help > RE: missing BATCH.Setup.preprocessing.sliceorder in conn_batch_humanconnectomeproject.m?
Mar 9, 2018  09:03 AM | Kristin Flegal - University of Glasgow
RE: missing BATCH.Setup.preprocessing.sliceorder in conn_batch_humanconnectomeproject.m?
Dear Alfonso,

I have a related question, but for data that I do want to fully preprocess via a CONN batch script.  Like the HCP dataset, my data were acquired with a multiband sequence and short TR, so I wish to skip the slice timing correction step but otherwise apply batch.Setup.preprocessing.steps='default_mni'.

Can you advise what code to include in a batch script file to directly set the batch.Setup.preprocessing.sliceorder field to 'do not know (skip slice timing correction)'?

I have tried
batch.Setup.preprocessing.sliceorder={}
but that causes the GUI dialog box to pop up.

I have also tried
batch.Setup.preprocessing.sliceorder='do not know (skip slice timing correction)'
but that prompts a "Warning: incorrect sliceorder name" error, and then causes the GUI dialog box to pop up. 

Thank you,
Kristin
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RE: missing BATCH.Setup.preprocessing.sliceorder in conn_batch_humanconnectomeproject.m?
Mar 9, 2018