Thanks for your reply Bruce. I used: export SUBJECTS_DIR=/study/NCCAM/Data/MRI/processed/structural/freesurfer/
make_average_subject --out average --fsgd mnp_ltm_v2.fsgd On Sun, Feb 12, 2012 at 5:16 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu>wrote: > can you give us the command line you used? And what the SUBJECTS env > variable was (if you used it)? > > > On Sun, 12 Feb 2012, Martina Ly wrote: > > Dear freesurfers, I am coming across an error in the beginning of >> make_average_volume of make_average_subject where mri_convert fails. >> make_average_surface finished without a problem so hopefully that part >> will >> not need to be re-run. I've check permissions, cpu space, paths but >> couldn't >> find anything... Any help/suggestions would greatly appreciated. Below is >> the error message: >> >> INFO: Applying transformation from file/study/NCCAM/Data/MRI/** >> processed/structural/**freesurfer//WB101_1//mri/**transfo >> rms/talairach.xfm... >> ------------------------------**--- >> INFO: Transform Matrix (linear_ras_to_ras) >> 1.156 0.062 0.028 -2.110; >> -0.102 1.113 0.318 -31.524; >> -0.029 -0.322 1.218 4.598; >> 0.000 0.000 0.000 1.000; >> INFO: Transform dst volume info is not used (valid flag = 0). >> INFO: assumes that the dst volume given is the same as the dst for the >> transform >> mghWrite(/study/NCCAM/Data/**MRI/processed/structural/** >> freesurfer//average/tmp >> /make_average_vol-tmp-2117/**orig-WB101_1/.mgh, -1): could not open file >> ------------------------------**--- >> Applying LTAtransformInterp (resample_type 1) >> writing to/study/NCCAM/Data/MRI/**processed/structural/** >> freesurfer//average/tmp/make_**ave >> rage_vol-tmp-2117/orig-WB101_**1/.mgh... >> ERROR: failure writing/study/NCCAM/Data/MRI/**processed/structural/** >> freesurfer//average/tmp/make_**ave >> rage_vol-tmp-2117/orig-WB101_**1/.mgh >> /study2/NCCAM/Data/MRI/**processed/structural/**freesurfer >> ERROR: mri_convert failed. >> >> Many thanks in advance, >> Martina >> >> >> >> > > 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<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. >
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