Hi Tommi and Chris, this is a known bug that has been fixed in dev (and upcoming 5.2). Can you use the dev version just for this cmd? doug
On 01/24/2013 12:14 PM, Chris McNorgan wrote:
Hi Tommi, The mkdir error suggests to me that there is some system-level permissions thing going on. If it can't make the directory, then there is no directory into which fsl can write the refvol.fslregister.nii files, hence the final 2 errors.
From the command line, are you able to navigate to directory:
/usr/pubsw/packages/fsl/current/data/standard/ And within that directory, execute: mkdir <somedirectoryname>
My guess is that you will get a permission denied error. You can try using chmod to make the directory writable: chmod ugo+w /usr/pubsw/packages/fsl/current/data/standard/ and see if you can now do a mkdir in that directory (you might have to be a superuser to do this)
Dear Surfers, mni152reg --$SUBJECT exits with the error: mkdir: cannot create directory `/usr/pubsw/packages/fsl/current/data/standard/tmp.fslregister.18402': Permission denied Thereafter, a couple consequential errors follow ... niiWrite(): error opening file /usr/pubsw/packages/fsl/current/data/standard/tmp.fslregister.18402/refvol.fslregister.nii ... ERROR: failure writing /usr/pubsw/packages/fsl/current/data/standard/tmp.fslregister.18402/refvol.fslregister.nii This is on FS 5.1.0 stable. The error seems linux box independent. Please let me know if you need further info. Thanks! Bests, Tommi-- Chris McNorgan Postdoctoral Researcher Developmental Cognitive Neuroscience Laboratory Northwestern University, Evanston, IL DCNL Lab:http://tinyurl.com/9q35abd Frontiers Profile:http://tinyurl.com/aut488k
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