Dear FSL experts,
I have search the forum and was not able to find a proper solution to my problem.
I am applying fslvbm on a list of patients vs controls.
I have used fslvbm_1_bet successfully, but when I arrived to fslvbm_2_template, I get the following message:
xxxxx-iMac JAE_JS % fslvbm_2_template -n
JAE1_struc
JAE2_struc
JAE3_struc
JAE4_struc
JAE5_struc
JAE6_struc
JS1_struc
JS2_struc
JS3_struc
JS4_struc
JS5_struc
JS6_struc
Running segmentation: ID=3358
Running initial registration: ID=3603
Image Exception : #63 :: No image files match: JAE1_struc_GM_to_T
libc++abi.dylib: terminating with uncaught exception of type std::runtime_error: No image files match: JAE1_struc_GM_to_T
./fslvbm2c: line 13: 4797 Abort trap: 6 $FSLDIR/bin/fslmerge -t template_4D_GM $mergelist
Image Exception : #63 :: No image files match: template_4D_GM
libc++abi.dylib: terminating with uncaught exception of type std::runtime_error: No image files match: template_4D_GM
./fslvbm2c: line 14: 4798 Abort trap: 6 $FSLDIR/bin/fslmaths template_4D_GM -Tmean template_GM
Image Exception : #63 :: No image files match: template_GM
No image files match: template_GM
/usr/local/fsl/bin/fslswapdim: line 107: [: =: unary operator expected
Image Exception : #63 :: No image files match: template_GM
No image files match: template_GM
/usr/local/fsl/bin/fslswapdim: line 115: [: -gt: unary operator expected
Image Exception : #63 :: No image files match: template_GM
No image files match: template_GM
/usr/local/fsl/bin/fslswapdim: line 117: [: -gt: unary operator expected
Image Exception : #63 :: No image files match: template_GM
libc++abi.dylib: terminating with uncaught exception of type std::runtime_error: No image files match: template_GM
/usr/local/fsl/bin/fslswapdim: line 184: 4828 Abort trap: 6 $comm
Image Exception : #63 :: No image files match: template_GM
libc++abi.dylib: terminating with uncaught exception of type std::runtime_error: No image files match: template_GM
./fslvbm2c: line 16: 4829 Abort trap: 6 $FSLDIR/bin/fslmaths template_GM -add template_GM_flipped -div 2 template_GM_init
Creating first-pass template: ID=
Running registration to first-pass template: ID=The command you have requested cannot be found or is not executable
/usr/local/fsl/bin/fsl_sub: line 514: you: command not found
Creating second-pass template: ID=
Study-specific template will be created, when complete, check results with:
fslview struc/template_4D_GM
and turn on the movie loop to check all subjects, then run:
fslview /usr/local/fsl/data/standard/tissuepriors/avg152T1_gray struc/template_GM
to check general alignment of mean GM template vs. original standard space template.
As I have saw in previous messages, I have checked the fslvbm.e and.o
-for fslvbm2a = no errors in both .e and .o
-for fslvbm2b = no errors in .o, but I get the following in .e:
/usr/local/fsl/bin/fsl_reg: line 125: 3688 Segmentation fault: 11 ${FSLDIR}/bin/flirt -ref $REFERENCE -in $INPUT $INMASK -omat ${I2R}.mat $flirtopts
/usr/local/fsl/bin/fsl_reg: line 145: 3689 Segmentation fault: 11 ${FSLDIR}/bin/flirt -ref $REFERENCE -in $INPUT -applyxfm -init ${I2R}.mat -out $I2R $flirtopts
-for fslvbm2c = .o errors : WARNING - study-specific template will be created from ALL input data - may not be group-size matched!!! and .e errors :
Image Exception : #63 :: No image files match: JAE1_struc_GM_to_T
libc++abi.dylib: terminating with uncaught exception of type std::runtime_error: No image files match: JAE1_struc_GM_to_T
./fslvbm2c: line 13: 4797 Abort trap: 6 $FSLDIR/bin/fslmerge -t template_4D_GM $mergelist
Image Exception : #63 :: No image files match: template_4D_GM
libc++abi.dylib: terminating with uncaught exception of type std::runtime_error: No image files match: template_4D_GM
./fslvbm2c: line 14: 4798 Abort trap: 6 $FSLDIR/bin/fslmaths template_4D_GM -Tmean template_GM
Image Exception : #63 :: No image files match: template_GM
No image files match: template_GM
/usr/local/fsl/bin/fslswapdim: line 107: [: =: unary operator expected
Image Exception : #63 :: No image files match: template_GM
No image files match: template_GM
/usr/local/fsl/bin/fslswapdim: line 115: [: -gt: unary operator expected
Image Exception : #63 :: No image files match: template_GM
No image files match: template_GM
/usr/local/fsl/bin/fslswapdim: line 117: [: -gt: unary operator expected
Image Exception : #63 :: No image files match: template_GM
libc++abi.dylib: terminating with uncaught exception of type std::runtime_error: No image files match: template_GM
/usr/local/fsl/bin/fslswapdim: line 184: 4828 Abort trap: 6 $comm
Image Exception : #63 :: No image files match: template_GM
libc++abi.dylib: terminating with uncaught exception of type std::runtime_error: No image files match: template_GM
./fslvbm2c: line 16: 4829 Abort trap: 6 $FSLDIR/bin/fslmaths template_GM -add template_GM_flipped -div 2 template_GM_init
Any advice on how to proceed?
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