dpat@Saci:/Volumes/Main/Working/BIDS_TESTING% docker run -ti --rm -v /Volumes/Main/Working/BIDS_TESTING/ds005:/bids_dataset:ro -v /Volumes/Main/Working/BIDS_TESTING/outputs:/outputs bids/freesurfer /bids_dataset /outputs participant --license_file "license.txt"

1: You should define 'SliceTiming' for this file. If you don't provide this information slice time correction will not be possible. (code: 13 - SLICE_TIMING_NOT_DEFINED)

/sub-01/func/sub-01_task-mixedgamblestask_run-01_bold.nii.gz

/sub-01/func/sub-01_task-mixedgamblestask_run-02_bold.nii.gz

/sub-01/func/sub-01_task-mixedgamblestask_run-03_bold.nii.gz

/sub-02/func/sub-02_task-mixedgamblestask_run-01_bold.nii.gz

/sub-02/func/sub-02_task-mixedgamblestask_run-02_bold.nii.gz

/sub-02/func/sub-02_task-mixedgamblestask_run-03_bold.nii.gz

/sub-03/func/sub-03_task-mixedgamblestask_run-01_bold.nii.gz

/sub-03/func/sub-03_task-mixedgamblestask_run-02_bold.nii.gz

/sub-03/func/sub-03_task-mixedgamblestask_run-03_bold.nii.gz

/sub-04/func/sub-04_task-mixedgamblestask_run-01_bold.nii.gz

... and 38 more files having this issue (Use --verbose to see them all).

        Summary:                 Available Tasks:          Available Modalities:

        133 Files, 1.77GB        mixed-gambles task        T1w

        16 - Subjects                                      inplaneT2

        1 - Session                                        bold

Traceback (most recent call last):

  File "/run.py", line 165, in <module>

    raise Exception("Provided license file does not exist")

===========

If I provide the full path to the license file, it still fails: 

docker run -ti --rm -v /Volumes/Main/Working/BIDS_TESTING/ds005:/bids_dataset:ro -v /Volumes/Main/Working/BIDS_TESTING/outputs:/outputs bids/freesurfer /bids_dataset /outputs participant --license_file "/Volumes/Main/Working/BIDS_TESTING/license.txt"

Suggestions?  How do I tell freesurfer where the license file is?

Thanks so much,

Dianne