_Verify that the results for projects MIC3109, MIC4107, MIC4109 & ACC5551 are consistent with the results attached to AMSystem doc 1490, MicrobialWGS.xlsx
Test results
These are the results of the tests, and necessary conclusions, that prove the stability of the PR.
Sign-offs
[x] Code tested by @talnor
[x] Approved to run at Clinical-Genomics by @talnor
Description
Some of microSALTs dependencies are no longer available and other dependencies causes the installation to fail.
The features of this PR primarily concerns bioinformaticians/internals
Summary of the changes made:
If not self-evident, mention what prompted the change. Unable to run microSALT installation
Primary function of PR
Testing
If the update is a hotfix, it is sufficient to rely on the development testing along with the Travis self-test automatically applied to the PR.
Deploy correct branch on stage:
bash /home/proj/production/servers/resources/hasta.scilifelab.se/update-microsalt-stage.sh fix_dependencies
_If starting microSALT with
cg
:us
paxa -u <user> -s hasta -r cg-stage
bash /home/proj/production/servers/resources/hasta.scilifelab.se/update-cg-stage.sh master
Test routine to verify the stability of the PR:
microSALT analyse /home/proj/stage/microbial/queries/merrymink.json --input /home/proj/stage/microbial/fastq/merrymink/
cg workflow microsalt start merrymink
_Verify that the results for projects MIC3109, MIC4107, MIC4109 & ACC5551 are consistent with the results attached to AMSystem doc 1490, MicrobialWGS.xlsx
Test results
These are the results of the tests, and necessary conclusions, that prove the stability of the PR.
Sign-offs