Details
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Type:
Bug
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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: None
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Labels:None
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Story Points:2
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Epic Link:
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Sprint:Fall 3 2022 Sep 26, Fall 4 2022 Oct 10, Fall 5 2022 Oct 24
Description
Situation: Testing on bvctest3.bioviz.org revealed that the Analysis Name and Output file name fields of the Analysis menu are not being autofilled correctly and are appearing blank. The Output file name should be filled with the default value provided by CyVerse (for example: FILE.bw). The Analysis Name I believe we were autofilling with "Analysis Name" though this might have been changed as the current production version of BioViz Connect is behind master.
Task: Provide the appropriate default values for the Analysis Name and Output file name fields.
Note: file extension for "bigwig" format is "bw".
Note: Default file name should resemble the input ".bam" file. For example:
- input file name: "A big old bam filewith stuff in it.sorted.awesome.bam" output file name (filled in by the interface): "A big old bam filewith stuff in it.sorted.awesome.bw"
Attachments
Issue Links
- relates to
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IGBF-3181 Change coverage graph app output to bigwig
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- Closed
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Activity
One change: Need to split off the fileName extension before adding the default filetype extension in analysisOperations.js
Right now a file named test.bam appears as test.bam.bigwig when it should appear as test.bigwig
Changes made. See commit
PR Submitted. https://bitbucket.org/nfreese/bioviz-connect/pull-requests/281/igbf-3186-change-output-filename-format
Merged
[~aloraine] - Could you please rerun the playbooks for bvctest3/7?
Playbooks are run and new code is deployed on bvctest3 and 7.
Output file name looks good.
Note: I am unable to test if an analysis job completes successfully as all jobs on multiple accounts and using multiple owned/not owned apps are all failing immediately. It would appear there is an issue with CyVerse.
Closing ticket.
Note that this bug is a regression. The current production version of Bioviz Connect is behind master and the file name defaults appear correctly. The bvctest3 servers are running the master BioViz Connect and the file name defaults do not appear, so something must have broken in the last year.