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, mdkrue...@uwalumni.com < > mdkrue...@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 < >> gr...@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, mdkrue...@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<fis...@nmr.mgh.harvard.edu> wrote: >>> >> that is the rh.cortex.label file? It doesn't look like it.... >>> >> >>> >> On Fri, 1 Jun 2012, mdkrue...@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<fis...@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, >>> >>>> mdkrue...@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 >>> >>>>> <fis...@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, mdkrue...@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 >>> >>>>> mdkrue...@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 >>> >>>>> mdkrue...@gmail.com >>> >>>>> (262)-483-7449 >>> >>>>> >>> >>>>> >>> >>>>> >>> >>> >>> >>> >>> > >>> >>> -- >>> Douglas N. Greve, Ph.D. >>> MGH-NMR Center >>> gr...@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 >>> >>> _______________________________________________ >>> Freesurfer mailing list >>> 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 >> mdkrue...@gmail.com >> (262)-483-7449 >> >> > > > -- > Michael D. Kruepke > PhD - University of Illinois at Urbana-Champaign > BA - Psych - University of Wisconsin-Madison > mdkrue...@gmail.com > (262)-483-7449 > > -- Michael D. Kruepke PhD - University of Illinois at Urbana-Champaign BA - Psych - University of Wisconsin-Madison mdkrue...@gmail.com (262)-483-7449
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