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  1. Bug Repository
  2. BUG-325

Activating ENSEMBL causes IGB to lose 'genome version' information

          Details

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

            Description

            Choose any species/ genome version. Data sources > configure > add ENSEMBL. Notice that genome version is reset to 'genome version' and all panels are empty. If you reset to original genome version, all data reappears. This happens to all species.

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                relates to

                Task - A task that needs to be done. BUG-647 Server bugs

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

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                  kkubiak Katharine Kubiak (Inactive) created issue -
                  kkubiak Katharine Kubiak (Inactive) made changes -
                  Field Original Value New Value
                  Description If you can get info from 'Ensembl' for a species (ie. Bos taurus) the issue below does not exist.

                  For any species that 'Ensembl' does not support info for or that does not have 'IGB Quickload' as a data source (ie. Apis mellifera) this issue does exist.

                  To reproduce:
                  Rattus norvegicus -> Nov_2004
                  Pref -> Data sources
                  Activate 'Ensembl' (Data sources disappear and Genome version resets)
                  Inactivate 'Ensemble' and choose Genome Version: Nov_2004 again
                  Load a couple of tracks from 'Data Sources..."
                  Activate 'Ensembl' (All information disappears)
                  You can inactivate 'Ensembl' and choose genome version again to bring back the tracks, but you have to reload the data again.                   		If you can receive info from 'Ensembl' for a species (ie. Bos taurus) the issue below does not exist.

                  For any species that 'Ensembl' does not support info for or that does not have 'IGB Quickload' as a data source (ie. Apis mellifera) this issue does exist.

                  To reproduce:
                  Rattus norvegicus -> Nov_2004
                  Pref -> Data sources
                  Activate 'Ensembl' (Data sources disappear and Genome version resets)
                  Inactivate 'Ensemble' and choose Genome Version: Nov_2004 again
                  Load a couple of tracks from 'Data Sources..."
                  Activate 'Ensembl' (All information disappears)
                  You can inactivate 'Ensembl' and choose genome version again to bring back the tracks, but you have to reload the data again.
                  kkubiak Katharine Kubiak (Inactive) made changes -
                  Description If you can receive info from 'Ensembl' for a species (ie. Bos taurus) the issue below does not exist.

                  For any species that 'Ensembl' does not support info for or that does not have 'IGB Quickload' as a data source (ie. Apis mellifera) this issue does exist.

                  To reproduce:
                  Rattus norvegicus -> Nov_2004
                  Pref -> Data sources
                  Activate 'Ensembl' (Data sources disappear and Genome version resets)
                  Inactivate 'Ensemble' and choose Genome Version: Nov_2004 again
                  Load a couple of tracks from 'Data Sources..."
                  Activate 'Ensembl' (All information disappears)
                  You can inactivate 'Ensembl' and choose genome version again to bring back the tracks, but you have to reload the data again.                   		If you can receive info from 'Ensembl' for a species (ie. Bos taurus) the issue below does not exist.

                  For any species that 'Ensembl' does not support info for AND that does not have 'IGB Quickload' as a data source (ie. Apis mellifera) this issue does exist.

                  To reproduce:
                  Rattus norvegicus -> Nov_2004
                  Pref -> Data sources
                  Activate 'Ensembl' (Data sources disappear and Genome version resets)
                  Inactivate 'Ensemble' and choose Genome Version: Nov_2004 again
                  Load a couple of tracks from 'Data Sources..."
                  Activate 'Ensembl' (All information disappears)
                  You can inactivate 'Ensembl' and choose genome version again to bring back the tracks, but you have to reload the data again.
                  kkubiak Katharine Kubiak (Inactive) made changes -
                  Assignee Ann Loraine [ aloraine ] Alyssa Gulledge [ alyssa ]
                  kkubiak Katharine Kubiak (Inactive) made changes -
                  Summary Species that Ensembl does not support loses all information when Ensembl is activated Species that Ensembl does not support AND that has IGB Quickload loses all information when Ensembl is activated
                  kkubiak Katharine Kubiak (Inactive) made changes -
                  Summary Species that Ensembl does not support AND that has IGB Quickload loses all information when Ensembl is activated Species that Ensembl does not support AND that does not have IGB Quickload loses all information when Ensembl is activated
                  Hide
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                  alyssa Alyssa Gulledge (Inactive) added a comment - - edited

                  Mac also.

                  No errors in console

                  Show
                  alyssa Alyssa Gulledge (Inactive) added a comment - - edited Mac also. No errors in console
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Assignee Alyssa Gulledge [ alyssa ] Hiral Vora [ hiralv ]
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Summary Species that Ensembl does not support AND that does not have IGB Quickload loses all information when Ensembl is activated Activating ENSEMBL causes IGB to lose 'genome version' information
                  Description If you can receive info from 'Ensembl' for a species (ie. Bos taurus) the issue below does not exist.

                  For any species that 'Ensembl' does not support info for AND that does not have 'IGB Quickload' as a data source (ie. Apis mellifera) this issue does exist.

                  To reproduce:
                  Rattus norvegicus -> Nov_2004
                  Pref -> Data sources
                  Activate 'Ensembl' (Data sources disappear and Genome version resets)
                  Inactivate 'Ensemble' and choose Genome Version: Nov_2004 again
                  Load a couple of tracks from 'Data Sources..."
                  Activate 'Ensembl' (All information disappears)
                  You can inactivate 'Ensembl' and choose genome version again to bring back the tracks, but you have to reload the data again.                   		Choose any species/ genome version. Data sources > configure > add ENSEMBL. Notice that genome version is reset to 'genome version' and all panels are empty. If you reset to original genome version, all data reappears. This happens to all species.
                  hiralv Hiral Vora (Inactive) made changes -
                  Assignee Hiral Vora [ hiralv ] David Norris [ david ]
                  Hide
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                  david David Norris (Inactive) added a comment -

                  Fixed in r10090

                  Show
                  david David Norris (Inactive) added a comment - Fixed in r10090
                  david David Norris (Inactive) made changes -
                  Assignee David Norris [ david ] Alyssa Gulledge [ alyssa ]
                  Hide
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                  alyssa Alyssa Gulledge (Inactive) added a comment -

                  not working in Preview, 10094

                  Show
                  alyssa Alyssa Gulledge (Inactive) added a comment - not working in Preview, 10094
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Assignee Alyssa Gulledge [ alyssa ] David Norris [ david ]
                  david David Norris (Inactive) made changes -
                  Assignee David Norris [ david ] Alyssa Gulledge [ alyssa ]
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Assignee Alyssa Gulledge [ alyssa ] David Norris [ david ]
                  hiralv Hiral Vora (Inactive) made changes -
                  Assignee David Norris [ david ] Hiral Vora [ hiralv ]
                  Hide
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                  hiralv Hiral Vora (Inactive) added a comment -

                  Seems like threading bug. Not fixing it for 6.7. It might create other bugs.

                  Show
                  hiralv Hiral Vora (Inactive) added a comment - Seems like threading bug. Not fixing it for 6.7. It might create other bugs.
                  hiralv Hiral Vora (Inactive) made changes -
                  Project Bug Repository [ 10030 ] IGB 7.0 [ 10140 ]
                  Key BUG-276 IGBC-65
                  hiralv Hiral Vora (Inactive) made changes -
                  Assignee Hiral Vora [ hiralv ]
                  hiralv Hiral Vora (Inactive) made changes -
                  Assignee Hiral Vora [ hiralv ]
                  Hide
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                  hiralv Hiral Vora (Inactive) added a comment -

                  Fixed in r10189.

                  Show
                  hiralv Hiral Vora (Inactive) added a comment - Fixed in r10189.
                  hiralv Hiral Vora (Inactive) made changes -
                  Assignee Hiral Vora [ hiralv ] Alyssa Gulledge [ alyssa ]
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Status Open [ 1 ] Resolved [ 5 ]
                  Assignee Alyssa Gulledge [ alyssa ]
                  Resolution Fixed [ 1 ]
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Status Resolved [ 5 ] Closed [ 6 ]
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Project IGB 7.0 [ 10140 ] Bug Repository [ 10030 ]
                  Key IGBC-65 BUG-325
                  fwang4 Fuquan Wang (Inactive) made changes -
                  Resolution Fixed [ 1 ]
                  Status Closed [ 6 ] Reopened [ 4 ]
                  Assignee Fuquan Wang [ fwang4 ]
                  Hide
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                  fwang4 Fuquan Wang (Inactive) added a comment -

                  Passed on 7.0.0 (11840) Mac.

                  Show
                  fwang4 Fuquan Wang (Inactive) added a comment - Passed on 7.0.0 (11840) Mac.
                  fwang4 Fuquan Wang (Inactive) made changes -
                  Status Reopened [ 4 ] Resolved [ 5 ]
                  Assignee Fuquan Wang [ fwang4 ]
                  Resolution Fixed [ 1 ]
                  richard Richard Linchangco (Inactive) made changes -
                  Resolution Fixed [ 1 ]
                  Status Resolved [ 5 ] Reopened [ 4 ]
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Link This issue relates to BUG-647 [ BUG-647 ]
                  alyssa Alyssa Gulledge (Inactive) made changes -
                  Status Reopened [ 4 ] Closed [ 6 ]
                  Resolution Fixed [ 1 ]

                    People

                    • Assignee:
                      Unassigned
                      Reporter:
                      kkubiak Katharine Kubiak (Inactive)
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                      Dates

                      • Created:
                        Updated:
                        Resolved: