infantFS recon error due to "bc" not found
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madisoth commented
What happened?
Similar issue to nipreps/fmriprep#3015 , recon failed due to "bc" not being found.
What command did you use?
/opt/conda/envs/nibabies/bin/nibabies /bids_dir /output_dir participant --project-goodvoxels --omp-nthreads 3 --resource-monitor --cifti-output 91k -vv -w /work --fd-radius 35 --derivatives /derivatives --age-months 1 --participant-label XXXXX
What version of NiBabies are you using?
23.1.0rc0, 23.2.0.dev19+gb6838ef (t1-t2-derivatives branch)
Relevant log output
infant-dev-4a14499
--inniftyreg: mri/transforms/sub-XXXXXX.2.common.txt input Nifty Reg transform.
--outlta: mri/transforms/sub-XXXXXX.2.common.lta output LTA.
--outmni: mri/transforms/sub-XXXXXX.2.common.xfm output MNI/XFM matrix.
--src: mri/norm.nii.gz src image (geometry).
--trg: /opt/freesurfer/average/all_c_robtemplate_affine_mean.05.01.2018.nii.gz trg image (geometry).
LTA read, type : 1
0.87655 0.13197 0.08133 -6.39374;
-0.16363 0.87011 0.11022 27.20382;
-0.09492 -0.06213 0.89233 12.74147;
0.00000 0.00000 0.00000 1.00000;
Writing LTA to file mri/transforms/sub-XXXXXX.2.common.lta...
lta_convert successful.
Stderr:
bc: Command not found.
Traceback:
RuntimeError: subprocess exited with code 1.
Add any additional information or context about the problem here.
No response