map_mice_data#

qx_mice.process_mice.map_mice_data(sinfo, options, overwrite=False, thread=0)#

map_mice_data [... processing options]

Runs the command to prepare a QuNex study for mice preprocessing.

Warning

Preprocessed mica data is required.

Parameters

--batchfile (str, default ''):: The batch.txt file with all the sessions information.
--sessionsfolder (str, default '.'):: The path to the study/sessions folder, where the imaging data is supposed to go.
--bolds (str, default ''):: Which bold images to process. You can select bolds through their number, name or task (e.g. rest), you can chain multiple conditions together by providing a comma separated list.
--parsessions (int, default 1):: How many sessions to run in parallel.
--parelements (int, default 1):: How many elements (e.g. bolds) to run in parallel.
--overwrite (str, default 'no'):: Whether to overwrite target files that already exist (yes) or not (no).
--logfolder (str, default ''):: The path to the folder where runlogs and comlogs are to be stored, if other than default.
--log (str, default 'keep'):: Whether to keep ('keep') or remove ('remove') the temporary logs once jobs are completed. When a comma or pipe ('|') separated list is given, the log will be created at the first provided location and then linked or copied to other locations. The valid locations are:

Output files

The results of this step will be present in the functional folder in the sessions's root:

study
└─ sessions
├─ session1
|  └─ functional
└─ session2
    └─ functional

Examples

qunex map_mice_data \
  --sessionsfolder="/data/mice_study/sessions" \
  --sessions="/data/mice_study/processsing/batch.txt"

QuNex documentation