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mri_robust_template missing in docker #466

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bpinsard opened this issue Oct 9, 2024 · 0 comments
Open

mri_robust_template missing in docker #466

bpinsard opened this issue Oct 9, 2024 · 0 comments
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@bpinsard
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bpinsard commented Oct 9, 2024

What happened?

trying to run tests in the docker for #465 , it seems that mri_robust_template is not installed in the docker sdcflow image causing many tests to crash.

What command did you use?

`pytest`

What version of the software are you running?

latest

How are you running this software?

Docker

Is your data BIDS valid?

Yes

Are you reusing any previously computed results?

No

Please copy and paste any relevant log output.

Cmdline:
	mri_robust_template --satit --fixtp --mov /tmp/tmpwfawv8m2/test_syn/syn_preprocessing_wf/epi_reference_wf/clip_bg_noise/mapflow/_clip_bg_noise0/clipped.nii.gz /tmp/tmpwfawv8m2/test_syn/syn_preprocessing_wf/epi_reference_wf/clip_bg_noise/mapflow/_clip_bg_noise1/clipped.nii.gz --inittp 1 --iscale --noit --template mri_robust_template_out.mgz --subsample 200 --lta /tmp/tmpmli48vdw/test_syn/syn_preprocessing_wf/epi_reference_wf/epi_merge/tp1.lta /tmp/tmpmli48vdw/test_syn/syn_preprocessing_wf/epi_reference_wf/epi_merge/tp2.lta
Stdout:

Stderr:

Traceback:
	Traceback (most recent call last):
	 File "/opt/conda/envs/sdcflows/lib/python3.10/site-packages/nipype/interfaces/base/core.py", line 397, in run
	   runtime = self._run_interface(runtime)
	 File "/opt/conda/envs/sdcflows/lib/python3.10/site-packages/nipype/interfaces/base/core.py", line 752, in _run_interface
	   raise IOError(
	OSError: No command "mri_robust_template" found on host e3bd4741b029. Please check that the corresponding package is installed.

Additional information / screenshots

No response

@bpinsard bpinsard added the bug Something isn't working label Oct 9, 2024
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