Hi Doug, my command line is
aparcstats2table --subjects subject1 subject2 subject3 --hemi rh --meas thickness --tablefile aparc_stats.txt I tried it on single subjects randomly chosen from the complete list and it works....anyway it's still not working on the complete list while it works fine for the left hemisphere (same list of subjects). Sorry for bothering and thanks again for your help, Pietro 2013/8/29 Douglas N Greve <gr...@nmr.mgh.harvard.edu> > > What is your command line? Try it on a single subject to see if it fails > doug > > > > > On 08/29/2013 02:00 PM, Pietro De Rossi wrote: > >> Hi Doug, >> >> It doesn't seem it is failing on a particular subject...or I am not able >> to get it from the error. Futhermore, nothing changes if I use the --skip >> flag. >> What does it mean when it says: >> >> "List index out of range"? >> >> Inviato da iPhone >> >> Il giorno 29/ago/2013, alle ore 19:38, Douglas N Greve < >> gr...@nmr.mgh.harvard.edu> ha scritto: >> >> Is it failing on one particular subject? >>> >>> >>> On 08/29/2013 09:38 AM, pietro de rossi wrote: >>> >>>> Dear FreeSurfers, >>>> >>>> I am extracting thickness values through the aparcstats2table command >>>> line. >>>> >>>> Everything works just fine for --hemi lh using the --skip flag. >>>> >>>> However, when it comes to the right hemisphere I get >>>> >>>> SUBJECTS_DIR : /usr/local/freesurfer/subjects >>>> Parsing the .stats files >>>> Traceback (most recent call last): >>>> File "/usr/local/freesurfer/bin/**aparcstats2table", line 321, in >>>> <module> >>>> parc_measure_map = parsed.parse(options.meas) >>>> File "/usr/local/freesurfer/bin/**fsutils.py", line 194, in parse >>>> parcid = strlist[0] >>>> IndexError: list index out of range >>>> >>>> I find it weird given that I am extracting thickness values for the >>>> same subjects. >>>> >>>> Can anybody help me find out what the problem is? >>>> >>>> Thank you in advance, >>>> >>>> Pietro >>>> >>>> -- >>>> Pietro De Rossi, MD >>>> ------------------------------**------- >>>> Sapienza Università di Roma, Facoltà di Medicina e Psicologia, >>>> Dipartimento NESMOS (Neuroscienze, Salute Mentale, Organi di Senso), >>>> Ospedale Sant'Andrea, Via di Grottarossa 1035-1039, 00189 Roma >>>> >>>> NESMOS Department (Neurosciences, Mental Health and Sensory >>>> Functions), School of Medicine and Psychology, Sapienza University, >>>> Sant’Andrea Hospital, Via di Grottarossa 1035-1039, 00189 Rome, Italy >>>> >>>> Neurobehavioral Clinical Research Section, Social and Behavioral >>>> Research Branch, National Human Genome Research Institute (NHGRI), >>>> National Institutes of Health (NIH), Bethesda, Maryland 20892, USA >>>> >>>> >>>> ______________________________**_________________ >>>> Freesurfer mailing list >>>> Freesurfer@nmr.mgh.harvard.edu >>>> https://mail.nmr.mgh.harvard.**edu/mailman/listinfo/**freesurfer<https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> >>>> >>> -- >>> 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<http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> >>> FileDrop: >>> https://gate.nmr.mgh.harvard.**edu/filedrop2<https://gate.nmr.mgh.harvard.edu/filedrop2> >>> www.nmr.mgh.harvard.edu/**facility/filedrop/index.html<http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> >>> Outgoing: ftp://surfer.nmr.mgh.harvard.**edu/transfer/outgoing/flat/** >>> greve/ <ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/> >>> >>> ______________________________**_________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> https://mail.nmr.mgh.harvard.**edu/mailman/listinfo/**freesurfer<https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> >>> >>> >>> 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<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. >>> >>> >> > -- > 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<http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> > FileDrop: > https://gate.nmr.mgh.harvard.**edu/filedrop2<https://gate.nmr.mgh.harvard.edu/filedrop2> > www.nmr.mgh.harvard.edu/**facility/filedrop/index.html<http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> > Outgoing: ftp://surfer.nmr.mgh.harvard.**edu/transfer/outgoing/flat/** > greve/ <ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/> > > -- Pietro De Rossi, MD ------------------------------------- Sapienza Università di Roma, Facoltà di Medicina e Psicologia, Dipartimento NESMOS (Neuroscienze, Salute Mentale, Organi di Senso), Ospedale Sant'Andrea, Via di Grottarossa 1035-1039, 00189 Roma NESMOS Department (Neurosciences, Mental Health and Sensory Functions), School of Medicine and Psychology, Sapienza University, Sant’Andrea Hospital, Via di Grottarossa 1035-1039, 00189 Rome, Italy Neurobehavioral Clinical Research Section, Social and Behavioral Research Branch, National Human Genome Research Institute (NHGRI), National Institutes of Health (NIH), Bethesda, Maryland 20892, USA
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer 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.
