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EPP: aliquot_covaris_microbial.py #86

Closed barrystokman closed 2 years ago

barrystokman commented 3 years ago

Lims Issue

Work Flow: CG001 Microbial WGS (archived)/CG002 Microbial WGS (archived) Protocol: CG002 - Nextera Microbial WGS/CG003 - Nextera Microbial WGS Step: CG002 - Normalization of microbial samples

Description: Implement EPP aliquot_covaris_microbial.py

barrystokman commented 3 years ago 
(cg_lims) bash-4.2$ python opt/clinical_EPPs/clinical_EPPs/check_configuration.py -s aliquot_covaris_microbial.py
INFO:AUTOMATION: Searching for 'aliquot_covaris_microbial.py'.
INFO:Button: 2. Calculate Aliquot Volume
INFO:Bash string: bash -c "/home/glsai/miniconda3/envs/epp_master/bin/aliquot_covaris_microbial.py --pid {processLuid}"
INFO:Processes: ['807']
barrystokman commented 3 years ago

Workflows CG001 Microbial WGS and CG002 Microbial WGS are both archived.

mayabrandi commented 2 years ago

Hej! The script is being activly used in CG002 - Normalization of microbial samples as part of protocol Nextera Microbial WGS v4 in workflow Microbial WGS v6! So it can not be archived! It should be transfered to cg_lims though!

barrystokman commented 2 years ago

Good thing you checked, I missed that! :) I'll pick it up after https://github.com/Clinical-Genomics/cg_lims/issues/93 and https://github.com/Clinical-Genomics/cg_lims/issues/94

barrystokman commented 2 years ago

PR here: https://github.com/Clinical-Genomics/cg_lims/pull/133