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

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efisher008 opened this issue Jul 23, 2024 · 1 comment
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documentation Improvements or additions to documentation

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@efisher008
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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

@efisher008 efisher008 added the documentation Improvements or additions to documentation label Jul 23, 2024
@dwest77a
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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.

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