Hi Doug, spatialsmooth-sess failed on the second run (out of 6 runs) with the output: ... ERROR: failure writing /tmp/ipfsl_19705/fmc.img as volume type 16 /autofs/space/cognito_021/users/raij/avml_fmri_mctogether/avml19_session_BRISI13_ISI1TR_BERT/bold mri_convert 005/fmc.bhdr /tmp/ipfsl_19705/fmc.img --out_type analyze4d ERROR: mri_convert failed ERROR: ipfsl failed
Two explanations come to mind: A. Each number has a different number of TRs. Does the ntrs value in the seq.info (inside bold dir) have to match the actual number of TRs in each run? I here tried to smooth all runs in one step... obviously this is not going to work if the ntrs value has to be correct. Should I process the runs one at a time with -fsd NNN and adjust the seq.info ntrs value between? B. The number of images was big = 666 / 1095 / 1741 per run (2 runs each size). Did the scratch disk or mri_convert run out of memory? *** Detailed problem report: *** on machine ai source /usr/local/freesurfer/nmr-dev-env setenv SUBJECTS_DIR /space/cognito/5/users/raij/subjects_mri cd /space/cognito/21/users/raij/avml_fmri_mctogether/avml19_session_BRISI13_ISI1TR_BERT which mc-sess /usr/local/freesurfer/dev/fsfast/bin/spatialsmooth-sess spatialsmooth-sess -sf sessid -df sesspar -fwhm 6 -i fmc -o ifmcsm6 ------------------------------------------------ ------------------------------------------------ /autofs/space/cognito_021/users/raij/avml_fmri_mctogether/avml19_session_BRISI13_ISI1TR_BERT Tue Feb 28 18:50:28 EST 2006 /autofs/space/cognito_021/users/raij/avml_fmri_mctogether/avml19_session_BRISI13_ISI1TR_BERT/bold /space/cognito/21/users/raij/avml_fmri_mctogether/avml19_session_BRISI13_ISI1TR_BERT RunList 004 005 006 009 010 011 ---------------------------------------------- /autofs/space/cognito_021/users/raij/avml_fmri_mctogether/avml19_session_BRISI13_ISI1TR_BERT/bold ... Notice that I am using the building 120 "cognito" installation where: /usr/local/feeesurfer = /space/cognito/24/opt/freesurfer/centos4.0 Thanks, Tommi _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
