Actually one last question-
I used label2label to transfer some labels and grab ROI thickness averages from the labels on the subject with the rh.cortex.label that has been overwritten. I received no errors during this, does this mean that the label transfers and averages are valid, or do i need to redo them?
Best- Michael
On Fri, Jun 1, 2012 at 11:05 AM, mdkruepke@uwalumni.com < mdkruepke@uwalumni.com> wrote:
Doug -
That does indeed seem to be the problem! Ill just rerun some things here to rectify that. Thanks for all the help everyone!
Best- Michael
On Fri, Jun 1, 2012 at 11:01 AM, Douglas N Greve < greve@nmr.mgh.harvard.edu> wrote:
I think the label file got overwritten at some point. Check the time stamp and see if it is much different than the other rh files
On 06/01/2012 11:55 AM, mdkruepke@uwalumni.com wrote:
Bruce-
It is, and i agree, for instance here is the lh.cortex.label file
#label , from subject ?? 149955 22 -10.374 55.016 3.203 0.0000000000 112 -6.294 36.386 -7.809 0.0000000000 114 -6.137 38.556 13.808 0.0000000000 247 -11.304 45.214 -2.709 0.0000000000 248 -6.278 39.973 2.192 0.0000000000 249 -10.766 45.545 6.476 0.0000000000 507 -11.087 42.990 18.865 0.0000000000
On 6/1/12, Bruce Fischlfischl@nmr.mgh.harvard.edu 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 Fischl >> fischl@nmr.mgh.harvard.edu >> wrote: >> Hi Michael >> >> can you check to see that your partition is not full? Does
the
>> rh.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 am
currently
>> 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)-483-7449 >> >> >> >> >> >> 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 . 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 >> >> >>
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
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-- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madison mdkruepke@gmail.com (262)-483-7449
-- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madison mdkruepke@gmail.com (262)-483-7449
I would have expected that to fail. You can check the time stamps to see if your output is newer or older than rh.cortex.label. If older, it is probably ok.
On 06/01/2012 12:53 PM, mdkruepke@uwalumni.com wrote:
Actually one last question-
I used label2label to transfer some labels and grab ROI thickness averages from the labels on the subject with the rh.cortex.label that has been overwritten. I received no errors during this, does this mean that the label transfers and averages are valid, or do i need to redo them?
Best- Michael
On Fri, Jun 1, 2012 at 11:05 AM, mdkruepke@uwalumni.com <mailto:mdkruepke@uwalumni.com> <mdkruepke@uwalumni.com <mailto:mdkruepke@uwalumni.com>> wrote: Doug - That does indeed seem to be the problem! Ill just rerun some things here to rectify that. Thanks for all the help everyone! Best- Michael On Fri, Jun 1, 2012 at 11:01 AM, Douglas N Greve <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote: I think the label file got overwritten at some point. Check the time stamp and see if it is much different than the other rh files On 06/01/2012 11:55 AM, mdkruepke@uwalumni.com <mailto:mdkruepke@uwalumni.com> wrote: > Bruce- > > It is, and i agree, for instance here is the lh.cortex.label file > > #label , from subject ?? > 149955 > 22 -10.374 55.016 3.203 0.0000000000 > 112 -6.294 36.386 -7.809 0.0000000000 > 114 -6.137 38.556 13.808 0.0000000000 > 247 -11.304 45.214 -2.709 0.0000000000 > 248 -6.278 39.973 2.192 0.0000000000 > 249 -10.766 45.545 6.476 0.0000000000 > 507 -11.087 42.990 18.865 0.0000000000 > > On 6/1/12, Bruce Fischl<fischl@nmr.mgh.harvard.edu <mailto:fischl@nmr.mgh.harvard.edu>> wrote: >> that is the rh.cortex.label file? It doesn't look like it.... >> >> On Fri, 1 Jun 2012, mdkruepke@uwalumni.com <mailto: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 Fischl<fischl@nmr.mgh.harvard.edu <mailto:fischl@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 <mailto: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 Fischl >>>>> <fischl@nmr.mgh.harvard.edu <mailto:fischl@nmr.mgh.harvard.edu>> >>>>> wrote: >>>>> Hi Michael >>>>> >>>>> can you check to see that your partition is not full? Does the >>>>> rh.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 <mailto:mdkruepke@uwalumni.com> wrote: >>>>> >>>>> To anyone who can help - >>>>> I am trying to tun a GLM on a set of data and am currently >>>>> 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 <mailto:mdkruepke@gmail.com> >>>>> (262)-483-7449 <tel:%28262%29-483-7449> >>>>> >>>>> >>>>> >>>>> >>>>> >>>>> 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 . 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 <mailto:mdkruepke@gmail.com> >>>>> (262)-483-7449 <tel:%28262%29-483-7449> >>>>> >>>>> >>>>> >>> >>> > -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu> Phone Number: 617-724-2358 <tel:617-724-2358> Fax: 617-726-7422 <tel:617-726-7422> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madison mdkruepke@gmail.com <mailto:mdkruepke@gmail.com> (262)-483-7449 <tel:%28262%29-483-7449> -- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madison mdkruepke@gmail.com <mailto:mdkruepke@gmail.com> (262)-483-7449 <tel:%28262%29-483-7449>-- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madison mdkruepke@gmail.com mailto:mdkruepke@gmail.com (262)-483-7449
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Thanks, i am also still able to display the rh in tksurfer without issue, shouldnt that also fail with the current rh.cortex.label?
michael
On Fri, Jun 1, 2012 at 11:57 AM, Douglas N Greve greve@nmr.mgh.harvard.eduwrote:
I would have expected that to fail. You can check the time stamps to see if your output is newer or older than rh.cortex.label. If older, it is probably ok.
On 06/01/2012 12:53 PM, mdkruepke@uwalumni.com wrote:
Actually one last question-
I used label2label to transfer some labels and grab ROI thickness averages from the labels on the subject with the rh.cortex.label that has been overwritten. I received no errors during this, does this mean that the label transfers and averages are valid, or do i need to redo them?
Best- Michael
On Fri, Jun 1, 2012 at 11:05 AM, mdkruepke@uwalumni.com <mailto:mdkruepke@uwalumni.com> <mdkruepke@uwalumni.com <mailto:mdkruepke@uwalumni.com>> wrote: Doug - That does indeed seem to be the problem! Ill just rerun some things here to rectify that. Thanks for all the help everyone! Best- Michael On Fri, Jun 1, 2012 at 11:01 AM, Douglas N Greve <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote: I think the label file got overwritten at some point. Check the time stamp and see if it is much different than the other rh files On 06/01/2012 11:55 AM, mdkruepke@uwalumni.com <mailto:mdkruepke@uwalumni.com> wrote: > Bruce- > > It is, and i agree, for instance here is the lh.cortex.label file > > #label , from subject ?? > 149955 > 22 -10.374 55.016 3.203 0.0000000000 > 112 -6.294 36.386 -7.809 0.0000000000 > 114 -6.137 38.556 13.808 0.0000000000 > 247 -11.304 45.214 -2.709 0.0000000000 > 248 -6.278 39.973 2.192 0.0000000000 > 249 -10.766 45.545 6.476 0.0000000000 > 507 -11.087 42.990 18.865 0.0000000000 > > On 6/1/12, Bruce Fischl<fischl@nmr.mgh.harvard.edu <mailto:fischl@nmr.mgh.harvard.edu>> wrote: >> that is the rh.cortex.label file? It doesn't look like it.... >> >> On Fri, 1 Jun 2012, mdkruepke@uwalumni.com <mailto: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 Fischl<fischl@nmr.mgh.harvard.edu <mailto:fischl@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 <mailto: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 Fischl >>>>> <fischl@nmr.mgh.harvard.edu <mailto:fischl@nmr.mgh.harvard.edu>> >>>>> wrote: >>>>> Hi Michael >>>>> >>>>> can you check to see that your partition is not full? Does the >>>>> rh.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 <mailto:mdkruepke@uwalumni.com> wrote: >>>>> >>>>> To anyone who can help - >>>>> I am trying to tun a GLM on a set of data and am currently >>>>> 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 <mailto:mdkruepke@gmail.com> >>>>> (262)-483-7449 <tel:%28262%29-483-7449> >>>>> >>>>> >>>>> >>>>> >>>>> >>>>> 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 . 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 <mailto:mdkruepke@gmail.com> >>>>> (262)-483-7449 <tel:%28262%29-483-7449> >>>>> >>>>> >>>>> >>> >>> > -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu> Phone Number: 617-724-2358 <tel:617-724-2358> Fax: 617-726-7422 <tel:617-726-7422> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madison mdkruepke@gmail.com <mailto:mdkruepke@gmail.com> (262)-483-7449 <tel:%28262%29-483-7449> -- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madison mdkruepke@gmail.com <mailto:mdkruepke@gmail.com> (262)-483-7449 <tel:%28262%29-483-7449>-- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madison mdkruepke@gmail.com mailto:mdkruepke@gmail.com (262)-483-7449
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-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
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not unless you are trying to visualize the label
On 06/01/2012 01:16 PM, mdkruepke@uwalumni.com wrote:
Thanks, i am also still able to display the rh in tksurfer without issue, shouldnt that also fail with the current rh.cortex.label?
michael
On Fri, Jun 1, 2012 at 11:57 AM, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
I would have expected that to fail. You can check the time stamps to see if your output is newer or older than rh.cortex.label. If older, it is probably ok. On 06/01/2012 12:53 PM, mdkruepke@uwalumni.com <mailto:mdkruepke@uwalumni.com> wrote: > Actually one last question- > > I used label2label to transfer some labels and grab ROI thickness > averages from the labels on the subject with the rh.cortex.label that > has been overwritten. I received no errors during this, does this mean > that the label transfers and averages are valid, or do i need to redo > them? > > Best- > Michael > > > > On Fri, Jun 1, 2012 at 11:05 AM, mdkruepke@uwalumni.com <mailto:mdkruepke@uwalumni.com> > <mailto:mdkruepke@uwalumni.com <mailto:mdkruepke@uwalumni.com>> <mdkruepke@uwalumni.com <mailto:mdkruepke@uwalumni.com> > <mailto:mdkruepke@uwalumni.com <mailto:mdkruepke@uwalumni.com>>> wrote: > > Doug - > > That does indeed seem to be the problem! Ill just rerun some > things here to rectify that. Thanks for all the help everyone! > > Best- > Michael > > On Fri, Jun 1, 2012 at 11:01 AM, Douglas N Greve > <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu> <mailto:greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>>> > wrote: > > I think the label file got overwritten at some point. > Check the time > stamp and see if it is much different than the other rh files > > On 06/01/2012 11:55 AM, mdkruepke@uwalumni.com <mailto:mdkruepke@uwalumni.com> > <mailto:mdkruepke@uwalumni.com <mailto:mdkruepke@uwalumni.com>> wrote: > > Bruce- > > > > It is, and i agree, for instance here is the > lh.cortex.label file > > > > #label , from subject ?? > > 149955 > > 22 -10.374 55.016 3.203 0.0000000000 > > 112 -6.294 36.386 -7.809 0.0000000000 > > 114 -6.137 38.556 13.808 0.0000000000 > > 247 -11.304 45.214 -2.709 0.0000000000 > > 248 -6.278 39.973 2.192 0.0000000000 > > 249 -10.766 45.545 6.476 0.0000000000 > > 507 -11.087 42.990 18.865 0.0000000000 > > > > On 6/1/12, Bruce Fischl<fischl@nmr.mgh.harvard.edu <mailto:fischl@nmr.mgh.harvard.edu> > <mailto:fischl@nmr.mgh.harvard.edu <mailto:fischl@nmr.mgh.harvard.edu>>> wrote: > >> that is the rh.cortex.label file? It doesn't look like > it.... > >> > >> On Fri, 1 Jun 2012, mdkruepke@uwalumni.com <mailto:mdkruepke@uwalumni.com> > <mailto:mdkruepke@uwalumni.com <mailto: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 Fischl<fischl@nmr.mgh.harvard.edu <mailto:fischl@nmr.mgh.harvard.edu> > <mailto:fischl@nmr.mgh.harvard.edu <mailto:fischl@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 <mailto:mdkruepke@uwalumni.com> > <mailto:mdkruepke@uwalumni.com <mailto: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 Fischl > >>>>> <fischl@nmr.mgh.harvard.edu <mailto:fischl@nmr.mgh.harvard.edu> > <mailto:fischl@nmr.mgh.harvard.edu <mailto:fischl@nmr.mgh.harvard.edu>>> > >>>>> wrote: > >>>>> Hi Michael > >>>>> > >>>>> can you check to see that your partition is > not full? Does the > >>>>> rh.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 <mailto:mdkruepke@uwalumni.com> > <mailto:mdkruepke@uwalumni.com <mailto:mdkruepke@uwalumni.com>> wrote: > >>>>> > >>>>> To anyone who can help - > >>>>> I am trying to tun a GLM on a set of > data and am currently > >>>>> 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 <mailto:mdkruepke@gmail.com> <mailto:mdkruepke@gmail.com <mailto:mdkruepke@gmail.com>> > >>>>> (262)-483-7449 <tel:%28262%29-483-7449> <tel:%28262%29-483-7449> > >>>>> > >>>>> > >>>>> > >>>>> > >>>>> > >>>>> 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 . 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 <mailto:mdkruepke@gmail.com> <mailto:mdkruepke@gmail.com <mailto:mdkruepke@gmail.com>> > >>>>> (262)-483-7449 <tel:%28262%29-483-7449> <tel:%28262%29-483-7449> > >>>>> > >>>>> > >>>>> > >>> > >>> > > > > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu> <mailto:greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> > Phone Number: 617-724-2358 <tel:617-724-2358> <tel:617-724-2358 <tel:617-724-2358>> > Fax: 617-726-7422 <tel:617-726-7422> <tel:617-726-7422 <tel:617-726-7422>> > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> > <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> > FileDrop: > www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> > <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > <mailto:Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu>> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > -- > Michael D. Kruepke > PhD - University of Illinois at Urbana-Champaign > BA - Psych - University of Wisconsin-Madison > mdkruepke@gmail.com <mailto:mdkruepke@gmail.com> <mailto:mdkruepke@gmail.com <mailto:mdkruepke@gmail.com>> > (262)-483-7449 <tel:%28262%29-483-7449> <tel:%28262%29-483-7449> > > > > > -- > Michael D. Kruepke > PhD - University of Illinois at Urbana-Champaign > BA - Psych - University of Wisconsin-Madison > mdkruepke@gmail.com <mailto:mdkruepke@gmail.com> <mailto:mdkruepke@gmail.com <mailto:mdkruepke@gmail.com>> > (262)-483-7449 <tel:%28262%29-483-7449> <tel:%28262%29-483-7449> > > > > > -- > Michael D. Kruepke > PhD - University of Illinois at Urbana-Champaign > BA - Psych - University of Wisconsin-Madison > mdkruepke@gmail.com <mailto:mdkruepke@gmail.com> <mailto:mdkruepke@gmail.com <mailto:mdkruepke@gmail.com>> > (262)-483-7449 <tel:%28262%29-483-7449> > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu> Phone Number: 617-724-2358 <tel:617-724-2358> Fax: 617-726-7422 <tel:617-726-7422> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer-- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madison mdkruepke@gmail.com mailto:mdkruepke@gmail.com (262)-483-7449
that makes sense. also just for clarification to a point a made before - i was not using label2label to transfer the rh.cortex.label we have been discussing across subjects, i was transferring other labels, which is most likely why the label2label and measurements didnt fail. I believe i misunderstood the rh.cortex.label's use, i was under the impression it was necessary to create the subjects inflated surface and measure thickness, but it appears i was wrong . Sorry for any confusion on that point, it was due to my poor wording of the situation.
best- michael
On Fri, Jun 1, 2012 at 12:25 PM, Douglas N Greve greve@nmr.mgh.harvard.eduwrote:
not unless you are trying to visualize the label
On 06/01/2012 01:16 PM, mdkruepke@uwalumni.com wrote:
Thanks, i am also still able to display the rh in tksurfer without issue, shouldnt that also fail with the current rh.cortex.label?
michael
On Fri, Jun 1, 2012 at 11:57 AM, Douglas N Greve < greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.**edugreve@nmr.mgh.harvard.edu>> wrote:
I would have expected that to fail. You can check the time stamps to see if your output is newer or older than rh.cortex.label. If older, it is probably ok.
On 06/01/2012 12:53 PM, mdkruepke@uwalumni.com mailto:mdkruepke@uwalumni.com** wrote:
Actually one last question-
I used label2label to transfer some labels and grab ROI thickness averages from the labels on the subject with the rh.cortex.label
that
has been overwritten. I received no errors during this, does
this mean
that the label transfers and averages are valid, or do i need to
redo
them?
Best- Michael
On Fri, Jun 1, 2012 at 11:05 AM, mdkruepke@uwalumni.commailto:mdkruepke@uwalumni.com**
<mailto:mdkruepke@uwalumni.com mailto:mdkruepke@uwalumni.com**>
<mdkruepke@uwalumni.com mailto:mdkruepke@uwalumni.com**
<mailto:mdkruepke@uwalumni.com mailto:mdkruepke@uwalumni.com**>>
wrote:
Doug - That does indeed seem to be the problem! Ill just rerun some things here to rectify that. Thanks for all the helpeveryone!
Best- Michael On Fri, Jun 1, 2012 at 11:01 AM, Douglas N Greve<greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.**edugreve@nmr.mgh.harvard.edu
<mailto:greve@nmr.mgh.harvard.**edu greve@nmr.mgh.harvard.edu<mailto: greve@nmr.mgh.harvard.**edu greve@nmr.mgh.harvard.edu>>>
wrote: I think the label file got overwritten at some point. Check the time stamp and see if it is much different than the otherrh files
On 06/01/2012 11:55 AM, mdkruepke@uwalumni.commailto:mdkruepke@uwalumni.com**
<mailto:mdkruepke@uwalumni.com mailto:mdkruepke@uwalumni.com**>
wrote:
Bruce-
It is, and i agree, for instance here is the
lh.cortex.label file#label , from subject ?? 149955 22 -10.374 55.016 3.203 0.0000000000 112 -6.294 36.386 -7.809 0.0000000000 114 -6.137 38.556 13.808 0.0000000000 247 -11.304 45.214 -2.709 0.0000000000 248 -6.278 39.973 2.192 0.0000000000 249 -10.766 45.545 6.476 0.0000000000 507 -11.087 42.990 18.865 0.0000000000
On 6/1/12, Bruce Fischl<fischl@nmr.mgh.harvard.**edufischl@nmr.mgh.harvard.edu
<mailto:fischl@nmr.mgh.**harvard.edu fischl@nmr.mgh.harvard.edu>
<mailto:fischl@nmr.mgh.**harvard.edu fischl@nmr.mgh.harvard.edu
<mailto:fischl@nmr.mgh.**harvard.edu fischl@nmr.mgh.harvard.edu>>> wrote:
that is the rh.cortex.label file? It doesn't look like
it....On Fri, 1 Jun 2012, mdkruepke@uwalumni.com
mailto:mdkruepke@uwalumni.com**
<mailto:mdkruepke@uwalumni.com mailto: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, standarddeviation
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 Fischl<fischl@nmr.mgh.harvard.**edufischl@nmr.mgh.harvard.edu
<mailto:fischl@nmr.mgh.**harvard.edu fischl@nmr.mgh.harvard.edu>
<mailto:fischl@nmr.mgh.**harvard.edu fischl@nmr.mgh.harvard.edu
<mailto:fischl@nmr.mgh.**harvard.edu fischl@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 mailto:mdkruepke@uwalumni.com**
<mailto:mdkruepke@uwalumni.com mailto: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 Fischl >> <fischl@nmr.mgh.harvard.edu
<mailto:fischl@nmr.mgh.**harvard.edu fischl@nmr.mgh.harvard.edu>
<mailto:fischl@nmr.mgh.**harvard.edu fischl@nmr.mgh.harvard.edu
<mailto:fischl@nmr.mgh.**harvard.edu fischl@nmr.mgh.harvard.edu>>>
>> wrote: >> Hi Michael >> >> can you check to see that your partition is
not full? Does the>> rh.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
mailto:mdkruepke@uwalumni.com**
<mailto:mdkruepke@uwalumni.com mailto:mdkruepke@uwalumni.com**>
wrote:
>> >> To anyone who can help - >> I am trying to tun a GLM on a set of
data and am currently>> 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 mailto:mdkruepke@gmail.com
<mailto:mdkruepke@gmail.com mailto:mdkruepke@gmail.com>
>> (262)-483-7449 tel:%28262%29-483-7449
>> >> >> >> >> >> 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/**compliancelinehttp://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 mailto:mdkruepke@gmail.com
<mailto:mdkruepke@gmail.com mailto:mdkruepke@gmail.com>
>> (262)-483-7449 tel:%28262%29-483-7449
>> >> >>
-- Douglas N. Greve, Ph.D. MGH-NMR Centergreve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.**edugreve@nmr.mgh.harvard.edu
<mailto:greve@nmr.mgh.harvard.**edu greve@nmr.mgh.harvard.edu<mailto: greve@nmr.mgh.harvard.**edu greve@nmr.mgh.harvard.edu>>
Phone Number: 617-724-2358 <tel:617-724-2358><tel:617-724-2358 tel:617-724-2358>
Fax: 617-726-7422 <tel:617-726-7422><tel:617-726-7422 tel:617-726-7422>
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-- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madisonmdkruepke@gmail.com mailto:mdkruepke@gmail.com
<mailto:mdkruepke@gmail.com mailto:mdkruepke@gmail.com>
(262)-483-7449 tel:%28262%29-483-7449 tel:%28262%29-483-7449
-- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madisonmdkruepke@gmail.com mailto:mdkruepke@gmail.com
<mailto:mdkruepke@gmail.com mailto:mdkruepke@gmail.com>
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-- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madison mdkruepke@gmail.com mailto:mdkruepke@gmail.com
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-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.**edugreve@nmr.mgh.harvard.edu
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-- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madison mdkruepke@gmail.com mailto:mdkruepke@gmail.com (262)-483-7449
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/**fswiki/BugReportinghttp://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/**facility/filedrop/index.htmlhttp://www.nmr.mgh.harvard.edu/facility/filedrop/index.html
you probably need to redo them since it didn't find the cortex.label it will include the zero thicknesses in the medial wall for example On Fri, 1 Jun 2012, mdkruepke@uwalumni.com wrote:
Actually one last question- I used label2label to transfer some labels and grab ROI thickness averages from the labels on the subject with the rh.cortex.label that has been overwritten. I received no errors during this, does this mean that the label transfers and averages are valid, or do i need to redo them?
Best- Michael
On Fri, Jun 1, 2012 at 11:05 AM, mdkruepke@uwalumni.com <mdkruepke@uwalumni.com> wrote: Doug -That does indeed seem to be the problem! Ill just rerun some things here to rectify that. Thanks for all the help everyone!
Best- Michael
On Fri, Jun 1, 2012 at 11:01 AM, Douglas N Greve greve@nmr.mgh.harvard.edu wrote: I think the label file got overwritten at some point. Check the time stamp and see if it is much different than the other rh files
On 06/01/2012 11:55 AM, mdkruepke@uwalumni.com wrote: > Bruce- > > It is, and i agree, for instance here is the lh.cortex.label file > > #label , from subject ?? > 149955 > 22 -10.374 55.016 3.203 0.0000000000 > 112 -6.294 36.386 -7.809 0.0000000000 > 114 -6.137 38.556 13.808 0.0000000000 > 247 -11.304 45.214 -2.709 0.0000000000 > 248 -6.278 39.973 2.192 0.0000000000 > 249 -10.766 45.545 6.476 0.0000000000 > 507 -11.087 42.990 18.865 0.0000000000 > > On 6/1/12, Bruce Fischl<fischl@nmr.mgh.harvard.edu> 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 Fischl<fischl@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 Fischl >>>>> <fischl@nmr.mgh.harvard.edu> >>>>> wrote: >>>>> Hi Michael >>>>> >>>>> can you check to see that your partition is not full? Does the >>>>> rh.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 am currently >>>>> 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)-483-7449 >>>>> >>>>> >>>>> >>>>> >>>>> >>>>> 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 . 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 >>>>> >>>>> >>>>> >>> >>> > --Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
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-- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madison mdkruepke@gmail.com (262)-483-7449
-- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madison mdkruepke@gmail.com (262)-483-7449
-- 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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