Doug-
INPUT
mri_surf2surf --hemi rh --s UNM_SUPERSAMPLE --sval rh.meth.00.mgh --fwhm 10 --cortex --tval rh.meth.10.mgh
OUTPUT
srcsubject = UNM_SUPERSAMPLE srcval = rh.meth.00.mgh srctype = trgsubject = UNM_SUPERSAMPLE trgval = rh.meth.10.mgh trgtype = srcsurfreg = sphere.reg trgsurfreg = sphere.reg srchemi = rh trghemi = rh frame = 0 fwhm-in = 0 fwhm-out = 10 label-src = (null) label-trg = rh.cortex.label OKToRevFaceOrder = 1 Reading source surface reg /Volumes/Vol1/PI/UNM_processing/freesurfer_subjects/all_unm/UNM_SUPERSAMPLE/surf/rh.sphere.reg Loading source data INFO: trgsubject = srcsubject Approximating gaussian smoothing of target with fwhm = 10.000000, std = 4.246609, with 65 iterations of nearest-neighbor smoothing Reading smoothing mask label rh.cortex.label
Graph: P mri_surf2surf: could not scan # of lines from /Volumes/Vol1/PI/UNM_processing/freesurfer_subjects/all_unm/UNM_SUPERSAMPLE/label/rh.cortex.label
On 6/1/12, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
what is your full command line and terminal output? doug
On 06/01/2012 11:49 AM, Bruce Fischl wrote:
that is the rh.cortex.label file? It doesn't look like it....
On Fri, 1 Jun 2012, mdkruepke@uwalumni.com wrote:
Bruce-
Here you go. Subjects recoded.
Graph: name
Data: path Variable: Subject Measurement: external subject id, class id, variable value, measurement value, standard deviation
S1 Cl1 0.0 3.10522500831 0.268702566292 S2 Cl1 1.0 2.67585065105 0.396833961125 S3 Cl1 2.0 3.07631433273 0.173949345568 S4 Cl1 3.0 2.85668014067 0.0907729539181 S5 Cl1 4.0 3.24184323479 0.212597547853 S6 Cl1 5.0 2.54176559894 0.111183384791 S7 Cl1 6.0 2.87165045086 0.137271513295 S8 Cl1 7.0 2.72165358457 0.128648203321
On 6/1/12, Bruce Fischlfischl@nmr.mgh.harvard.edu wrote:
something like this:
head ~/local_subjects/bruce/label/rh.cortex.label #!ascii label , from subject vox2ras=TkReg 141813 0 11.129 -93.761 -16.820 0.0000000000 1 11.136 -93.912 -16.623 0.0000000000 2 10.755 -93.913 -16.573 0.0000000000 3 11.696 -93.374 -17.237 0.0000000000 4 11.022 -93.203 -16.969 0.0000000000 5 11.020 -93.855 -17.042 0.0000000000 6 10.248 -93.745 -16.712 0.0000000000 7 11.591 -93.603 -17.551 0.0000000000
and please cc the list so others can answer! On Fri, 1 Jun 2012, mdkruepke@uwalumni.com wrote:
Bruce- The partition does not appear to be full, although we have been having issues with migrating data so that could be a source of the issue. The rh.cortex.label does exist and is located within the subject's label dir. As for the first couple of lines, I am unsure what you are asking for.
Thanks for the quick response!
Best- Michael
On Fri, Jun 1, 2012 at 10:26 AM, Bruce Fischlfischl@nmr.mgh.harvard.edu wrote: Hi Michael
can you check to see that your partition is not full? Does therh.cortex.label file exist in that subject's label dir? If so, what are the first couple of lines?
cheers Bruce On Fri, 1 Jun 2012, mdkruepke@uwalumni.com wrote: To anyone who can help - I am trying to tun a GLM on a set of data and amcurrently receiving an error during the mri_surf2surf portion. When running this portion i receive an error ( could not scan # of lines from (path to rh.cortex.label)). This does not happen when running this portion for the lh, only the right. I am unable to find any information on this error on the mailing list so im hoping someone can help!
Best- Michael Kruepke -- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madison mdkruepke@gmail.com (262)-483-7449The 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 . 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.
-- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madison mdkruepke@gmail.com (262)-483-7449
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