fieldmap for BOLD file not found even though it is present about hcppipelines HOT 4 OPEN

On Fri, Jan 14, 2022 at 4:37 PM rmldj ***@***.***> wrote: I did some sleuthing on the command line using BIDSLayout. It seems that the problem is in https://github.com/BIDS-Apps/HCPPipelines/blob/master/run.py#L416 The fieldmap_set that I get is [{'epi': '/opt/romuald/SR/fMRI_data/sub-121c/fmap/sub-121c_dir-PA_epi.nii.gz', 'suffix': 'epi'}, {'phasediff': '/opt/romuald/SR/fMRI_data/sub-121c/fmap/sub-121c_phasediff.nii.gz', 'magnitude1': '/opt/romuald/SR/fMRI_data/sub-121c/fmap/sub-121c_magnitude1.nii.gz', 'suffix': 'phasediff', 'magnitude2': '/opt/romuald/SR/fMRI_data/sub-121c/fmap/sub-121c_magnitude2.nii.gz'}] hence the following condition fails: all(item["suffix"] == "epi" for item in fieldmap_set) However, if I would erase the phasediff and magnitude files it would still not work as it would fail the condition len(fieldmap_set) == 2 So it seems that the code expects two have *two* epi fieldmaps, while I have only one? Is it true? Does that mean that the data is incomplete and I should be using auto processing mode here? (I have a T2w image) — Reply to this email directly, view it on GitHub <#73 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AARMKWYA4SMIXC34PIZUJPLUWCJSLANCNFSM5L7C4MNQ> . Triage notifications on the go with GitHub Mobile for iOS <https://apps.apple.com/app/apple-store/id1477376905?ct=notification-email&mt=8&pt=524675> or Android <https://play.google.com/store/apps/details?id=com.github.android&referrer=utm_campaign%3Dnotification-email%26utm_medium%3Demail%26utm_source%3Dgithub>. You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>