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
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