Run cwas pipeline with cpac with already preprocessed fMRI data

Sure!

cd ~/group_analysis/tmp/cpac_group_analysis/MDMR/cpac_cpac-default-pipeline/MDMR_ses-1/
ls
cwas_batch cwas_batches cwas_volumes d3.js graph1.json graph.json index.html joint_mask
cd cwas_volumes/
ls
_0x55f3d5b8ffefe83dad2ad5e523584131.json _node.pklz p_significance_volume.nii.gz zstat.nii.gz
_inputs.pklz one_minus_p_values.nii.gz _report
neglog_p_significance_volume.nii.gz pseudo_F_volume.nii.gz result_cwas_volumes.pklz

Yes, I was using v1.8.4, which was the latest version at that time, and could be found in the config.file.