Mishkin, Yes, mris_preproc is a wrapper script that calls mris_vol2surf, mris_surf2surf and mri_concat. You can view mris_preproc in a text editor.
In answer to 2a, in this case tester2.1.mgh should be the same as lh.thickness.fsaverage.mgh. In answer to 2b, one file is always 'concatenated', as mris_preproc is used by the -qcache. In other usages of mris_preproc, it is possible to concatnate multiple files. Nick On Tue, 2008-10-07 at 17:16 -0400, Mishkin Derakhshan wrote: > Hi, > I am trying to understand what happens when you run the recon-all > -qcache command > I noticed these three commands get run: > > mris_preproc --s tester2 --hemi lh --meas thickness --target fsaverage > --out lh.thickness.fsaverage.mgh > > mri_surf2surf --hemi lh --srcsubject tester2 --surfreg sphere.reg > --sval /lab1/FreeSurfer/4.0.5/ms-mni/testing/tester2/surf/lh.thickness > --sfmt curv --trgsubject fsaverage --tval > ./tmp.mris_preproc.12176/tester2.1.mgh --noreshape > > mri_concat ./tmp.mris_preproc.12176/tester2.1.mgh --o > lh.thickness.fsaverage.mgh > > My questions are: > 1. Am I right to assume that the first command (mris_preproc) is just > a wrapper script that calls the 2nd and 3rd commands? > 2a. In the case above, does the 3rd command (mri_concat) simply copy > the contents of tester2.1.mgh into lh.thickness.fsaverage.mgh. > 2b. Is there a case when mri_concat will actually concat more than one > thing into lh.thickness.fsaverage.mgh? > > thanks, > mishkin > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
