It just loads in a single file and creates a "table" with one row.
On 05/16/2012 02:02 PM, Rashmi Singh wrote: > Can you also let me know what does the following command do. > Thanks, > Rashmi. > > On 5/16/12 12:58 PM, "Douglas N Greve"<gr...@nmr.mgh.harvard.edu> wrote: > >> I was able to load both of those. Try this: >> >> cd /opt/freesurfer/subjects/AA262.G1/stats >> asegstats2table -i aseg.stats -t test.dat >> >> doug >> >> >> >> >> On 05/16/2012 01:25 PM, Rashmi Singh wrote: >>> Doug, >>> Attached are the aseg.stat files of the two different runs (AA262.G1 and >>> AB054.G1) where I got the error message. >>> Thanks >>> Rashmi. >>> >>> >>> On 5/16/12 11:41 AM, "Douglas N Greve"<gr...@nmr.mgh.harvard.edu> >>> wrote: >>> >>>> Can you send me /opt/freesurfer/subjects/AA262.G1/stats/aseg.stats? >>>> Also, please remember to copy the list so that others can see the >>>> answer >>>> and so that others can help with the answer. >>>> thanks! >>>> doug >>>> >>>> On 05/16/2012 11:56 AM, Rashmi Singh wrote: >>>>> Dough, >>>>> >>>>> Yes, the stat files exist with all its content. I can individually >>>>> import the text aseg files into xcell sheet, but I have 44 data >>>>> files, so I was trying asegstat2table option. >>>>> What do you think may be going wrong. The output file says that recon >>>>> all completed without error for all my subject files. >>>>> >>>>> Thanks, >>>>> Rashmi. >>>>> >>>>> >>>>> >>>>> >>>>> Do those files exist? Do they have content in them? >>>>> doug >>>>> >>>>> On 05/15/2012 05:51 PM, Rashmi Singh wrote: >>>>> >>>>> Hello, >>>>> I am trying to get the asegmentation information after the >>>>> recon-all >>>>> run in the table form, but I am continuously getting the >>>>> following >>>>> error >>>>> >>>>> asegstats2table --subjects AA262.G1 AA267.G2 AA304.G1 --meas >>>>> volume >>>>> --tablefile asegstats.txt >>>>> SUBJECTS_DIR : /opt/freesurfer/subjects >>>>> Parsing the .stats files >>>>> ERROR: The stats file >>>>> /opt/freesurfer/subjects/AA262.G1/stats/aseg.stats is not found >>>>> or >>>>> is >>>>> too small to be a valid statsfile >>>>> Use --skip flag to automatically skip bad stats files >>>>> >>>>> I did try to use the skip option , but then , it skips all the >>>>> files >>>>> giving the same error. >>>>> When I individually open the aseg files from the stats folder, >>>>> those >>>>> look fine to me. >>>>> >>>>> Please advise. >>>>> >>>>> Rashmi. >>>>> >>>>> >>>>> >>>>> ----------------------------------------------------------------------- >>>>> - >>>>> >>>>> This document may contain information covered under the Privacy Act, 5 >>>>> USC 552(a), and/or the Health Insurance Portability and Accountability >>>>> Act (PL 104-191) and its various implementing regulations and must be >>>>> protected in accordance with those provisions. Healthcare information >>>>> is personal and sensitive and must be treated accordingly. If this >>>>> correspondence contains healthcare information it is being provided to >>>>> you after appropriate authorization from the patient or under >>>>> circumstances that don't require patient authorization. You, the >>>>> recipient, are obligated to maintain it in a safe, secure and >>>>> confidential manner. Redisclosure without additional patient consent >>>>> or as permitted by law is prohibited. Unauthorized redisclosure or >>>>> failure to maintain confidentiality subjects you to application of >>>>> appropriate sanction. If you have received this correspondence in >>>>> error, please notify the sender at once and destroy any copies you >>>>> have made. >>>> -- >>>> 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 >>>> >>>> >>>> >>>> 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. >>>> >>> ________________________________ >>> >>> This document may contain information covered under the Privacy Act, 5 >>> USC 552(a), and/or the Health Insurance Portability and Accountability >>> Act (PL 104-191) and its various implementing regulations and must be >>> protected in accordance with those provisions. Healthcare information is >>> personal and sensitive and must be treated accordingly. If this >>> correspondence contains healthcare information it is being provided to >>> you after appropriate authorization from the patient or under >>> circumstances that don't require patient authorization. You, the >>> recipient, are obligated to maintain it in a safe, secure and >>> confidential manner. Redisclosure without additional patient consent or >>> as permitted by law is prohibited. Unauthorized redisclosure or failure >>> to maintain confidentiality subjects you to application of appropriate >>> sanction. If you have received this correspondence in error, please >>> notify the sender at once and destroy any copies you have made. >> -- >> 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 >> >> > > ________________________________ > > This document may contain information covered under the Privacy Act, 5 USC > 552(a), and/or the Health Insurance Portability and Accountability Act (PL > 104-191) and its various implementing regulations and must be protected in > accordance with those provisions. Healthcare information is personal and > sensitive and must be treated accordingly. If this correspondence contains > healthcare information it is being provided to you after appropriate > authorization from the patient or under circumstances that don't require > patient authorization. You, the recipient, are obligated to maintain it in a > safe, secure and confidential manner. Redisclosure without additional patient > consent or as permitted by law is prohibited. Unauthorized redisclosure or > failure to maintain confidentiality subjects you to application of > appropriate sanction. If you have received this correspondence in error, > please notify the sender at once and destroy any copies you have made. > > -- 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
