search

cedadev / padocc

Other
0 stars 0 forks source link

Getting Started Step 5: Assess pipeline results (rearrange syntax order in example) #35

Open efisher008 opened 2 months ago

efisher008 commented 2 months ago

When running the assess.py script to look at the general status of the pipeline for a group using the following command...

image

The command did not work unless the operation ('progress') was used directly after calling the script, like so: python assess.py progress <group>

Otherwise the following error message is returned: Unknown operation, not one of ['progress', 'blacklist', 'upgrade', 'summarise', 'display', 'cleanup', 'match', 'status_log']

This syntax change would also apply to the following example command for assessing the progress of a specific phase: python assess.py <group> progress -p scan -r <label_for_scan_subgroup> -W -> python assess.py progress <group> -p scan -r <label_for_scan_subgroup> -W

dwest77a commented 2 months ago

Good spot, another example of where the syntax changed but the docs have not kept up! Will keep this issue here so I'm aware the changes need to be made to the main branch.