Re: [Freesurfer] Selxavg3-sess Looking for (and can't find) "fmc.sm0"

18 Apr 2017

      Can you send the contents of glm_double_all_ps_0/analysis.info ?
On 4/17/17 4:44 PM, Taylor, Johnmark wrote:
...
Apologies for delayed response--here is the full terminal output. 
(error in bold)

selxavg3-sess logfile is 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/scripts/glm/log/selxavg3-sess-bold-glm_double_all_ps_0-170417150715.log

preproc-sess -s 170322_xu_binding01_sub01 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-a glm_double_all_ps_0 -nolog
preproc-sess logfile is /dev/null
$Id: preproc-sess,v 1.45.2.3 2013/01/22 22:09:10 greve Exp $
jtaylor
setenv FREESURFER_HOME /ncf/nrg/sw/apps/freesurfer/5.3.0
setenv SUBJECTS_DIR /ncf/vcn/jtaylor/mri-space/subjects
Linux ncf2705.rc.fas.harvard.edu http://ncf2705.rc.fas.harvard.edu 
2.6.32-642.6.2.el6.x86_64 #1 SMP Wed Oct 26 06:52:09 UTC 2016 x86_64 
x86_64 x86_64 GNU/Linux
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/scripts/glm
/ncf/vcn/jtaylor/programs/batch_edits/preproc-sess
-s 170322_xu_binding01_sub01 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-a glm_double_all_ps_0 -nolog
Mon Apr 17 15:07:18 EDT 2017
instem   f
mc   1     f fmc
stc  0     fmc
sm   0 fmc
mask 1   brain
170322_xu_binding01_sub01 Template -----------------------------
mktemplate-sess -s 170322_xu_binding01_sub01 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -rlf runlist_double.txt -nolog -update
Session: 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170322_xu_binding01_sub01

Mon Apr 17 15:07:18 EDT 2017
Detected input format at nii.gz
170322_xu_binding01_sub01 Update not needed
  Run: 008 ----------------
  Mon Apr 17 15:07:19 EDT 2017
  170322_xu_binding01_sub01 008 Update not needed
  Run: 010 ----------------
  Mon Apr 17 15:07:19 EDT 2017
  170322_xu_binding01_sub01 010 Update not needed
  Run: 012 ----------------
  Mon Apr 17 15:07:19 EDT 2017
  170322_xu_binding01_sub01 012 Update not needed
  Run: 020 ----------------
  Mon Apr 17 15:07:19 EDT 2017
  170322_xu_binding01_sub01 020 Update not needed
  Run: 022 ----------------
  Mon Apr 17 15:07:19 EDT 2017
  170322_xu_binding01_sub01 022 Update not needed
  Run: 024 ----------------
  Mon Apr 17 15:07:19 EDT 2017
  170322_xu_binding01_sub01 024 Update not needed
  Run: 034 ----------------
  Mon Apr 17 15:07:19 EDT 2017
  170322_xu_binding01_sub01 034 Update not needed
  Run: 036 ----------------
  Mon Apr 17 15:07:19 EDT 2017
  170322_xu_binding01_sub01 036 Update not needed
  Run: 038 ----------------
  Mon Apr 17 15:07:19 EDT 2017
  170322_xu_binding01_sub01 038 Update not needed
  Run: 046 ----------------
  Mon Apr 17 15:07:19 EDT 2017
  170322_xu_binding01_sub01 046 Update not needed
  Run: 048 ----------------
  Mon Apr 17 15:07:19 EDT 2017
  170322_xu_binding01_sub01 048 Update not needed
  Run: 050 ----------------
  Mon Apr 17 15:07:19 EDT 2017
  170322_xu_binding01_sub01 050 Update not needed
Mon Apr 17 15:07:19 EDT 2017
mktemplate-sess completed
170322_xu_binding01_sub01 Mask ------------------------
mkbrainmask-sess -maskstem brain -fsd bold -s 
170322_xu_binding01_sub01 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-rlf runlist_double.txt -nolog -update
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170322_xu_binding01_sub01
Mon Apr 17 15:07:19 EDT 2017
170322_xu_binding01_sub01 Update not needed for session-level mask
170322_xu_binding01_sub01 Update not needed for run 008 mask
170322_xu_binding01_sub01 Update not needed for run 008 meanval
170322_xu_binding01_sub01 Update not needed for run 010 mask
170322_xu_binding01_sub01 Update not needed for run 010 meanval
170322_xu_binding01_sub01 Update not needed for run 012 mask
170322_xu_binding01_sub01 Update not needed for run 012 meanval
170322_xu_binding01_sub01 Update not needed for run 020 mask
170322_xu_binding01_sub01 Update not needed for run 020 meanval
170322_xu_binding01_sub01 Update not needed for run 022 mask
170322_xu_binding01_sub01 Update not needed for run 022 meanval
170322_xu_binding01_sub01 Update not needed for run 024 mask
170322_xu_binding01_sub01 Update not needed for run 024 meanval
170322_xu_binding01_sub01 Update not needed for run 034 mask
170322_xu_binding01_sub01 Update not needed for run 034 meanval
170322_xu_binding01_sub01 Update not needed for run 036 mask
170322_xu_binding01_sub01 Update not needed for run 036 meanval
170322_xu_binding01_sub01 Update not needed for run 038 mask
170322_xu_binding01_sub01 Update not needed for run 038 meanval
170322_xu_binding01_sub01 Update not needed for run 046 mask
170322_xu_binding01_sub01 Update not needed for run 046 meanval
170322_xu_binding01_sub01 Update not needed for run 048 mask
170322_xu_binding01_sub01 Update not needed for run 048 meanval
170322_xu_binding01_sub01 Update not needed for run 050 mask
170322_xu_binding01_sub01 Update not needed for run 050 meanval
Mon Apr 17 15:07:21 EDT 2017
mkbrainmask-sess done
170322_xu_binding01_sub01 Registration -----------------------------
register-sess -s 170322_xu_binding01_sub01 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-fsd bold -dof 6 -rlf runlist_double.txt -per-session -nolog -update
register-sess logfile is /dev/null
Mon Apr 17 15:07:22 EDT 2017
setenv SUBJECTS_DIR /ncf/vcn/jtaylor/mri-space/subjects
cd 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/scripts/glm
/ncf/nrg/sw/apps/freesurfer/5.3.0/fsfast/bin/register-sess -s 
170322_xu_binding01_sub01 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -dof 6 -rlf runlist_double.txt -per-session -nolog -update
freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
Linux ncf2705.rc.fas.harvard.edu http://ncf2705.rc.fas.harvard.edu 
2.6.32-642.6.2.el6.x86_64 #1 SMP Wed Oct 26 06:52:09 UTC 2016 x86_64 
x86_64 x86_64 GNU/Linux
Session: 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170322_xu_binding01_sub01

Mon Apr 17 15:07:22 EDT 2017
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170322_xu_binding01_sub01
Mon Apr 17 15:07:22 EDT 2017
register-sess completed
170322_xu_binding01_sub01 MC -----------------------------
mc-sess -fstem f -fmcstem fmc -s 170322_xu_binding01_sub01 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -rlf runlist_double.txt -per-session -nolog -update
Logfile is /dev/null

/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170322_xu_binding01_sub01
RunList: 008 010 012 020 022 024 034 036 038 046 048 050
170322_xu_binding01_sub01 008 Update not needed
170322_xu_binding01_sub01 010 Update not needed
170322_xu_binding01_sub01 012 Update not needed
170322_xu_binding01_sub01 020 Update not needed
170322_xu_binding01_sub01 022 Update not needed
170322_xu_binding01_sub01 024 Update not needed
170322_xu_binding01_sub01 034 Update not needed
170322_xu_binding01_sub01 036 Update not needed
170322_xu_binding01_sub01 038 Update not needed
170322_xu_binding01_sub01 046 Update not needed
170322_xu_binding01_sub01 048 Update not needed
170322_xu_binding01_sub01 050 Update not needed
Mon Apr 17 15:07:22 EDT 2017
mc-sess completed SUCCESSFULLY

Started at Mon Apr 17 15:07:18 EDT 2017
Ended   at Mon Apr 17 15:07:22 EDT 2017
preproc-sess done
preproc-sess -s 170329_xu_binding01_sub02 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-a glm_double_all_ps_0 -nolog
preproc-sess logfile is /dev/null
$Id: preproc-sess,v 1.45.2.3 2013/01/22 22:09:10 greve Exp $
jtaylor
setenv FREESURFER_HOME /ncf/nrg/sw/apps/freesurfer/5.3.0
setenv SUBJECTS_DIR /ncf/vcn/jtaylor/mri-space/subjects
Linux ncf2705.rc.fas.harvard.edu http://ncf2705.rc.fas.harvard.edu 
2.6.32-642.6.2.el6.x86_64 #1 SMP Wed Oct 26 06:52:09 UTC 2016 x86_64 
x86_64 x86_64 GNU/Linux
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/scripts/glm
/ncf/vcn/jtaylor/programs/batch_edits/preproc-sess
-s 170329_xu_binding01_sub02 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-a glm_double_all_ps_0 -nolog
Mon Apr 17 15:07:23 EDT 2017
instem   f
mc   1     f fmc
stc  0     fmc
sm   0 fmc
mask 1   brain
170329_xu_binding01_sub02 Template -----------------------------
mktemplate-sess -s 170329_xu_binding01_sub02 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -rlf runlist_double.txt -nolog -update
Session: 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170329_xu_binding01_sub02

Mon Apr 17 15:07:23 EDT 2017
Detected input format at nii.gz
170329_xu_binding01_sub02 Update not needed
  Run: 014 ----------------
  Mon Apr 17 15:07:23 EDT 2017
  170329_xu_binding01_sub02 014 Update not needed
  Run: 016 ----------------
  Mon Apr 17 15:07:23 EDT 2017
  170329_xu_binding01_sub02 016 Update not needed
  Run: 018 ----------------
  Mon Apr 17 15:07:23 EDT 2017
  170329_xu_binding01_sub02 018 Update not needed
  Run: 026 ----------------
  Mon Apr 17 15:07:23 EDT 2017
  170329_xu_binding01_sub02 026 Update not needed
  Run: 028 ----------------
  Mon Apr 17 15:07:23 EDT 2017
  170329_xu_binding01_sub02 028 Update not needed
  Run: 030 ----------------
  Mon Apr 17 15:07:24 EDT 2017
  170329_xu_binding01_sub02 030 Update not needed
  Run: 040 ----------------
  Mon Apr 17 15:07:24 EDT 2017
  170329_xu_binding01_sub02 040 Update not needed
  Run: 042 ----------------
  Mon Apr 17 15:07:24 EDT 2017
  170329_xu_binding01_sub02 042 Update not needed
  Run: 044 ----------------
  Mon Apr 17 15:07:24 EDT 2017
  170329_xu_binding01_sub02 044 Update not needed
  Run: 052 ----------------
  Mon Apr 17 15:07:24 EDT 2017
  170329_xu_binding01_sub02 052 Update not needed
  Run: 054 ----------------
  Mon Apr 17 15:07:24 EDT 2017
  170329_xu_binding01_sub02 054 Update not needed
  Run: 056 ----------------
  Mon Apr 17 15:07:24 EDT 2017
  170329_xu_binding01_sub02 056 Update not needed
Mon Apr 17 15:07:24 EDT 2017
mktemplate-sess completed
170329_xu_binding01_sub02 Mask ------------------------
mkbrainmask-sess -maskstem brain -fsd bold -s 
170329_xu_binding01_sub02 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-rlf runlist_double.txt -nolog -update
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170329_xu_binding01_sub02
Mon Apr 17 15:07:24 EDT 2017
170329_xu_binding01_sub02 Update not needed for session-level mask
170329_xu_binding01_sub02 Update not needed for run 014 mask
170329_xu_binding01_sub02 Update not needed for run 014 meanval
170329_xu_binding01_sub02 Update not needed for run 016 mask
170329_xu_binding01_sub02 Update not needed for run 016 meanval
170329_xu_binding01_sub02 Update not needed for run 018 mask
170329_xu_binding01_sub02 Update not needed for run 018 meanval
170329_xu_binding01_sub02 Update not needed for run 026 mask
170329_xu_binding01_sub02 Update not needed for run 026 meanval
170329_xu_binding01_sub02 Update not needed for run 028 mask
170329_xu_binding01_sub02 Update not needed for run 028 meanval
170329_xu_binding01_sub02 Update not needed for run 030 mask
170329_xu_binding01_sub02 Update not needed for run 030 meanval
170329_xu_binding01_sub02 Update not needed for run 040 mask
170329_xu_binding01_sub02 Update not needed for run 040 meanval
170329_xu_binding01_sub02 Update not needed for run 042 mask
170329_xu_binding01_sub02 Update not needed for run 042 meanval
170329_xu_binding01_sub02 Update not needed for run 044 mask
170329_xu_binding01_sub02 Update not needed for run 044 meanval
170329_xu_binding01_sub02 Update not needed for run 052 mask
170329_xu_binding01_sub02 Update not needed for run 052 meanval
170329_xu_binding01_sub02 Update not needed for run 054 mask
170329_xu_binding01_sub02 Update not needed for run 054 meanval
170329_xu_binding01_sub02 Update not needed for run 056 mask
170329_xu_binding01_sub02 Update not needed for run 056 meanval
Mon Apr 17 15:07:27 EDT 2017
mkbrainmask-sess done
170329_xu_binding01_sub02 Registration -----------------------------
register-sess -s 170329_xu_binding01_sub02 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-fsd bold -dof 6 -rlf runlist_double.txt -per-session -nolog -update
register-sess logfile is /dev/null
Mon Apr 17 15:07:27 EDT 2017
setenv SUBJECTS_DIR /ncf/vcn/jtaylor/mri-space/subjects
cd 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/scripts/glm
/ncf/nrg/sw/apps/freesurfer/5.3.0/fsfast/bin/register-sess -s 
170329_xu_binding01_sub02 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -dof 6 -rlf runlist_double.txt -per-session -nolog -update
freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
Linux ncf2705.rc.fas.harvard.edu http://ncf2705.rc.fas.harvard.edu 
2.6.32-642.6.2.el6.x86_64 #1 SMP Wed Oct 26 06:52:09 UTC 2016 x86_64 
x86_64 x86_64 GNU/Linux
Session: 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170329_xu_binding01_sub02

Mon Apr 17 15:07:27 EDT 2017
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170329_xu_binding01_sub02
Mon Apr 17 15:07:27 EDT 2017
register-sess completed
170329_xu_binding01_sub02 MC -----------------------------
mc-sess -fstem f -fmcstem fmc -s 170329_xu_binding01_sub02 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -rlf runlist_double.txt -per-session -nolog -update
Logfile is /dev/null

/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170329_xu_binding01_sub02
RunList: 014 016 018 026 028 030 040 042 044 052 054 056
170329_xu_binding01_sub02 014 Update not needed
170329_xu_binding01_sub02 016 Update not needed
170329_xu_binding01_sub02 018 Update not needed
170329_xu_binding01_sub02 026 Update not needed
170329_xu_binding01_sub02 028 Update not needed
170329_xu_binding01_sub02 030 Update not needed
170329_xu_binding01_sub02 040 Update not needed
170329_xu_binding01_sub02 042 Update not needed
170329_xu_binding01_sub02 044 Update not needed
170329_xu_binding01_sub02 052 Update not needed
170329_xu_binding01_sub02 054 Update not needed
170329_xu_binding01_sub02 056 Update not needed
Mon Apr 17 15:07:28 EDT 2017
mc-sess completed SUCCESSFULLY

Started at Mon Apr 17 15:07:23 EDT 2017
Ended   at Mon Apr 17 15:07:28 EDT 2017
preproc-sess done
preproc-sess -s 170402_xu_binding01_sub03 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-a glm_double_all_ps_0 -nolog
preproc-sess logfile is /dev/null
$Id: preproc-sess,v 1.45.2.3 2013/01/22 22:09:10 greve Exp $
jtaylor
setenv FREESURFER_HOME /ncf/nrg/sw/apps/freesurfer/5.3.0
setenv SUBJECTS_DIR /ncf/vcn/jtaylor/mri-space/subjects
Linux ncf2705.rc.fas.harvard.edu http://ncf2705.rc.fas.harvard.edu 
2.6.32-642.6.2.el6.x86_64 #1 SMP Wed Oct 26 06:52:09 UTC 2016 x86_64 
x86_64 x86_64 GNU/Linux
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/scripts/glm
/ncf/vcn/jtaylor/programs/batch_edits/preproc-sess
-s 170402_xu_binding01_sub03 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-a glm_double_all_ps_0 -nolog
Mon Apr 17 15:07:28 EDT 2017
instem   f
mc   1     f fmc
stc  0     fmc
sm   0 fmc
mask 1   brain
170402_xu_binding01_sub03 Template -----------------------------
mktemplate-sess -s 170402_xu_binding01_sub03 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -rlf runlist_double.txt -nolog -update
Session: 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170402_xu_binding01_sub03

Mon Apr 17 15:07:29 EDT 2017
Detected input format at nii.gz
170402_xu_binding01_sub03 Update not needed
  Run: 008 ----------------
  Mon Apr 17 15:07:29 EDT 2017
  170402_xu_binding01_sub03 008 Update not needed
  Run: 010 ----------------
  Mon Apr 17 15:07:29 EDT 2017
  170402_xu_binding01_sub03 010 Update not needed
  Run: 012 ----------------
  Mon Apr 17 15:07:29 EDT 2017
  170402_xu_binding01_sub03 012 Update not needed
  Run: 020 ----------------
  Mon Apr 17 15:07:29 EDT 2017
  170402_xu_binding01_sub03 020 Update not needed
  Run: 022 ----------------
  Mon Apr 17 15:07:29 EDT 2017
  170402_xu_binding01_sub03 022 Update not needed
  Run: 024 ----------------
  Mon Apr 17 15:07:29 EDT 2017
  170402_xu_binding01_sub03 024 Update not needed
  Run: 034 ----------------
  Mon Apr 17 15:07:29 EDT 2017
  170402_xu_binding01_sub03 034 Update not needed
  Run: 036 ----------------
  Mon Apr 17 15:07:29 EDT 2017
  170402_xu_binding01_sub03 036 Update not needed
  Run: 038 ----------------
  Mon Apr 17 15:07:29 EDT 2017
  170402_xu_binding01_sub03 038 Update not needed
  Run: 046 ----------------
  Mon Apr 17 15:07:29 EDT 2017
  170402_xu_binding01_sub03 046 Update not needed
  Run: 048 ----------------
  Mon Apr 17 15:07:29 EDT 2017
  170402_xu_binding01_sub03 048 Update not needed
  Run: 050 ----------------
  Mon Apr 17 15:07:29 EDT 2017
  170402_xu_binding01_sub03 050 Update not needed
Mon Apr 17 15:07:29 EDT 2017
mktemplate-sess completed
170402_xu_binding01_sub03 Mask ------------------------
mkbrainmask-sess -maskstem brain -fsd bold -s 
170402_xu_binding01_sub03 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-rlf runlist_double.txt -nolog -update
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170402_xu_binding01_sub03
Mon Apr 17 15:07:29 EDT 2017
170402_xu_binding01_sub03 Update not needed for session-level mask
170402_xu_binding01_sub03 Update not needed for run 008 mask
170402_xu_binding01_sub03 Update not needed for run 008 meanval
170402_xu_binding01_sub03 Update not needed for run 010 mask
170402_xu_binding01_sub03 Update not needed for run 010 meanval
170402_xu_binding01_sub03 Update not needed for run 012 mask
170402_xu_binding01_sub03 Update not needed for run 012 meanval
170402_xu_binding01_sub03 Update not needed for run 020 mask
170402_xu_binding01_sub03 Update not needed for run 020 meanval
170402_xu_binding01_sub03 Update not needed for run 022 mask
170402_xu_binding01_sub03 Update not needed for run 022 meanval
170402_xu_binding01_sub03 Update not needed for run 024 mask
170402_xu_binding01_sub03 Update not needed for run 024 meanval
170402_xu_binding01_sub03 Update not needed for run 034 mask
170402_xu_binding01_sub03 Update not needed for run 034 meanval
170402_xu_binding01_sub03 Update not needed for run 036 mask
170402_xu_binding01_sub03 Update not needed for run 036 meanval
170402_xu_binding01_sub03 Update not needed for run 038 mask
170402_xu_binding01_sub03 Update not needed for run 038 meanval
170402_xu_binding01_sub03 Update not needed for run 046 mask
170402_xu_binding01_sub03 Update not needed for run 046 meanval
170402_xu_binding01_sub03 Update not needed for run 048 mask
170402_xu_binding01_sub03 Update not needed for run 048 meanval
170402_xu_binding01_sub03 Update not needed for run 050 mask
170402_xu_binding01_sub03 Update not needed for run 050 meanval
Mon Apr 17 15:07:32 EDT 2017
mkbrainmask-sess done
170402_xu_binding01_sub03 Registration -----------------------------
register-sess -s 170402_xu_binding01_sub03 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-fsd bold -dof 6 -rlf runlist_double.txt -per-session -nolog -update
register-sess logfile is /dev/null
Mon Apr 17 15:07:32 EDT 2017
setenv SUBJECTS_DIR /ncf/vcn/jtaylor/mri-space/subjects
cd 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/scripts/glm
/ncf/nrg/sw/apps/freesurfer/5.3.0/fsfast/bin/register-sess -s 
170402_xu_binding01_sub03 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -dof 6 -rlf runlist_double.txt -per-session -nolog -update
freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
Linux ncf2705.rc.fas.harvard.edu http://ncf2705.rc.fas.harvard.edu 
2.6.32-642.6.2.el6.x86_64 #1 SMP Wed Oct 26 06:52:09 UTC 2016 x86_64 
x86_64 x86_64 GNU/Linux
Session: 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170402_xu_binding01_sub03

Mon Apr 17 15:07:32 EDT 2017
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170402_xu_binding01_sub03
Mon Apr 17 15:07:32 EDT 2017
register-sess completed
170402_xu_binding01_sub03 MC -----------------------------
mc-sess -fstem f -fmcstem fmc -s 170402_xu_binding01_sub03 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -rlf runlist_double.txt -per-session -nolog -update
Logfile is /dev/null

/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170402_xu_binding01_sub03
RunList: 008 010 012 020 022 024 034 036 038 046 048 050
170402_xu_binding01_sub03 008 Update not needed
170402_xu_binding01_sub03 010 Update not needed
170402_xu_binding01_sub03 012 Update not needed
170402_xu_binding01_sub03 020 Update not needed
170402_xu_binding01_sub03 022 Update not needed
170402_xu_binding01_sub03 024 Update not needed
170402_xu_binding01_sub03 034 Update not needed
170402_xu_binding01_sub03 036 Update not needed
170402_xu_binding01_sub03 038 Update not needed
170402_xu_binding01_sub03 046 Update not needed
170402_xu_binding01_sub03 048 Update not needed
170402_xu_binding01_sub03 050 Update not needed
Mon Apr 17 15:07:33 EDT 2017
mc-sess completed SUCCESSFULLY

Started at Mon Apr 17 15:07:28 EDT 2017
Ended   at Mon Apr 17 15:07:33 EDT 2017
preproc-sess done
preproc-sess -s 170402_xu_binding01_sub04 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-a glm_double_all_ps_0 -nolog
preproc-sess logfile is /dev/null
$Id: preproc-sess,v 1.45.2.3 2013/01/22 22:09:10 greve Exp $
jtaylor
setenv FREESURFER_HOME /ncf/nrg/sw/apps/freesurfer/5.3.0
setenv SUBJECTS_DIR /ncf/vcn/jtaylor/mri-space/subjects
Linux ncf2705.rc.fas.harvard.edu http://ncf2705.rc.fas.harvard.edu 
2.6.32-642.6.2.el6.x86_64 #1 SMP Wed Oct 26 06:52:09 UTC 2016 x86_64 
x86_64 x86_64 GNU/Linux
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/scripts/glm
/ncf/vcn/jtaylor/programs/batch_edits/preproc-sess
-s 170402_xu_binding01_sub04 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-a glm_double_all_ps_0 -nolog
Mon Apr 17 15:07:33 EDT 2017
instem   f
mc   1     f fmc
stc  0     fmc
sm   0 fmc
mask 1   brain
170402_xu_binding01_sub04 Template -----------------------------
mktemplate-sess -s 170402_xu_binding01_sub04 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -rlf runlist_double.txt -nolog -update
Session: 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170402_xu_binding01_sub04

Mon Apr 17 15:07:33 EDT 2017
Detected input format at nii.gz
170402_xu_binding01_sub04 Update not needed
  Run: 014 ----------------
  Mon Apr 17 15:07:34 EDT 2017
  170402_xu_binding01_sub04 014 Update not needed
  Run: 016 ----------------
  Mon Apr 17 15:07:34 EDT 2017
  170402_xu_binding01_sub04 016 Update not needed
  Run: 018 ----------------
  Mon Apr 17 15:07:34 EDT 2017
  170402_xu_binding01_sub04 018 Update not needed
  Run: 026 ----------------
  Mon Apr 17 15:07:34 EDT 2017
  170402_xu_binding01_sub04 026 Update not needed
  Run: 028 ----------------
  Mon Apr 17 15:07:34 EDT 2017
  170402_xu_binding01_sub04 028 Update not needed
  Run: 030 ----------------
  Mon Apr 17 15:07:34 EDT 2017
  170402_xu_binding01_sub04 030 Update not needed
  Run: 040 ----------------
  Mon Apr 17 15:07:34 EDT 2017
  170402_xu_binding01_sub04 040 Update not needed
  Run: 042 ----------------
  Mon Apr 17 15:07:34 EDT 2017
  170402_xu_binding01_sub04 042 Update not needed
  Run: 044 ----------------
  Mon Apr 17 15:07:34 EDT 2017
  170402_xu_binding01_sub04 044 Update not needed
  Run: 052 ----------------
  Mon Apr 17 15:07:34 EDT 2017
  170402_xu_binding01_sub04 052 Update not needed
  Run: 054 ----------------
  Mon Apr 17 15:07:34 EDT 2017
  170402_xu_binding01_sub04 054 Update not needed
  Run: 056 ----------------
  Mon Apr 17 15:07:34 EDT 2017
  170402_xu_binding01_sub04 056 Update not needed
Mon Apr 17 15:07:34 EDT 2017
mktemplate-sess completed
170402_xu_binding01_sub04 Mask ------------------------
mkbrainmask-sess -maskstem brain -fsd bold -s 
170402_xu_binding01_sub04 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-rlf runlist_double.txt -nolog -update
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170402_xu_binding01_sub04
Mon Apr 17 15:07:34 EDT 2017
170402_xu_binding01_sub04 Update not needed for session-level mask
170402_xu_binding01_sub04 Update not needed for run 014 mask
170402_xu_binding01_sub04 Update not needed for run 014 meanval
170402_xu_binding01_sub04 Update not needed for run 016 mask
170402_xu_binding01_sub04 Update not needed for run 016 meanval
170402_xu_binding01_sub04 Update not needed for run 018 mask
170402_xu_binding01_sub04 Update not needed for run 018 meanval
170402_xu_binding01_sub04 Update not needed for run 026 mask
170402_xu_binding01_sub04 Update not needed for run 026 meanval
170402_xu_binding01_sub04 Update not needed for run 028 mask
170402_xu_binding01_sub04 Update not needed for run 028 meanval
170402_xu_binding01_sub04 Update not needed for run 030 mask
170402_xu_binding01_sub04 Update not needed for run 030 meanval
170402_xu_binding01_sub04 Update not needed for run 040 mask
170402_xu_binding01_sub04 Update not needed for run 040 meanval
170402_xu_binding01_sub04 Update not needed for run 042 mask
170402_xu_binding01_sub04 Update not needed for run 042 meanval
170402_xu_binding01_sub04 Update not needed for run 044 mask
170402_xu_binding01_sub04 Update not needed for run 044 meanval
170402_xu_binding01_sub04 Update not needed for run 052 mask
170402_xu_binding01_sub04 Update not needed for run 052 meanval
170402_xu_binding01_sub04 Update not needed for run 054 mask
170402_xu_binding01_sub04 Update not needed for run 054 meanval
170402_xu_binding01_sub04 Update not needed for run 056 mask
170402_xu_binding01_sub04 Update not needed for run 056 meanval
Mon Apr 17 15:07:36 EDT 2017
mkbrainmask-sess done
170402_xu_binding01_sub04 Registration -----------------------------
register-sess -s 170402_xu_binding01_sub04 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-fsd bold -dof 6 -rlf runlist_double.txt -per-session -nolog -update
register-sess logfile is /dev/null
Mon Apr 17 15:07:37 EDT 2017
setenv SUBJECTS_DIR /ncf/vcn/jtaylor/mri-space/subjects
cd 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/scripts/glm
/ncf/nrg/sw/apps/freesurfer/5.3.0/fsfast/bin/register-sess -s 
170402_xu_binding01_sub04 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -dof 6 -rlf runlist_double.txt -per-session -nolog -update
freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
Linux ncf2705.rc.fas.harvard.edu http://ncf2705.rc.fas.harvard.edu 
2.6.32-642.6.2.el6.x86_64 #1 SMP Wed Oct 26 06:52:09 UTC 2016 x86_64 
x86_64 x86_64 GNU/Linux
Session: 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170402_xu_binding01_sub04

Mon Apr 17 15:07:37 EDT 2017
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170402_xu_binding01_sub04
Mon Apr 17 15:07:37 EDT 2017
register-sess completed
170402_xu_binding01_sub04 MC -----------------------------
mc-sess -fstem f -fmcstem fmc -s 170402_xu_binding01_sub04 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -rlf runlist_double.txt -per-session -nolog -update
Logfile is /dev/null

/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170402_xu_binding01_sub04
RunList: 014 016 018 026 028 030 040 042 044 052 054 056
170402_xu_binding01_sub04 014 Update not needed
170402_xu_binding01_sub04 016 Update not needed
170402_xu_binding01_sub04 018 Update not needed
170402_xu_binding01_sub04 026 Update not needed
170402_xu_binding01_sub04 028 Update not needed
170402_xu_binding01_sub04 030 Update not needed
170402_xu_binding01_sub04 040 Update not needed
170402_xu_binding01_sub04 042 Update not needed
170402_xu_binding01_sub04 044 Update not needed
170402_xu_binding01_sub04 052 Update not needed
170402_xu_binding01_sub04 054 Update not needed
170402_xu_binding01_sub04 056 Update not needed
Mon Apr 17 15:07:37 EDT 2017
mc-sess completed SUCCESSFULLY

Started at Mon Apr 17 15:07:33 EDT 2017
Ended   at Mon Apr 17 15:07:37 EDT 2017
preproc-sess done
preproc-sess -s 170412_xu_binding01_sub05 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-a glm_double_all_ps_0 -nolog
preproc-sess logfile is /dev/null
$Id: preproc-sess,v 1.45.2.3 2013/01/22 22:09:10 greve Exp $
jtaylor
setenv FREESURFER_HOME /ncf/nrg/sw/apps/freesurfer/5.3.0
setenv SUBJECTS_DIR /ncf/vcn/jtaylor/mri-space/subjects
Linux ncf2705.rc.fas.harvard.edu http://ncf2705.rc.fas.harvard.edu 
2.6.32-642.6.2.el6.x86_64 #1 SMP Wed Oct 26 06:52:09 UTC 2016 x86_64 
x86_64 x86_64 GNU/Linux
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/scripts/glm
/ncf/vcn/jtaylor/programs/batch_edits/preproc-sess
-s 170412_xu_binding01_sub05 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-a glm_double_all_ps_0 -nolog
Mon Apr 17 15:07:38 EDT 2017
instem   f
mc   1     f fmc
stc  0     fmc
sm   0 fmc
mask 1   brain
170412_xu_binding01_sub05 Template -----------------------------
mktemplate-sess -s 170412_xu_binding01_sub05 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -rlf runlist_double.txt -nolog -update
Session: 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170412_xu_binding01_sub05

Mon Apr 17 15:07:38 EDT 2017
Detected input format at nii.gz
170412_xu_binding01_sub05 Update not needed
  Run: 008 ----------------
  Mon Apr 17 15:07:38 EDT 2017
  170412_xu_binding01_sub05 008 Update not needed
  Run: 010 ----------------
  Mon Apr 17 15:07:38 EDT 2017
  170412_xu_binding01_sub05 010 Update not needed
  Run: 012 ----------------
  Mon Apr 17 15:07:38 EDT 2017
  170412_xu_binding01_sub05 012 Update not needed
  Run: 020 ----------------
  Mon Apr 17 15:07:38 EDT 2017
  170412_xu_binding01_sub05 020 Update not needed
  Run: 022 ----------------
  Mon Apr 17 15:07:38 EDT 2017
  170412_xu_binding01_sub05 022 Update not needed
  Run: 024 ----------------
  Mon Apr 17 15:07:38 EDT 2017
  170412_xu_binding01_sub05 024 Update not needed
  Run: 034 ----------------
  Mon Apr 17 15:07:38 EDT 2017
  170412_xu_binding01_sub05 034 Update not needed
  Run: 036 ----------------
  Mon Apr 17 15:07:39 EDT 2017
  170412_xu_binding01_sub05 036 Update not needed
  Run: 038 ----------------
  Mon Apr 17 15:07:39 EDT 2017
  170412_xu_binding01_sub05 038 Update not needed
  Run: 046 ----------------
  Mon Apr 17 15:07:39 EDT 2017
  170412_xu_binding01_sub05 046 Update not needed
  Run: 048 ----------------
  Mon Apr 17 15:07:39 EDT 2017
  170412_xu_binding01_sub05 048 Update not needed
  Run: 050 ----------------
  Mon Apr 17 15:07:39 EDT 2017
  170412_xu_binding01_sub05 050 Update not needed
Mon Apr 17 15:07:39 EDT 2017
mktemplate-sess completed
170412_xu_binding01_sub05 Mask ------------------------
mkbrainmask-sess -maskstem brain -fsd bold -s 
170412_xu_binding01_sub05 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-rlf runlist_double.txt -nolog -update
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170412_xu_binding01_sub05
Mon Apr 17 15:07:39 EDT 2017
170412_xu_binding01_sub05 Update not needed for session-level mask
170412_xu_binding01_sub05 Update not needed for run 008 mask
170412_xu_binding01_sub05 Update not needed for run 008 meanval
170412_xu_binding01_sub05 Update not needed for run 010 mask
170412_xu_binding01_sub05 Update not needed for run 010 meanval
170412_xu_binding01_sub05 Update not needed for run 012 mask
170412_xu_binding01_sub05 Update not needed for run 012 meanval
170412_xu_binding01_sub05 Update not needed for run 020 mask
170412_xu_binding01_sub05 Update not needed for run 020 meanval
170412_xu_binding01_sub05 Update not needed for run 022 mask
170412_xu_binding01_sub05 Update not needed for run 022 meanval
170412_xu_binding01_sub05 Update not needed for run 024 mask
170412_xu_binding01_sub05 Update not needed for run 024 meanval
170412_xu_binding01_sub05 Update not needed for run 034 mask
170412_xu_binding01_sub05 Update not needed for run 034 meanval
170412_xu_binding01_sub05 Update not needed for run 036 mask
170412_xu_binding01_sub05 Update not needed for run 036 meanval
170412_xu_binding01_sub05 Update not needed for run 038 mask
170412_xu_binding01_sub05 Update not needed for run 038 meanval
170412_xu_binding01_sub05 Update not needed for run 046 mask
170412_xu_binding01_sub05 Update not needed for run 046 meanval
170412_xu_binding01_sub05 Update not needed for run 048 mask
170412_xu_binding01_sub05 Update not needed for run 048 meanval
170412_xu_binding01_sub05 Update not needed for run 050 mask
170412_xu_binding01_sub05 Update not needed for run 050 meanval
Mon Apr 17 15:07:41 EDT 2017
mkbrainmask-sess done
170412_xu_binding01_sub05 Registration -----------------------------
register-sess -s 170412_xu_binding01_sub05 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-fsd bold -dof 6 -rlf runlist_double.txt -per-session -nolog -update
register-sess logfile is /dev/null
Mon Apr 17 15:07:41 EDT 2017
setenv SUBJECTS_DIR /ncf/vcn/jtaylor/mri-space/subjects
cd 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/scripts/glm
/ncf/nrg/sw/apps/freesurfer/5.3.0/fsfast/bin/register-sess -s 
170412_xu_binding01_sub05 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -dof 6 -rlf runlist_double.txt -per-session -nolog -update
freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
Linux ncf2705.rc.fas.harvard.edu http://ncf2705.rc.fas.harvard.edu 
2.6.32-642.6.2.el6.x86_64 #1 SMP Wed Oct 26 06:52:09 UTC 2016 x86_64 
x86_64 x86_64 GNU/Linux
Session: 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170412_xu_binding01_sub05

Mon Apr 17 15:07:41 EDT 2017
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170412_xu_binding01_sub05
Mon Apr 17 15:07:42 EDT 2017
register-sess completed
170412_xu_binding01_sub05 MC -----------------------------
mc-sess -fstem f -fmcstem fmc -s 170412_xu_binding01_sub05 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -rlf runlist_double.txt -per-session -nolog -update
Logfile is /dev/null

/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170412_xu_binding01_sub05
RunList: 008 010 012 020 022 024 034 036 038 046 048 050
170412_xu_binding01_sub05 008 Update not needed
170412_xu_binding01_sub05 010 Update not needed
170412_xu_binding01_sub05 012 Update not needed
170412_xu_binding01_sub05 020 Update not needed
170412_xu_binding01_sub05 022 Update not needed
170412_xu_binding01_sub05 024 Update not needed
170412_xu_binding01_sub05 034 Update not needed
170412_xu_binding01_sub05 036 Update not needed
170412_xu_binding01_sub05 038 Update not needed
170412_xu_binding01_sub05 046 Update not needed
170412_xu_binding01_sub05 048 Update not needed
170412_xu_binding01_sub05 050 Update not needed
Mon Apr 17 15:07:42 EDT 2017
mc-sess completed SUCCESSFULLY

Started at Mon Apr 17 15:07:38 EDT 2017
Ended   at Mon Apr 17 15:07:42 EDT 2017
preproc-sess done
preproc-sess -s 170416_xu_binding01_sub06 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-a glm_double_all_ps_0 -nolog
preproc-sess logfile is /dev/null
$Id: preproc-sess,v 1.45.2.3 2013/01/22 22:09:10 greve Exp $
jtaylor
setenv FREESURFER_HOME /ncf/nrg/sw/apps/freesurfer/5.3.0
setenv SUBJECTS_DIR /ncf/vcn/jtaylor/mri-space/subjects
Linux ncf2705.rc.fas.harvard.edu http://ncf2705.rc.fas.harvard.edu 
2.6.32-642.6.2.el6.x86_64 #1 SMP Wed Oct 26 06:52:09 UTC 2016 x86_64 
x86_64 x86_64 GNU/Linux
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/scripts/glm
/ncf/vcn/jtaylor/programs/batch_edits/preproc-sess
-s 170416_xu_binding01_sub06 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-a glm_double_all_ps_0 -nolog
Mon Apr 17 15:07:43 EDT 2017
instem   f
mc   1     f fmc
stc  0     fmc
sm   0 fmc
mask 1   brain
170416_xu_binding01_sub06 Template -----------------------------
mktemplate-sess -s 170416_xu_binding01_sub06 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -rlf runlist_double.txt -nolog -update
Session: 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170416_xu_binding01_sub06

Mon Apr 17 15:07:43 EDT 2017
Detected input format at nii.gz
170416_xu_binding01_sub06 Update not needed
  Run: 014 ----------------
  Mon Apr 17 15:07:43 EDT 2017
  170416_xu_binding01_sub06 014 Update not needed
  Run: 016 ----------------
  Mon Apr 17 15:07:43 EDT 2017
  170416_xu_binding01_sub06 016 Update not needed
  Run: 018 ----------------
  Mon Apr 17 15:07:43 EDT 2017
  170416_xu_binding01_sub06 018 Update not needed
  Run: 026 ----------------
  Mon Apr 17 15:07:43 EDT 2017
  170416_xu_binding01_sub06 026 Update not needed
  Run: 028 ----------------
  Mon Apr 17 15:07:43 EDT 2017
  170416_xu_binding01_sub06 028 Update not needed
  Run: 030 ----------------
  Mon Apr 17 15:07:43 EDT 2017
  170416_xu_binding01_sub06 030 Update not needed
  Run: 040 ----------------
  Mon Apr 17 15:07:44 EDT 2017
  170416_xu_binding01_sub06 040 Update not needed
  Run: 042 ----------------
  Mon Apr 17 15:07:44 EDT 2017
  170416_xu_binding01_sub06 042 Update not needed
  Run: 044 ----------------
  Mon Apr 17 15:07:44 EDT 2017
  170416_xu_binding01_sub06 044 Update not needed
  Run: 052 ----------------
  Mon Apr 17 15:07:44 EDT 2017
  170416_xu_binding01_sub06 052 Update not needed
  Run: 054 ----------------
  Mon Apr 17 15:07:44 EDT 2017
  170416_xu_binding01_sub06 054 Update not needed
  Run: 056 ----------------
  Mon Apr 17 15:07:44 EDT 2017
  170416_xu_binding01_sub06 056 Update not needed
Mon Apr 17 15:07:44 EDT 2017
mktemplate-sess completed
170416_xu_binding01_sub06 Mask ------------------------
mkbrainmask-sess -maskstem brain -fsd bold -s 
170416_xu_binding01_sub06 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-rlf runlist_double.txt -nolog -update
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170416_xu_binding01_sub06
Mon Apr 17 15:07:44 EDT 2017
170416_xu_binding01_sub06 Update not needed for session-level mask
170416_xu_binding01_sub06 Update not needed for run 014 mask
170416_xu_binding01_sub06 Update not needed for run 014 meanval
170416_xu_binding01_sub06 Update not needed for run 016 mask
170416_xu_binding01_sub06 Update not needed for run 016 meanval
170416_xu_binding01_sub06 Update not needed for run 018 mask
170416_xu_binding01_sub06 Update not needed for run 018 meanval
170416_xu_binding01_sub06 Update not needed for run 026 mask
170416_xu_binding01_sub06 Update not needed for run 026 meanval
170416_xu_binding01_sub06 Update not needed for run 028 mask
170416_xu_binding01_sub06 Update not needed for run 028 meanval
170416_xu_binding01_sub06 Update not needed for run 030 mask
170416_xu_binding01_sub06 Update not needed for run 030 meanval
170416_xu_binding01_sub06 Update not needed for run 040 mask
170416_xu_binding01_sub06 Update not needed for run 040 meanval
170416_xu_binding01_sub06 Update not needed for run 042 mask
170416_xu_binding01_sub06 Update not needed for run 042 meanval
170416_xu_binding01_sub06 Update not needed for run 044 mask
170416_xu_binding01_sub06 Update not needed for run 044 meanval
170416_xu_binding01_sub06 Update not needed for run 052 mask
170416_xu_binding01_sub06 Update not needed for run 052 meanval
170416_xu_binding01_sub06 Update not needed for run 054 mask
170416_xu_binding01_sub06 Update not needed for run 054 meanval
170416_xu_binding01_sub06 Update not needed for run 056 mask
170416_xu_binding01_sub06 Update not needed for run 056 meanval
Mon Apr 17 15:07:47 EDT 2017
mkbrainmask-sess done
170416_xu_binding01_sub06 Registration -----------------------------
register-sess -s 170416_xu_binding01_sub06 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata
-fsd bold -dof 6 -rlf runlist_double.txt -per-session -nolog -update
register-sess logfile is /dev/null
Mon Apr 17 15:07:47 EDT 2017
setenv SUBJECTS_DIR /ncf/vcn/jtaylor/mri-space/subjects
cd 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/scripts/glm
/ncf/nrg/sw/apps/freesurfer/5.3.0/fsfast/bin/register-sess -s 
170416_xu_binding01_sub06 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -dof 6 -rlf runlist_double.txt -per-session -nolog -update
freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0
Linux ncf2705.rc.fas.harvard.edu http://ncf2705.rc.fas.harvard.edu 
2.6.32-642.6.2.el6.x86_64 #1 SMP Wed Oct 26 06:52:09 UTC 2016 x86_64 
x86_64 x86_64 GNU/Linux
Session: 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170416_xu_binding01_sub06

Mon Apr 17 15:07:47 EDT 2017
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170416_xu_binding01_sub06
Mon Apr 17 15:07:47 EDT 2017
register-sess completed
170416_xu_binding01_sub06 MC -----------------------------
mc-sess -fstem f -fmcstem fmc -s 170416_xu_binding01_sub06 -d 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata 
-fsd bold -rlf runlist_double.txt -per-session -nolog -update
Logfile is /dev/null

/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170416_xu_binding01_sub06
RunList: 014 016 018 026 028 030 040 042 044 052 054 056
170416_xu_binding01_sub06 014 Update not needed
170416_xu_binding01_sub06 016 Update not needed
170416_xu_binding01_sub06 018 Update not needed
170416_xu_binding01_sub06 026 Update not needed
170416_xu_binding01_sub06 028 Update not needed
170416_xu_binding01_sub06 030 Update not needed
170416_xu_binding01_sub06 040 Update not needed
170416_xu_binding01_sub06 042 Update not needed
170416_xu_binding01_sub06 044 Update not needed
170416_xu_binding01_sub06 052 Update not needed
170416_xu_binding01_sub06 054 Update not needed
170416_xu_binding01_sub06 056 Update not needed
Mon Apr 17 15:07:47 EDT 2017
mc-sess completed SUCCESSFULLY

Started at Mon Apr 17 15:07:43 EDT 2017
Ended   at Mon Apr 17 15:07:47 EDT 2017
preproc-sess done

/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170322_xu_binding01_sub01
Mon Apr 17 15:07:48 EDT 2017
anadir = 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170322_xu_binding01_sub01/bold/glm_double_all_ps_0
*ERROR: cannot find 
/net/rcss11/srv/export/ncf_vcn/share_root/jtaylor/mri-space/studies/binding01/unpackdata/170322_xu_binding01_sub01/bold/008/fmc.sm0*
On Fri, Apr 7, 2017 at 12:00 PM, 
<freesurfer-request@nmr.mgh.harvard.edu 
mailto:freesurfer-request@nmr.mgh.harvard.edu> wrote:
Send Freesurfer mailing list submissions to
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Today's Topics:

   1. postdoctoral Research Fellow position at Mayo Clinic
      (Senjem, Matthew L., M.S.)
   2. First-level GLM on externally-preprocessed functionals
      (Christopher Markiewicz)
   3. Re: Custom color maps (Senften, Peter)
   4. Re: MRIread (load_nifti)- Out of memory (Bruce Fischl)
   5. Re: long mri_ca_register error (Bruce Fischl)
   6. Re: help (Bruce Fischl)
   7. Re: MRIread (load_nifti)- Out of memory (Ilaria Sani)
   8. Re: MRIread (load_nifti)- Out of memory (Douglas N Greve)
   9. Re: QDEC-volume, thickness and area (Douglas N Greve)
  10. Re: Help on "mris_anatomical_stats" (Douglas N Greve)
  11. Re: First-level GLM on externally-preprocessed functionals
      (Douglas N Greve)
  12. Re: Custom color maps (Douglas N Greve)
  13. Re: Custom registration template (Douglas N Greve)
  14. Re: Selxavg3-sess Looking for (and can't find) "fmc.sm0"
      (Douglas N Greve)
  15. Re: Ventricle-to-Brain Ratio (Douglas N Greve)
  16. Re: ROI seed size (Douglas N Greve)
  17. Re: correlation coefficient R (Douglas N Greve)
  18. Re: Custom color maps (Senften, Peter)
  19. Re: General QDEC clarification queastions (Douglas N Greve)
  20. QDEC and ROI drawing (Arnaud Bor?)
  21. Re: QDEC and ROI drawing (Douglas N Greve)
  22. Re: QDEC-volume, thickness and area (Lim, Lena)
  23. Re: QDEC-volume, thickness and area (Douglas N Greve)
  24. R: Re: R: R: Re: R: Re: Whole preprocessing with FAST without
      to perform a seed based analysis (stdp82@virgilio.it
<mailto:stdp82@virgilio.it>)
  25. Re: R: Re: R: R: Re: R: Re: Whole preprocessing with FAST
      without to perform a seed based analysis (Douglas N Greve)
  26. QDEC-Cortical Thickness (Limachia, Gaurang (NIH/NINDS) [F])
  27. Re: Custom registration template (Linda Zhang)
  28. Re: Ventricle-to-Brain Ratio (Gullickson, James)
  29. Re: MRIread (load_nifti)- Out of memory (Ilaria Sani)
  30. Re: long mri_ca_register error (Chris Adamson)
  31. Re: help (Dilip Puri)
  32. How to segment subnuclei of thalamus? (Shane S)
  33. withdrawing from the mailing list.
(kjunji@med.kanazawa-u.ac.jp <mailto:kjunji@med.kanazawa-u.ac.jp>)
  34. Re: QA Tools v1.2 and future release (Yong Li)
  35. Hippocampal subfield segmentation, file content (Nina Jacobsen)
  36. Re: Multiple Comparisons Correction thresh error (teodora
petrova)
  37. Longitudinal Pipeline (Arman Eshaghi)
  38. Re: Hippocampal subfield segmentation, file content
      (Iglesias Gonzalez, Eugenio)
  39. Re: How to segment subnuclei of thalamus? (Bruce Fischl)
  40. Analyzing xhemi results (Marissa Pifer)
  41. Re: QDEC and ROI drawing (Arnaud Bor?)

----------------------------------------------------------------------

Message: 1
Date: Thu, 06 Apr 2017 16:17:30 +0000
From: "Senjem, Matthew L., M.S." <Senjem.Matthew1@mayo.edu
<mailto:Senjem.Matthew1@mayo.edu>>
Subject: [Freesurfer] postdoctoral Research Fellow position at Mayo
        Clinic
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu
<mailto:freesurfer@nmr.mgh.harvard.edu>>
Message-ID: <47cabe$66564f@ironport10.mayo.edu
<mailto:66564f@ironport10.mayo.edu>>
Content-Type: text/plain; charset="windows-1252"

The Mayo Clinic Departments of Neurology and Diagnostic Radiology
in Rochester, Minnesota are seeking applications for a
fully-funded, two-year postdoctoral Research Fellow position to
begin in July of 2017.  The Research Fellow position will
primarily work on developing advanced multi-modal molecular and
high-field (3T and 7T) neuroimaging to study connectomics in
pre-clinical and clinical Alzheimer?s disease. The resulting data
will be acquired and analyzed as part of a unique collaboration
between investigators at Mayo Clinic Alzheimer?s Disease Research
Center and the Center for Magnetic Resonance Research at the
University of Minnesota. Basic programing skills and familiarity
with widely used neuroimaging software platforms are required for
successful applicants. Familiarity with the Human Connectome
Project imaging and analyses protocols is preferred but not
required. No clinical or Alzheimer?s specific background is
required. Salary will be commensurate with postdoctoral
experience. The position will remain open until filled by a
successful candidate.

Please send CV, three letters of recommendation, and any inquiries to:

David T. Jones, M.D.
Mayo Clinic
Department of Neurology
Email: Jones.David@mayo.edu
<mailto:Jones.David@mayo.edu><mailto:Jones.David@mayo.edu
<mailto:Jones.David@mayo.edu>>

A Research Fellow at Mayo Clinic is a temporary position intended
to provide training and education in research. Individuals will
train in the research program of a Mayo Clinic principal
investigator. Qualified individuals will demonstrate the potential
for research as evidenced by their training and peer-reviewed
publications and should become competitive for national research
grants. Proof of English proficiency is required for J-1
Short-Term Scholars, Research Scholars, Professors, Specialists,
and Student Interns sponsored by Mayo Clinic.

Why Mayo Clinic?  Learn and grow among the best in your field at
the nation?s top hospital (U.S. News & World Report, 2016-2017),
ranked No. 1 in more specialties than any other care provider.
Mayo Clinic is committed to sustaining and growing research,
believes in research-driven care and establishes a well-defined
integration between the clinical practice and research. At Mayo
Clinic, you?ll use the power of collaboration to achieve the
highest standards for medical care and health improvement, working
in the largest integrated, not-for-profit medical group practice
in the world with over 60,000 employees. You?re invited to
contribute to a unique environment that brings together the best
in patient care, groundbreaking research and innovative medical
education. We offer exceptional benefits, and have been recognized
by FORTUNE magazine as one of the top 100 ?Best Companies to Work
For?.

Mayo Clinic is an equal opportunity educator and employer
(including veterans and persons with disabilities).
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------