Details
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Type: Improvement
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Status: Closed (View Workflow)
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Priority: Major
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Resolution: Done
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Affects Version/s: None
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Fix Version/s: 8.5.0 Major Release
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Labels:
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Story Points:0.5
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Epic Link:
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Sprint:Sprint 29
Description
Cloud storage providers like Dropbox typically make it possible for users to create links to files and then share the links. However, paths exposed in links don't correspond to physical storage, which means that IGB can't make assumptions about the location of index files for BAM, tabix, or other indexed, random access formats.
Let's add a new optional attribute ("index") to the QuickLoad "file" tag where "index" indicates the location of the index file. Same rules about defining file locations should apply.
Attachments
Issue Links
- relates to
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REL-15 Create example BAM/BAI Quickloads
- Testing Complete
This comment sounds wrong:
"I removed the index attribute for bam files to verify that the bam would not load."
If you remove the index attribute, then the file should STILL load if the index is in the same directory as the BAM file.
The index attribute is optional, not required. If the index file attribute is not present in the annots.xml file, then IGB should attempt to retrieve the index file from the same directory (context root) where the BAM file is located.