Wed Nov 30 12:14:15 EST 2016 /media/jsboucher/CEAMS_database/UNF/TEST_16945 /usr/local/freesurfer/bin/recon-all -i TEST_Sleep_MEG_16945/02-MPRAGE/Sleep_MEG_16945-0001.dcm -s TEST_16945 -all subjid TEST_16945 setenv SUBJECTS_DIR /media/jsboucher/CEAMS_database/UNF FREESURFER_HOME /usr/local/freesurfer Actual FREESURFER_HOME /usr/local/freesurfer build-stamp.txt: freesurfer-Linux-centos4_x86_64-stable-pub-v5.3.0 Linux jmlina2 4.4.0-47-generic #68-Ubuntu SMP Wed Oct 26 19:39:52 UTC 2016 x86_64 x86_64 x86_64 GNU/Linux cputime unlimited filesize unlimited datasize unlimited stacksize 8192 kbytes coredumpsize 0 kbytes memoryuse unlimited vmemoryuse unlimited descriptors 1024 memorylocked 64 kbytes maxproc 128150 maxlocks unlimited maxsignal 128150 maxmessage 819200 maxnice 0 maxrtprio 0 maxrttime unlimited total used free shared buff/cache available Mem: 32846420 2169228 18918180 138684 11759012 30072912 Swap: 63999996 0 63999996 ######################################## program versions used $Id: recon-all,v 1.379.2.73 2013/05/12 23:15:37 nicks Exp $ $Id: mri_motion_correct.fsl,v 1.14 2011/03/02 20:16:39 nicks Exp $ mri_convert -all-info ProgramName: mri_convert ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:15-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 FLIRT version 5.5 $Id: talairach_avi,v 1.9 2011/03/02 18:38:06 nicks Exp $ mri_convert --version stable5 ProgramName: tkregister2_cmdl ProgramArguments: --all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:15-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: tkregister2.c,v 1.121.2.1 2011/03/28 20:25:16 greve Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 Program nu_correct, built from: Package MNI N3, version 1.10, compiled by nicks@minerva (x86_64-unknown-linux-gnu) on 2010-02-20 at 17:32:37 ProgramName: mri_make_uchar ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:15-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_make_uchar.c,v 1.4 2011/03/02 00:04:14 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_normalize ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:15-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_normalize.c,v 1.73.2.1 2012/10/17 19:11:32 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_watershed ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:16-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_watershed.cpp,v 1.96.2.1 2011/11/08 22:18:44 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_gcut ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:16-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_gcut.cpp,v 1.14 2011/03/02 00:04:16 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_segment ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:16-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_segment.c,v 1.40 2011/03/02 00:04:24 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_label2label ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:16-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_label2label.c,v 1.40.2.2 2013/04/02 16:26:15 greve Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_em_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:16-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_em_register.c,v 1.84.2.3 2013/02/09 00:49:26 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_ca_normalize ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:16-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_ca_normalize.c,v 1.52.2.2 2012/10/17 19:11:32 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_ca_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:16-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_ca_register.c,v 1.78.2.3 2013/02/09 00:42:20 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:16-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_ca_label.c,v 1.96.2.1 2012/08/28 22:11:20 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_pretess ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:16-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_pretess.c,v 1.20 2011/03/02 00:04:23 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_fill ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:16-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_fill.c,v 1.118 2011/03/16 21:23:49 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_tessellate ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:16-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_tessellate.c,v 1.36 2011/03/02 00:04:25 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_concatenate_lta ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:16-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_concatenate_lta.c,v 1.10 2011/03/16 21:23:48 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_normalize_tp2 ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:16-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_normalize_tp2.c,v 1.8 2011/03/02 00:04:23 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mris_smooth ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:16-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mris_smooth.c,v 1.28 2011/03/02 00:04:34 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mris_inflate ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:17-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mris_inflate.c,v 1.43 2011/03/02 00:04:32 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mris_curvature ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:17-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mris_curvature.c,v 1.31 2011/03/02 00:04:30 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mris_sphere ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:17-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mris_sphere.c,v 1.57 2011/03/02 00:04:34 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mris_fix_topology ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:17-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mris_fix_topology.c,v 1.48 2011/03/02 00:04:32 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mris_topo_fixer ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:17-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mris_topo_fixer.cpp,v 1.29 2011/03/02 00:04:34 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mris_ca_label ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:17-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mris_ca_label.c,v 1.35 2011/03/02 00:04:27 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mris_euler_number ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:17-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mris_euler_number.c,v 1.8.2.2 2013/01/14 22:40:07 greve Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mris_make_surfaces ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:17-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mris_make_surfaces.c,v 1.127.2.6 2013/05/12 22:28:01 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mris_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:17-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mris_register.c,v 1.59 2011/03/02 00:04:33 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mris_volmask ProgramArguments: --all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:17-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mris_volmask.cpp,v 1.25 2011/03/02 00:04:34 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mris_anatomical_stats ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:17-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mris_anatomical_stats.c,v 1.72 2011/03/02 00:04:26 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mrisp_paint ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:18-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mrisp_paint.c,v 1.11 2011/03/02 00:04:35 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mris_curvature_stats ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:18-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mris_curvature_stats.c,v 1.64 2011/03/02 00:04:30 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mris_calc ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:18-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mris_calc.c,v 1.37.2.8 2013/01/28 17:05:17 greve Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 $Id: mri_robust_register.cpp,v 1.52.2.3 2012/11/20 17:26:47 mreuter Exp $ ProgramName: mri_robust_register ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:18-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_robust_register.cpp,v 1.52.2.3 2012/11/20 17:26:47 mreuter Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 $Id: mri_robust_template.cpp,v 1.37.2.2 2012/10/10 19:59:06 mreuter Exp $ ProgramName: mri_robust_template ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:18-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_robust_template.cpp,v 1.37.2.2 2012/10/10 19:59:06 mreuter Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_and ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:18-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_and.c,v 1.4 2011/03/02 00:04:13 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_or ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:18-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_or.c,v 1.3 2011/03/02 00:04:13 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_fuse_segmentations ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:18-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_fuse_segmentations.c,v 1.8 2011/03/02 00:04:15 nicks Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ProgramName: mri_segstats ProgramArguments: -all-info ProgramVersion: $Name: stable5 $ TimeStamp: 2016/11/30-17:14:18-GMT BuildTimeStamp: May 13 2013 18:45:07 CVS: $Id: mri_segstats.c,v 1.75.2.9 2013/02/16 00:09:33 greve Exp $ User: jsboucher Machine: jmlina2 Platform: Linux PlatformVersion: 4.4.0-47-generic CompilerName: GCC CompilerVersion: 30400 ####################################### GCADIR /usr/local/freesurfer/average GCA RB_all_2008-03-26.gca GCASkull RB_all_withskull_2008-03-26.gca AvgCurvTif average.curvature.filled.buckner40.tif GCSDIR /usr/local/freesurfer/average GCS curvature.buckner40.filled.desikan_killiany.2010-03-25.gcs ####################################### /media/jsboucher/CEAMS_database/UNF/TEST_16945 mri_convert /media/jsboucher/CEAMS_database/UNF/TEST_Sleep_MEG_16945/02-MPRAGE/Sleep_MEG_16945-0001.dcm /media/jsboucher/CEAMS_database/UNF/TEST_16945/mri/orig/001.mgz mri_convert /media/jsboucher/CEAMS_database/UNF/TEST_Sleep_MEG_16945/02-MPRAGE/Sleep_MEG_16945-0001.dcm /media/jsboucher/CEAMS_database/UNF/TEST_16945/mri/orig/001.mgz $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ reading from /media/jsboucher/CEAMS_database/UNF/TEST_Sleep_MEG_16945/02-MPRAGE/Sleep_MEG_16945-0001.dcm... Getting Series No INFO: Found 178 files in /media/jsboucher/CEAMS_database/UNF/TEST_Sleep_MEG_16945/02-MPRAGE INFO: Scanning for Series Number 2 Scanning Directory INFO: found 176 files in series INFO: loading series header info. RunNo = 1 INFO: sorting. INFO: (240 256 176), nframes = 1, ismosaic=0 PE Dir ROW ROW AutoAlign matrix detected AutoAlign Matrix --------------------- 1.000 0.000 0.000 0.000; 0.000 1.000 0.000 0.000; 0.000 0.000 1.000 0.000; 0.000 0.000 0.000 1.000; FileName /media/jsboucher/CEAMS_database/UNF/TEST_Sleep_MEG_16945/02-MPRAGE/Sleep_MEG_16945-0001.dcm Identification NumarisVer syngo MR B17 ScannerModel TrioTim PatientName Sleep_MEG_16945 Date and time StudyDate 20141215 StudyTime 140221.546000 SeriesTime 141543.500000 AcqTime 140626.320000 Acquisition parameters PulseSeq *tfl3d1_ns Protocol MPRAGE PhEncDir ROW EchoNo 1 FlipAngle 9 EchoTime 2.91 InversionTime 900 RepetitionTime 2300 PhEncFOV 240 ReadoutFOV 256 Image information RunNo 1 SeriesNo 2 ImageNo 1 NImageRows 256 NImageCols 240 NFrames 1 SliceArraylSize 1 IsMosaic 0 ImgPos 86.7244 143.0871 131.8291 VolRes 1.0000 1.0000 1.0000 VolDim 240 256 176 Vc -0.0000 -1.0000 0.0000 Vr -0.0000 -0.0000 -1.0000 Vs -1.0000 -0.0000 0.0000 VolCenter -1.2756 23.0871 3.8291 TransferSyntaxUID 1.2.840.10008.1.2.1 UseSliceScaleFactor 0 (slice 0: 1) INFO: no Siemens slice order reversal detected (good!). TR=2300.00, TE=2.91, TI=900.00, flip angle=9.00 i_ras = (-0, -1, 0) j_ras = (-0, -0, -1) k_ras = (-1, -0, 0) writing to /media/jsboucher/CEAMS_database/UNF/TEST_16945/mri/orig/001.mgz... #-------------------------------------------- #@# MotionCor Wed Nov 30 12:14:31 EST 2016 Found 1 runs /media/jsboucher/CEAMS_database/UNF/TEST_16945/mri/orig/001.mgz Checking for (invalid) multi-frame inputs... WARNING: only one run found. This is OK, but motion correction cannot be performed on one run, so I'll copy the run to rawavg and continue. cp /media/jsboucher/CEAMS_database/UNF/TEST_16945/mri/orig/001.mgz /media/jsboucher/CEAMS_database/UNF/TEST_16945/mri/rawavg.mgz /media/jsboucher/CEAMS_database/UNF/TEST_16945 mri_convert /media/jsboucher/CEAMS_database/UNF/TEST_16945/mri/rawavg.mgz /media/jsboucher/CEAMS_database/UNF/TEST_16945/mri/orig.mgz --conform mri_convert /media/jsboucher/CEAMS_database/UNF/TEST_16945/mri/rawavg.mgz /media/jsboucher/CEAMS_database/UNF/TEST_16945/mri/orig.mgz --conform $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ reading from /media/jsboucher/CEAMS_database/UNF/TEST_16945/mri/rawavg.mgz... TR=2300.00, TE=2.91, TI=900.00, flip angle=9.00 i_ras = (-0, -1, 0) j_ras = (-0, -0, -1) k_ras = (-1, -0, 0) Original Data has (1, 1, 1) mm size and (240, 256, 176) voxels. Data is conformed to 1 mm size and 256 voxels for all directions changing data type from short to uchar (noscale = 0)... MRIchangeType: Building histogram Reslicing using trilinear interpolation writing to /media/jsboucher/CEAMS_database/UNF/TEST_16945/mri/orig.mgz... mri_add_xform_to_header -c /media/jsboucher/CEAMS_database/UNF/TEST_16945/mri/transforms/talairach.xfm /media/jsboucher/CEAMS_database/UNF/TEST_16945/mri/orig.mgz /media/jsboucher/CEAMS_database/UNF/TEST_16945/mri/orig.mgz INFO: extension is mgz #-------------------------------------------- #@# Talairach Wed Nov 30 12:14:38 EST 2016 /media/jsboucher/CEAMS_database/UNF/TEST_16945/mri mri_nu_correct.mni --n 1 --proto-iters 1000 --distance 50 --no-rescale --i orig.mgz --o orig_nu.mgz Linux jmlina2 4.4.0-47-generic #68-Ubuntu SMP Wed Oct 26 19:39:52 UTC 2016 x86_64 x86_64 x86_64 GNU/Linux recon-all -s TEST_16945 exited with ERRORS at Wed Nov 30 12:14:40 EST 2016 To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting