[WIP] Update group target #64
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- add additional group target rule in Snakefile
- rule still outputs all of the expected files from subject, changed
the expected output table
- target rule comines all individual csvs to a single file
- updated concat_subj_csv rule in tables.smk
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This (WIP) PR updates the workflow to make use of the
concat_subj_csvrule intables.smk, updating the expected input and output files, as well as update the target group rule by adding aget_group_tables()function to create a concatenated, metric-specific table. Additionally, a python script is run at the target rule to combine the concatenated tables into a single, combined table.The one issue currently is if the
grouptarget rule is run without first running the workflow again with--touch, it will rerun rules within the workflow again trying to update the input files. This only occurs if the workflow is submitted to the slurm scheduler - was not needed in interactive testing of the workflow.