I suspect that your subject directory/file names will match some pattern. You can use combination of a loop and shell "ls" command to cycle through all the subjects matching provided pattern. For example if you have data in directories you would do something line this:

#!/bin/tcsh

cd /path/to/native/files

for x in `ls -dA1 name_pattern_*`; do mkdir -p $SUBJECTS_DIR/${x}/mri/orig $FREESURFER_HOME/bin/mri_convert ${x}.nii.gz $SUBJECTS_DIR/${x}/mri/orig/001.mgz done

If all files are in the same directory substitute '-dA1' for "-A1" and it should work. Note this assumes that you have nifti files, for DICOM you will need to modify it further.

Cheers,

Jacek

2011/7/15 汪贵宏 wgh0805@126.com:

Hi Bruce,

In our research,if there are 100 subjects,how can I  process these data easily.For example，when I want to compare their thickness's difference，at first，I should do " mri_convert  bert.nii bert.nii.gz",but when there are too many subjects,is there a way to do all of these 100 subjects at the same time?

Many thanks,  Wang

---

Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.