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  1. IGB
  2. IGBF-933

High level zoom on large genes is causing lag if label set to "none"

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        • Story Points:
          1
        • Sprint:
          Sprint 26

          Description

          A user has reported that navigating to some coordinate (e.g chr14:34206132-34206363) is causing IGB to freeze, but others are working as expected.

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              dcnorris David Norris (Inactive) created issue -
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              dcnorris David Norris (Inactive) added a comment -

              I have tested navigating to these coordinates and others on the Human Genome on IGB 8.4.3 on Linux, but could not reproduce the issue.

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              dcnorris David Norris (Inactive) added a comment - I have tested navigating to these coordinates and others on the Human Genome on IGB 8.4.3 on Linux, but could not reproduce the issue.
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              mason Mason Meyer (Inactive) added a comment -

              My testing verifies that the problem can be reproduced by following the steps below:

              1) Select Homo Sapien genome (version 2009).
              2) Set annotation label field to "None".
              3) Use the quick search to navigate to the following coordinates: chr14:34206132-34206363

              Observe: IGB will jump to Chr14 but will then freeze.

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              mason Mason Meyer (Inactive) added a comment - My testing verifies that the problem can be reproduced by following the steps below: 1) Select Homo Sapien genome (version 2009). 2) Set annotation label field to "None". 3) Use the quick search to navigate to the following coordinates: chr14:34206132-34206363 Observe: IGB will jump to Chr14 but will then freeze.
              mason Mason Meyer (Inactive) made changes -
              Field Original Value New Value
              Summary IGB (8.4.3) reportedly freezes with CPU >100% (on mac os x Yosemite 10.10.5) IGB (8.4.3) reportedly freezes with CPU >100%
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              dcnorris David Norris (Inactive) added a comment -

              NPAS3 - gene reliably reproduces the issue, but any large gene seems to work as well.

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              dcnorris David Norris (Inactive) added a comment - NPAS3 - gene reliably reproduces the issue, but any large gene seems to work as well.
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              dcnorris David Norris (Inactive) added a comment -

              Fixed on igb_8_5 and merged to master

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              dcnorris David Norris (Inactive) added a comment - Fixed on igb_8_5 and merged to master
              dcnorris David Norris (Inactive) made changes -
              Status Open [ 1 ] Needs Testing [ 10002 ]
              mason Mason Meyer (Inactive) made changes -
              Status Needs Testing [ 10002 ] Testing In Progress [ 10003 ]
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              mason Mason Meyer (Inactive) added a comment - - edited

              Testing for this issue on 8.4.4 included checking to see if IGB would freeze when following the steps below:

              1) Select Homo Sapien genome (version 2009).
              2) Set annotation label field to "None".
              3) Use the quick search to navigate to the gene "NPAS3".

              *You should be able to zoom in on this gene as far as possible, zoom out all the way, and zoom in all the way again.

              I also tested on several other large genes to see if the problem could be reproduced but it could not be.

              My testing also included repeating the steps above using all of the Annotation Label Field options, toggling the "Arrow" option to show/hide intron arrows, loading sequence, resetting preferences to default.

              My testing verifies that this issue is resolved on 8.4.4. This issue still needs to be tested on 8.5.0 before closing.

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              mason Mason Meyer (Inactive) added a comment - - edited Testing for this issue on 8.4.4 included checking to see if IGB would freeze when following the steps below: 1) Select Homo Sapien genome (version 2009). 2) Set annotation label field to "None". 3) Use the quick search to navigate to the gene "NPAS3". *You should be able to zoom in on this gene as far as possible, zoom out all the way, and zoom in all the way again. I also tested on several other large genes to see if the problem could be reproduced but it could not be. My testing also included repeating the steps above using all of the Annotation Label Field options, toggling the "Arrow" option to show/hide intron arrows, loading sequence, resetting preferences to default. My testing verifies that this issue is resolved on 8.4.4. This issue still needs to be tested on 8.5.0 before closing.
              dcnorris David Norris (Inactive) made changes -
              Summary IGB (8.4.3) reportedly freezes with CPU >100% IGB (8.4.3) reportedly freezes with CPU ~100%
              dcnorris David Norris (Inactive) made changes -
              Summary IGB (8.4.3) reportedly freezes with CPU ~100% IGB (8.4.3) reportedly freezes with CPU ~100% on zooming with no labels set for annotation tracks
              dcnorris David Norris (Inactive) made changes -
              Summary IGB (8.4.3) reportedly freezes with CPU ~100% on zooming with no labels set for annotation tracks High level zoom on large genes is causing lag if label set to "none"
              mason Mason Meyer (Inactive) made changes -
              Fix Version/s 8.4.4 Minor Release [ 10101 ]
              mason Mason Meyer (Inactive) made changes -
              Assignee Mason Meyer [ mason ]
              mason Mason Meyer (Inactive) made changes -
              Status Testing In Progress [ 10003 ] Needs Testing [ 10002 ]
              jeckstein John Eckstein (Inactive) made changes -
              Labels navigation
              jeckstein John Eckstein (Inactive) made changes -
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              dcnorris David Norris (Inactive) made changes -
              Resolution Done [ 10000 ]
              Status Needs Testing [ 10002 ] Closed [ 6 ]
              mason Mason Meyer (Inactive) made changes -
              Rank Ranked higher
              mason Mason Meyer (Inactive) made changes -
              Resolution Done [ 10000 ]
              Status Closed [ 6 ] Testing In Progress [ 10003 ]
              mason Mason Meyer (Inactive) made changes -
              Status Testing In Progress [ 10003 ] Needs Testing [ 10002 ]
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              mason Mason Meyer (Inactive) added a comment -

              My testing verifies that this has also been fixed on 8.5.0 so this story will now be closed.

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              mason Mason Meyer (Inactive) added a comment - My testing verifies that this has also been fixed on 8.5.0 so this story will now be closed.
              mason Mason Meyer (Inactive) made changes -
              Resolution Done [ 10000 ]
              Status Needs Testing [ 10002 ] Closed [ 6 ]
              ann.loraine Ann Loraine made changes -
              Workflow Loraine Lab Workflow [ 16347 ] Fall 2019 Workflow Update [ 19659 ]
              ann.loraine Ann Loraine made changes -
              Workflow Fall 2019 Workflow Update [ 19659 ] Revised Fall 2019 Workflow Update [ 21778 ]

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                • Assignee:
                  Unassigned
                  Reporter:
                  dcnorris David Norris (Inactive)
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                    Updated:
                    Resolved: