On Fri, Jun 1, 2012 at 12:25 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu> wrote:

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
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> >>>>> HelpLine at
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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>
<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>>

>
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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>
<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>
>
>
>

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--
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>
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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/BugReporting
FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html

--
Michael D. Kruepke
PhD - University of Illinois at Urbana-Champaign
BA - Psych - University of Wisconsin-Madison
mdkruepke@gmail.com
(262)-483-7449