Details
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Type:
Bug
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Status: Closed (View Workflow)
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Priority:
Minor
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Resolution: Fixed
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Labels:None
Description
- open H sapiens
- Save, then drag in the IGIS Gene Models.GFF file (attached. Make sure to save the .tbi file to the same location as the main file.).
- zoom in until you have 1/2 of a gene showing on screen (make sure the other half is out of the field of view)
- hit load data. See that the IGIS models loaded.
- now zoom out, you will see the IGIS models end at the black and sometimes a single line extends into the grey, unloaded area. The exons on the ends are not showing.
- while zoomed out, hit Load Data again
this test passes if the rest of the exons load onto the 'parent' line. This fails if they are drawn as a new line
Attachments
Issue Links
- relates to
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BUG-622 File format issues
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- Closed
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Activity
Yes, it won't load partial model.
It can only load whole gene model.
This issue still occurs. If the viewing region fractions a gene model and is loaded, then the remainder of the gene in the unloaded region will simply display a line symbolizing the overall length of the gene, void of exon blocks.
(see attached partial.model.png)
After moving the viewing region or zooming out to a larger view, then loading the data, the remaining exon blocks for the gene are displayed.
The partial loading of the models is correct. The bug is that when loading in the REST of the model, it should appaer asll appropriately as a single model on a sing 'line' as opposed to as a new model on a separate 'line'.
Passed V.13624, Mac, Java 1.06.0_37
After loading more of the model, exons appear on the original, parent 'line' and not a separate line.
Passed V.13655, Mac, Java 1.06.0_37
Partially loaded gene model will create a 'parent line' which will hold exons when full gene model is in view and loaded.
See attached (PARTIAL and FULL)
GFF does not support region in view if it does not have an index file. So bug is not valid in this case.
If it has index file, then it shows graph initially and annotation upon zooming in. Bug is valid in this case but cannot reproduce it.