Resolve "process_derivaUpload"
Adds uploads of all flies and database entries to the data-hub.
PR checklist
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This comment contains a description of changes (with reason) -
If you've fixed a bug or added code that should be tested, add tests! -
Documentation in docs
is updated -
Replace dag.png with the most recent CI pipleine integrated_pe artifact -
Replace software_versions_mqc.yaml with the most recent CI pipleine generateVersions artifact -
Replace software_references_mqc.yaml with the most recent CI pipleine generateVersions artifact -
CHANGELOG.md
is updated -
README.md
is updated [ ]LICENSE.md
is updated with new contributors-
Docker images moved to production release and changed in pipeline -
Docker images used in the CI unit tests match those used in pipeline
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Close issue
Closes #11 (closed) Closes #75 (closed) Closes #24 (closed)
Merge request reports
Activity
Filter activity
changed milestone to %1.0.0
added Doing label
added 7 commits
- 8ab63c95 - Add optional upload param
- 0eab4834 - Use optional upload for output bag creation
- 6c15c28c - Do no upload override CI integration
- 0211d123 - Update docs
- 04536845 - Debug process file deriva upload & no retry for integration
- 8792bf4b - Start changing model
- 10cc87d9 - Merge branch '75-no.upload' into '11-deriva.upload'
Toggle commit listadded 7 commits
- 1bdfd212 - Change hatrac path upload for input/output bags
- b0eb119b - Add date to input/output bag
- a6562099 - Change processed file ouputs to use _ as separator for custom txt
- e8d478de - Prep for version 0.1.0_indev
- 1e6c14ae - Change Workflow name
- 3aa23f2a - Check for old mRNA QC and delete catalog entry
- e09c1872 - Check for old processed files and delete catalog entry
Toggle commit listadded 1 commit
- cdd32cb3 - Fix convert gene symbol script to use new countTable name
added 2 commits
added 1 commit
- 0208816d - Use staging workflow RID for CI uouploadExecutionRun
added 1 commit
- cd227a07 - Use staging workgenome for CI uouploadExecutionRun
added 1 commit
- df4faf8d - Fix study rid in upload process file ci unit test
added 1 commit
- b3a65d91 - Fix study rid in upload process file ci unit test
added 1 commit
- f3136232 - Try renaming qc rid variable in upload qc ci unit
added 2 commits
added 5 commits
Toggle commit listadded 1 commit
- 686d27d4 - Use the correct docker container for upload processed files ci unit
added 1 commit
- 9aaa4421 - Fix token error in ci unit upload processed file
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