ajschadler12
ajschadler12
Apologies for bringing up a somewhat related issue. When generating an `ubuntu:xenial` image using the singularity.def file from neurodocker, when I get to this section of the file: ``` sed...
Here is a [full acquisition](https://drive.google.com/file/d/1bA-_kmzUhwjEyvugHFnEzqmaNClOJ3o9/view?usp=sharing). The scan is of myself, so I have no qualms with sharing. dcm2niix versions greater than v1.0.20211006 should support GE ABCD pepolar research sequences like...
The previous fix ([438b8a0](https://github.com/Donders-Institute/bidscoin/commit/438b8a085ef8b0f2b3a70a6db6f6e8d22cb7917b)) solved the issue of crashing. The fix you just submitted, [1d0f8f2](https://github.com/Donders-Institute/bidscoin/commit/1d0f8f255fd76b582e8d9f8831763c8d374c5199) unfortunately is causing a crash at the very end of the conversion: ``` Traceback (most...
That did it! Incidentally, when I tried just testing the fieldmap, bidsmapper recognized the sequence as a P-file instead of a DICOM. (if that is a bug, can open a...
I think it should be fine for now. Users can use bulk-rename utilities to change "Flipped" or "Unflipped" to the desired direction
I am having a similar issue. That is, when processing HCP-style scans (two identical multi-shell scans, reverse-PE), if the --distortion-group-merge average and --work-dir arguments are specified, the node `qsiprep_wf.single_subject_EPK246_wf.sub_EPK246_acq_multishell_final_merge_wf.distortion_merger` crashes,...
Although it's been over a year, I'd like to provide an answer. This might be a simple fix: try to provide an `acq-` label to your dwi file names. e.g....
> Which directory are you using from the working directory? I am pulling eddy outputs from a few folders in `//hmc_sdc_wf` `gather_inputs/` * eddy_index.txt * eddy_acqp.txt `topup/` * fieldmap_HZ.nii.gz `eddy/`...
> since qsiprep uses nipype, any files produced in the working directory that aren't used later in the pipeline get deleted. So it's possible that eddy writes a bunch of...
TractSeg is able to run this way for tract-segmentations and ending-segmentations, but fails for TOM. It tries to find the files in `${HOME}/.tractseg` instead of `$TRACTSEG_WEIGHTS_DIR`. Does this need to...