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  1. IGB
  2. IGBF-3698

Fix right-click Filter... in IGB when track is separated into (+) and (-) strands

        Details

        • Type: Bug
        • Status: Closed (View Workflow)
        • Priority: Major
        • Resolution: Done
        • Affects Version/s: None
        • Fix Version/s: 10.1.0
        • Labels:
          None

          Description

          Situation: IGB users can use the right-click Filter... option in IGB to filter annotations or reads in a track based on properties such as score. However, there is a bug where if the track is separated by strand and the filter is applied to one strand and then removed in the other strand, the data do not reappear.

          Task: Investigate the cause of the issue. Once we have a better understanding of the code, determine if there is a relatively easy way to accomplish one of the possible solutions below.

          Possible solutions:

          • If a filter is applied to a strand it can only be removed from that strand.
          • If a user removes the filter from either strand, the filter is removed from both strands.
          • Filters are added and removed from both strands, there is no way to add a strand-specific filter.
          • It would also be nice if the filter icon appeared only for the relevant strand (right now it appears for both strands even if the filter is only applied to one strand).

          To reproduce the issue:

          1. Start IGB
          2. Select the Arabidopsis genome
          3. Navigate to Chr1:8,673,056-8,677,891
          4. Right-click on the Araport track and select Filter...
          5. In the Filter menu, select Add
          6. In the Add filter menu, select Show Only Score
          7. Click OK
          8. Click OK
          9. The gene model in the Araport track should now be hidden
          10. Right-click on the Araport track and select Filter...
          11. Select the Score filter and click on the Remove button
          12. Click OK
            The filter should now be removed, but the gene model in the Araport track is still missing.

            Attachments

              Issue Links

              relates to

              Bug - A problem which impairs or prevents the functions of the product. IGBF-1247 Combining strands causes data to disappear when using the "Filter By" feature

              • Major - Major loss of function.
              • Closed

              Bug - A problem which impairs or prevents the functions of the product. IGBF-3747 Fix Color By interacting oddly with Filter By

              • Minor - Minor loss of function, or other problem where easy workaround is present.
              • Closed

              Improvement - An improvement or enhancement to an existing feature or task. IGBF-3752 Improve Filter Mark on IGB tracks when filter is applied to only a single track

              • Major - Major loss of function.
              • Closed

              Improvement - An improvement or enhancement to an existing feature or task. IGBF-3640 Expand color by and Filter by to include the props

              • Major - Major loss of function.
              • Closed

                Activity

                Ascending order - Click to sort in descending order
                nfreese Nowlan Freese created issue -
                nfreese Nowlan Freese made changes -
                Field Original Value New Value
                Epic Link IGBF-1765 [ 17855 ]
                nfreese Nowlan Freese made changes -
                Link This issue relates to IGBF-3640 [ IGBF-3640 ]
                nfreese Nowlan Freese made changes -
                Description Situation: IGB users can use the right-click Filter... option in IGB to filter annotations or reads in a track based on properties such as score. However, there is a bug where if the track is separated by strand and the filter is applied to one strand and then removed in the other strand, the data do not reappear.

                Task: Fix it so that if a filter is applied to a strand it can only be removed from that strand.

                To reproduce the issue:
                Start IGB
                Select the Arabidopsis genome
                Navigate to Chr1:8,673,056-8,677,891
                Right-click on the Araport (+) track and select Filter...
                In the Filter menu, select Add
                In the Add filter menu, select Show Only Score
                Click OK
                Click OK
                *The gene model in the Araport (+) track should now be hidden*
                Right-click on the *Araport (-)* track and select Filter...
                Select the Score filter and click on the Remove button
                Click OK
                The filter shoudl now be removed, but the gene model in the Araport (+) track is still missing.                 		Situation: IGB users can use the right-click Filter... option in IGB to filter annotations or reads in a track based on properties such as score. However, there is a bug where if the track is separated by strand and the filter is applied to one strand and then removed in the other strand, the data do not reappear.

                Task: Fix it so that if a filter is applied to a strand it can only be removed from that strand.

                To reproduce the issue:
                # Start IGB
                # Select the Arabidopsis genome
                # Navigate to Chr1:8,673,056-8,677,891
                # Right-click on the Araport (+) track and select Filter...
                # In the Filter menu, select Add
                # In the Add filter menu, select Show Only Score
                # Click OK
                # Click OK
                # *The gene model in the Araport (+) track should now be hidden*
                # Right-click on the *Araport (-)* track and select Filter...
                # Select the Score filter and click on the Remove button
                # Click OK
                The filter should now be removed, but the gene model in the Araport (+) track is still missing.
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Status To-Do [ 10305 ] In Progress [ 3 ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Assignee Jaya Sravani Sirigineedi [ jsirigin ]
                nfreese Nowlan Freese made changes -
                Link This issue relates to IGBF-1247 [ IGBF-1247 ]
                nfreese Nowlan Freese made changes -
                Description Situation: IGB users can use the right-click Filter... option in IGB to filter annotations or reads in a track based on properties such as score. However, there is a bug where if the track is separated by strand and the filter is applied to one strand and then removed in the other strand, the data do not reappear.

                Task: Fix it so that if a filter is applied to a strand it can only be removed from that strand.

                To reproduce the issue:
                # Start IGB
                # Select the Arabidopsis genome
                # Navigate to Chr1:8,673,056-8,677,891
                # Right-click on the Araport (+) track and select Filter...
                # In the Filter menu, select Add
                # In the Add filter menu, select Show Only Score
                # Click OK
                # Click OK
                # *The gene model in the Araport (+) track should now be hidden*
                # Right-click on the *Araport (-)* track and select Filter...
                # Select the Score filter and click on the Remove button
                # Click OK
                The filter should now be removed, but the gene model in the Araport (+) track is still missing.                 		Situation: IGB users can use the right-click Filter... option in IGB to filter annotations or reads in a track based on properties such as score. However, there is a bug where if the track is separated by strand and the filter is applied to one strand and then removed in the other strand, the data do not reappear.

                Task:
                Possible solutions:
                * If a filter is applied to a strand it can only be removed from that strand.
                * If a user removes the filter from either strand, the filter is removed from both strands.

                To reproduce the issue:
                # Start IGB
                # Select the Arabidopsis genome
                # Navigate to Chr1:8,673,056-8,677,891
                # Right-click on the Araport (+) track and select Filter...
                # In the Filter menu, select Add
                # In the Add filter menu, select Show Only Score
                # Click OK
                # Click OK
                # *The gene model in the Araport (+) track should now be hidden*
                # Right-click on the *Araport (-)* track and select Filter...
                # Select the Score filter and click on the Remove button
                # Click OK
                The filter should now be removed, but the gene model in the Araport (+) track is still missing.
                nfreese Nowlan Freese made changes -
                Description Situation: IGB users can use the right-click Filter... option in IGB to filter annotations or reads in a track based on properties such as score. However, there is a bug where if the track is separated by strand and the filter is applied to one strand and then removed in the other strand, the data do not reappear.

                Task:
                Possible solutions:
                * If a filter is applied to a strand it can only be removed from that strand.
                * If a user removes the filter from either strand, the filter is removed from both strands.

                To reproduce the issue:
                # Start IGB
                # Select the Arabidopsis genome
                # Navigate to Chr1:8,673,056-8,677,891
                # Right-click on the Araport (+) track and select Filter...
                # In the Filter menu, select Add
                # In the Add filter menu, select Show Only Score
                # Click OK
                # Click OK
                # *The gene model in the Araport (+) track should now be hidden*
                # Right-click on the *Araport (-)* track and select Filter...
                # Select the Score filter and click on the Remove button
                # Click OK
                The filter should now be removed, but the gene model in the Araport (+) track is still missing.                 		Situation: IGB users can use the right-click Filter... option in IGB to filter annotations or reads in a track based on properties such as score. However, there is a bug where if the track is separated by strand and the filter is applied to one strand and then removed in the other strand, the data do not reappear.

                Task: Investigate the cause of the issue. Once we have a better understanding of the code, determine if there is a relatively easy way to accomplish one of the possible solutions below.

                Possible solutions:
                * If a filter is applied to a strand it can only be removed from that strand.
                * If a user removes the filter from either strand, the filter is removed from both strands.

                To reproduce the issue:
                # Start IGB
                # Select the Arabidopsis genome
                # Navigate to Chr1:8,673,056-8,677,891
                # Right-click on the Araport (+) track and select Filter...
                # In the Filter menu, select Add
                # In the Add filter menu, select Show Only Score
                # Click OK
                # Click OK
                # *The gene model in the Araport (+) track should now be hidden*
                # Right-click on the *Araport (-)* track and select Filter...
                # Select the Score filter and click on the Remove button
                # Click OK
                The filter should now be removed, but the gene model in the Araport (+) track is still missing.
                nfreese Nowlan Freese made changes -
                Description Situation: IGB users can use the right-click Filter... option in IGB to filter annotations or reads in a track based on properties such as score. However, there is a bug where if the track is separated by strand and the filter is applied to one strand and then removed in the other strand, the data do not reappear.

                Task: Investigate the cause of the issue. Once we have a better understanding of the code, determine if there is a relatively easy way to accomplish one of the possible solutions below.

                Possible solutions:
                * If a filter is applied to a strand it can only be removed from that strand.
                * If a user removes the filter from either strand, the filter is removed from both strands.

                To reproduce the issue:
                # Start IGB
                # Select the Arabidopsis genome
                # Navigate to Chr1:8,673,056-8,677,891
                # Right-click on the Araport (+) track and select Filter...
                # In the Filter menu, select Add
                # In the Add filter menu, select Show Only Score
                # Click OK
                # Click OK
                # *The gene model in the Araport (+) track should now be hidden*
                # Right-click on the *Araport (-)* track and select Filter...
                # Select the Score filter and click on the Remove button
                # Click OK
                The filter should now be removed, but the gene model in the Araport (+) track is still missing.                 		Situation: IGB users can use the right-click Filter... option in IGB to filter annotations or reads in a track based on properties such as score. However, there is a bug where if the track is separated by strand and the filter is applied to one strand and then removed in the other strand, the data do not reappear.

                Task: Investigate the cause of the issue. Once we have a better understanding of the code, determine if there is a relatively easy way to accomplish one of the possible solutions below.

                Possible solutions:
                * If a filter is applied to a strand it can only be removed from that strand.
                * If a user removes the filter from either strand, the filter is removed from both strands.
                * Filters are added and removed from both strands, there is no way to add a strand-specific filter.

                To reproduce the issue:
                # Start IGB
                # Select the Arabidopsis genome
                # Navigate to Chr1:8,673,056-8,677,891
                # Right-click on the Araport (+) track and select Filter...
                # In the Filter menu, select Add
                # In the Add filter menu, select Show Only Score
                # Click OK
                # Click OK
                # *The gene model in the Araport (+) track should now be hidden*
                # Right-click on the *Araport (-)* track and select Filter...
                # Select the Score filter and click on the Remove button
                # Click OK
                The filter should now be removed, but the gene model in the Araport (+) track is still missing.
                nfreese Nowlan Freese made changes -
                Description Situation: IGB users can use the right-click Filter... option in IGB to filter annotations or reads in a track based on properties such as score. However, there is a bug where if the track is separated by strand and the filter is applied to one strand and then removed in the other strand, the data do not reappear.

                Task: Investigate the cause of the issue. Once we have a better understanding of the code, determine if there is a relatively easy way to accomplish one of the possible solutions below.

                Possible solutions:
                * If a filter is applied to a strand it can only be removed from that strand.
                * If a user removes the filter from either strand, the filter is removed from both strands.
                * Filters are added and removed from both strands, there is no way to add a strand-specific filter.

                To reproduce the issue:
                # Start IGB
                # Select the Arabidopsis genome
                # Navigate to Chr1:8,673,056-8,677,891
                # Right-click on the Araport (+) track and select Filter...
                # In the Filter menu, select Add
                # In the Add filter menu, select Show Only Score
                # Click OK
                # Click OK
                # *The gene model in the Araport (+) track should now be hidden*
                # Right-click on the *Araport (-)* track and select Filter...
                # Select the Score filter and click on the Remove button
                # Click OK
                The filter should now be removed, but the gene model in the Araport (+) track is still missing.                 		Situation: IGB users can use the right-click Filter... option in IGB to filter annotations or reads in a track based on properties such as score. However, there is a bug where if the track is separated by strand and the filter is applied to one strand and then removed in the other strand, the data do not reappear.

                Task: Investigate the cause of the issue. Once we have a better understanding of the code, determine if there is a relatively easy way to accomplish one of the possible solutions below.

                Possible solutions:
                * If a filter is applied to a strand it can only be removed from that strand.
                * If a user removes the filter from either strand, the filter is removed from both strands.
                * Filters are added and removed from both strands, there is no way to add a strand-specific filter.
                * It would also be nice if the filter icon appeared only for the relevant strand (right now it appears for both strands even if the filter is only applied to one strand).

                To reproduce the issue:
                # Start IGB
                # Select the Arabidopsis genome
                # Navigate to Chr1:8,673,056-8,677,891
                # Right-click on the Araport (+) track and select Filter...
                # In the Filter menu, select Add
                # In the Add filter menu, select Show Only Score
                # Click OK
                # Click OK
                # *The gene model in the Araport (+) track should now be hidden*
                # Right-click on the *Araport (-)* track and select Filter...
                # Select the Score filter and click on the Remove button
                # Click OK
                The filter should now be removed, but the gene model in the Araport (+) track is still missing.
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Status In Progress [ 3 ] Needs 1st Level Review [ 10005 ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Assignee Jaya Sravani Sirigineedi [ jsirigin ] Nowlan Freese [ nfreese ]
                nfreese Nowlan Freese made changes -
                Link This issue relates to IGBF-3747 [ IGBF-3747 ]
                nfreese Nowlan Freese made changes -
                Assignee Nowlan Freese [ nfreese ] Jaya Sravani Sirigineedi [ jsirigin ]
                nfreese Nowlan Freese made changes -
                Status Needs 1st Level Review [ 10005 ] First Level Review in Progress [ 10301 ]
                nfreese Nowlan Freese made changes -
                Status First Level Review in Progress [ 10301 ] To-Do [ 10305 ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Status To-Do [ 10305 ] In Progress [ 3 ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Status In Progress [ 3 ] Needs 1st Level Review [ 10005 ]
                jsirigin Jaya Sravani Sirigineedi (Inactive) made changes -
                Assignee Jaya Sravani Sirigineedi [ jsirigin ] Nowlan Freese [ nfreese ]
                nfreese Nowlan Freese made changes -
                Link This issue relates to IGBF-3752 [ IGBF-3752 ]
                ann.loraine Ann Loraine made changes -
                Sprint Spring 10 [ 194 ] Spring 10, Summer 1 [ 194, 195 ]
                ann.loraine Ann Loraine made changes -
                Rank Ranked higher
                nfreese Nowlan Freese made changes -
                Status Needs 1st Level Review [ 10005 ] First Level Review in Progress [ 10301 ]
                nfreese Nowlan Freese made changes -
                Assignee Nowlan Freese [ nfreese ]
                nfreese Nowlan Freese made changes -
                Status First Level Review in Progress [ 10301 ] Ready for Pull Request [ 10304 ]
                nfreese Nowlan Freese made changes -
                Status Ready for Pull Request [ 10304 ] Pull Request Submitted [ 10101 ]
                nfreese Nowlan Freese made changes -
                Status Pull Request Submitted [ 10101 ] Reviewing Pull Request [ 10303 ]
                nfreese Nowlan Freese made changes -
                Status Reviewing Pull Request [ 10303 ] Merged Needs Testing [ 10002 ]
                nfreese Nowlan Freese made changes -
                Status Merged Needs Testing [ 10002 ] Post-merge Testing In Progress [ 10003 ]
                nfreese Nowlan Freese made changes -
                Assignee Jaya Sravani Sirigineedi [ jsirigin ]
                nfreese Nowlan Freese made changes -
                Resolution Done [ 10000 ]
                Status Post-merge Testing In Progress [ 10003 ] Closed [ 6 ]
                nfreese Nowlan Freese made changes -
                Fix Version/s 10.1.0 [ 11000 ]

                  People

                  • Assignee:
                    jsirigin Jaya Sravani Sirigineedi (Inactive)
                    Reporter:
                    nfreese Nowlan Freese
                  • Votes:
                    0 Vote for this issue
                    Watchers:
                    2 Start watching this issue

                    Dates

                    • Created:
                      Updated:
                      Resolved: