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Hi - I think your plan should be fine; let me know if there's any problem with it. The "feat" command line script will run feat_model to create all the other files derived from design.fsf so you should be fine. Cheers. On 10 Jul 2007, at 01:17, Martin M Monti wrote: > Dear FSL gurus, > > I have a few quick questions about scripting with FSL, especially > FEAT. > > I (obviously) run the same first level analysis on multiple > subjects. The only difference across runs and subjects typically is > functional files input (and their name, of course) and EV files > (each sub/run has a different random order of the tasks). > > It's simple enough to create one "master" .fsf file --typically > from the GUI, open it in some text editor and run a "replace" to > change the folder names, functional and anatomical data-in files > and the regressor file names. Functional files, though, have > different number of TRs both across runs of a single sub and across > subjects. > > Of course I can set the number in each .fsf file manually, for each > subject/run, what I'd like to know is if it is necessary to do this > or whether FEAT (NOT the GUI though, the command line) will verify > the number of TRs in each input-file as it starts-up runs or > whether it will "believe" the number of TRs specified in the .fsf > file. > > Following up on that, say that I do all of the above: > - create on e "master" .fsf file using the GUI with one of my subjects > - replace, in some text editor, filenames and # of TRs and > create .fsf files for all of the remaining subjects > > is there any necessity of opening the file in the GUI and saving it > from there prior to submitting it via the command line (i.e. feat > Sub1_run1.fsf ), except for the fact that it will nicely help me > detect missing/incorrect files should there be any? (for example, > do I need all the additional files to be created beforehand?) > > all the best > > martin > > > "I've often seen a Cat without a Grin, but a Grin without a Cat! > It's the most curious thing I ever saw in all my Life!", thought > Alice. > > -------------------------------------------- > Martin M. Monti, PhD > Princeton University > Department of Psychology > Green Hall 3-S-8 > (609) 258-5679 > www.webmartin.net > -------------------------------------------- ------------------------------------------------------------------------ --- Stephen M. Smith, Professor of Biomedical Engineering Associate Director, Oxford University FMRIB Centre FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK +44 (0) 1865 222726 (fax 222717) [log in to unmask] http://www.fmrib.ox.ac.uk/~steve ------------------------------------------------------------------------ ---