Can you run the command below outside of qdec and send us the error it prints to the terminal?
asegstats2table --common-segs --meas volume --tablefile /mnt/engram/projects/IndivRITL/data/leviDiff/Subjects/qdec/stats_tables/aseg.volume.stats.dat --statsfile=aseg.stats --subjects 100307 101006 104820 105115 110411 111312 111413 111716 112819 113215 113619 113922 114419 115320 116524 117122 117324 118528 135225 135932 150625 150726 151223 151526 170934 171633 172130 172332 172534 172938 173334 175439 177645 177746 178142 200109 200614 201111 201414 201818 203418 204016 204521 304020 307127 308331 310621 316633 329440 365343 366042 377451 380036 385450 386250 412528 433839 436239 480141 486759 497865 499566 500222 510326 530635 531536 540436 561242 562446 565452 566454 567052 567961 568963 571548 580044 580347 581349 583858 586460 594156 598568 599671 On 12/14/2015 02:15 PM, levi solomyak wrote: > Dear experts, > > I've been attempting to generate a stats data table in qdec, but each > time I get a "Index Error: list index is out of range" error. This is > occurring when it is trying to parse the .stats file. > > I've made sure that the files all line up exactly with the qdec table > and that SUBJECTS_DIR is properly sourced so I'm not sure how to fix > this problem. Any help would be greatly appreciated! > > > Here are the details of the errors: > > 1) machine being used: Linux localhost.localdomain > 3.10.0-229.4.2.el7.x86_64 #1 SMP Wed May 13 10:06:09 UTC 2015 x86_64 > x86_64 x86_64 GNU/Linux > 2) Freesurfer version: > freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0-HCP > 3) Current working directory: /projects/IndivRITL/data/leviDiff/Subjects > 4) which qdec : /usr/local/freesurfer/bin/qdec > 5) After loading the gui, I attempted to generate a qdec stats table. > This is the error that was returned: > > ----------------------------------------------------------------------------------- > asegstats2table --common-segs --meas volume --tablefile > /mnt/engram/projects/IndivRITL/data/leviDiff/Subjects/qdec/stats_tables/aseg.volume.stats.dat > > --statsfile=aseg.stats --subjects 100307 101006 104820 105115 110411 > 111312 111413 111716 112819 113215 113619 113922 114419 115320 116524 > 117122 117324 118528 135225 135932 150625 150726 151223 151526 170934 > 171633 172130 172332 172534 172938 173334 175439 177645 177746 178142 > 200109 200614 201111 201414 201818 203418 204016 204521 304020 307127 > 308331 310621 316633 329440 365343 366042 377451 380036 385450 386250 > 412528 433839 436239 480141 486759 497865 499566 500222 510326 530635 > 531536 540436 561242 562446 565452 566454 567052 567961 568963 571548 > 580044 580347 581349 583858 586460 594156 598568 599671 > SUBJECTS_DIR : /mnt/engram/projects/IndivRITL/data/leviDiff/Subjects > Parsing the .stats files > Traceback (most recent call last): > File "/usr/local/freesurfer/bin/asegstats2table", line 538, in <module> > id_name_map, measurelist = parsed.parse(options.meas) > File "/home/usr/local/freesurfer/bin/fsutils.py", line 115, in parse > self.id_name_map[seg] = strlst[4] # Col 4 is Seg Name > IndexError: list index out of range > ERROR: In > /usr/pubsw/packages/KWWidgets/CVS-vtk560/KWWidgets/vtkKWTkUtilities.cxx, > line 230 > vtkKWQdecApp (0x278d8060): > Script: > vtkTemp2 GenerateStatsDataTables > Returned Error on line 1: > Uncaught exception: command failed: asegstats2table --common-segs > --meas volume --tablefile > /mnt/engram/projects/IndivRITL/data/leviDiff/Subjects/qdec/stats_tables/aseg.volume.stats.dat > > --statsfile=aseg.stats --subjects 100307 101006 104820 105115 110411 > 111312 111413 111716 112819 113215 113619 113922 114419 115320 116524 > 117122 117324 118528 135225 135932 150625 150726 151223 151526 170934 > 171633 172130 172332 172534 172938 173334 175439 177645 177746 178142 > 200109 200614 201111 201414 201818 203418 204016 204521 304020 307127 > 308331 310621 316633 329440 365343 366042 377451 380036 385450 386250 > 412528 433839 436239 480141 486759 497865 499566 500222 510326 530635 > 531536 540436 561242 562446 565452 566454 567052 567961 568963 571548 > 580044 580347 581349 583858 586460 594156 598568 599671 > > Stack trace: > Uncaught exception: command failed: asegstats2table --common-segs > --meas volume --tablefile > /mnt/engram/projects/IndivRITL/data/leviDiff/Subjects/qdec/stats_tables/aseg.volume.stats.dat > > --statsfile=aseg.stats --subjects 100307 101006 104820 105115 110411 > 111312 111413 111716 112819 113215 113619 113922 114419 115320 116524 > 117122 117324 118528 135225 135932 150625 150726 151223 151526 170934 > 171633 172130 172332 172534 172938 173334 175439 177645 177746 178142 > 200109 200614 201111 201414 201818 203418 204016 204521 304020 307127 > 308331 310621 316633 329440 365343 366042 377451 380036 385450 386250 > 412528 433839 436239 480141 486759 497865 499566 500222 510326 530635 > 531536 540436 561242 562446 565452 566454 567052 567961 568963 571548 > 580044 580347 581349 583858 586460 594156 598568 599671 > > while executing > "vtkTemp2 GenerateStatsDataTables" > ------------------------------------------------------------------------------------------------------- > > Thanks, > LS > > -- > Levi Solomyak > Cole Neuroscience Laboratory (_colelab.org <http://colelab.org/>_) > Center for Molecular and Behavioral Neuroscience (CMBN) > Rutgers-Newark University > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > 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 FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: 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 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.
