Dear All,
Following up on my previous e-mail - I continue with struggling to
pinpoint the source of the error. The error is below. I running it on
8gb cluster. Compatibility between FSL and OS has been confirmed. I am
not certain why it throws an "Out of memory" exception.
Also I have made sure that all the volumes have good headers and are
in appropriate locations within my directory structure.
Image Exception : #99 :: Out of memory
terminate called after throwing an instance of 'RBD_COMMON::BaseException'
/autofs/space/lang_012/users/FREESURFER_HOME_CVRAM/FSL_4.1.2/bin/tbss_deproject:
line 94: 23121 Aborted $FSLDIR/bin/tbss_skeleton -i
mean_FA -p `cat thresh.txt` mean_FA_skeleton_mask_dst
$FSLDIR/data/standard/LowerCingulum_1mm all_FA ${IN}_tmp -D $IN
** ERROR (nifti_image_read): failed to find header file for
'/autofs/space/orion_002/users/DTI/TBSS_dir/stats/ldlchol.mc-z.abs.2.sig.ocn_to_all_FA'
** ERROR: nifti_image_open(/autofs/space/orion_002/users/DTI/TBSS_dir/stats/ldlchol.mc-z.abs.2.sig.ocn_to_all_FA):
bad header info
Error: failed to open file
/autofs/space/orion_002/users/DTI/TBSS_dir/stats/ldlchol.mc-z.abs.2.sig.ocn_to_all_FA
Cannot open volume
/autofs/space/orion_002/users/DTI/TBSS_dir/stats/ldlchol.mc-z.abs.2.sig.ocn_to_all_FA
for reading!
dc: stack empty
dc: stack empty
dc: stack empty
dc: dc: stack empty
dc: stack empty
dc: stack empty
dc: dc: dc: stack empty
dc: dc: stack empty
dc: stack empty
dc: stack empty
dc: dc: dc: stack empty
dc: dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: dc: input base must be a number between 2 and 16 (inclusive)
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
dc: dc: input base must be a number between 2 and 16 (inclusive)
dc: stack empty
dc: stack empty
dc: stack empty
dc: stack empty
/autofs/space/lang_012/users/FREESURFER_HOME_CVRAM/FSL_4.1.2/bin/tbss_deproject:
line 130: [: 't': integer expression expected
** ERROR (nifti_image_read): failed to find header file for
'CVRAM_001_FA_FA_/autofs/space/orion_002/users/DTI/TBSS_0.4thresh_07152009/stats/ldlchol.mc-z.abs.2.sig.ocn'
** ERROR: nifti_image_open(CVRAM_001_FA_FA_/autofs/space/orion_002/users/DTI/TBSS_0.4thresh_07152009/stats/ldlchol.mc-z.abs.2.sig.ocn):
bad header info
Error: failed to open file
CVRAM_001_FA_FA_/autofs/space/orion_002/users/DTI/TBSS_0.4thresh_07152009/stats/ldlchol.mc-z.abs.2.sig.ocn
Cannot open volume
CVRAM_001_FA_FA_/autofs/space/orion_002/users/DTI/TBSS_0.4thresh_07152009/stats/ldlchol.mc-z.abs.2.sig.ocn
for reading!
** ERROR (nifti_image_read): failed to find header file for
'CVRAM_001_FA_FA_/autofs/space/orion_002/users/DTI/TBSS_0.4thresh_07152009/stats/ldlchol.mc-z.abs.2.sig.ocn'
** ERROR: nifti_image_open(CVRAM_001_FA_FA_/autofs/space/orion_002/users/DTI/TBSS_0.4thresh_07152009/stats/ldlchol.mc-z.abs.2.sig.ocn):
bad header info
Error: failed to open file
C001_FA_FA_/autofs/space/orion_002/users/DTI/TBSS_0.4thresh_07152009/stats/ldlchol.mc-z.abs.2.sig.ocn
Cannot open volume
C001_FA_FA_/autofs/space/orion_002/users/DTI/TBSS_0.4thresh_07152009/stats/ldlchol.mc-z.abs.2.sig.ocn
for reading!
dc: stack empty
dc: stack empty
etc... for all other subjects.
Your input will be much appreciated!
Kind Regards,
Steph
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