, Java 1.7.0_10

                  There are links to Google and NCBI when selecting any EST of A. thaliana.

                  Examples are:

                  Google displays two results:

                  http://www.metalife.com/UniGene/At%2015526_382586
                  http://signal.salk.edu/cgi-bin/atta?JOB=TEXT&TYPE=GENE&QUERY=At1g32410

                  NCBI links directly to:

                  http://www.ncbi.nlm.nih.gov/nucest/DR291694.1

                  All links correlate to the correct, selected EST from the IGB main viewer.

                  Show
                  richard Richard Linchangco (Inactive) added a comment - - edited Passed V.13839, Mac, Java 1.7.0_10 There are links to Google and NCBI when selecting any EST of A. thaliana. Examples are: Google displays two results: http://www.metalife.com/UniGene/At%2015526_382586 http://signal.salk.edu/cgi-bin/atta?JOB=TEXT&TYPE=GENE&QUERY=At1g32410 NCBI links directly to: http://www.ncbi.nlm.nih.gov/nucest/DR291694.1 All links correlate to the correct, selected EST from the IGB main viewer.

                    People

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

                      • Created:
                        Updated:
                        Resolved: