The Apps created as part of the MEEG Brainlife project are supposed to be run one after another (see How to run Apps one after another). Thus the output of an App will be the input of another.
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app-bad-channels:no optional files present in file mappingapp-maxfilter: no optional files listes in file mapping
Result: it works fine
Second attempt
app-bad-channels: optional files present in file mappingapp-maxfilter: optional files present in file mapping
Result: app-bad-channels works but app-maxfilter failed:
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OSError: trans file "../60618e5b750389e448ebecd7/out_dir_bad_channels/destination.fif" not found |
The optional file is indeed not in out_dir_bad_channels.
Indeed, the app-maxfilter takes in input the files corresponding to the datatype meg/fif present in out_dir_bad_channels, but here only meg.fif is in this folder.
How to address this issue
The only way to solve this issue is to save in the output directory the files you want to use as optional inputs of the next App. So here, the destination file must be saved in outdirout_dir_bad_channels.
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To do so, we add the following line to the helper.py (see Create a helper.py file) for each optional file:
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shutil.copy2(calibration_file, 'out_dir_bad_channels/calibration_meg.dat') |