Hi,
Have you looked at the results in your struc directory after
running fslvbm_1_bet?
It seems that con_002_struc_brain is missing. Have you
looked at this image, or is there a similarly named one
there instead?
The important error is always the first one in the chain.
And there is never any point in running a subsequent
stage (e.g. fslvbm_3_proc) until errors in the previous
stage are all fixed.
All the best,
Mark
On 20 Dec 2010, at 18:39, Aditya Kumar Kasinadhuni wrote:
> Hello Mark,
>
> That command does not elicit any output either in the /struc or /stats folder. However when I look at the contents there are unix executable files that are called fslvbm2a. 2b, 2c, 2d, 2e and 3a that are of 4kb size.
>
> On opening these from the command prompt I can see a list of errors.
>
> fslvbm2a:
> ** ERROR (nifti_image_read): failed to find header file for 'con_002_struc_brain'
> ** ERROR: nifti_image_open(con_002_struc_brain): bad header info
> Error: failed to open file con_002_struc_brain
> ERROR: Could not open image con_002_struc_brain
> Image Exception : #22 :: Failed to read volume con_002_struc_brain
> terminate called after throwing an instance of 'RBD_COMMON::BaseException'.
>
> and that repeats for all the image datasets.
>
> fslvbm2b:
> phhp-QP0150RTB9S:~ ak.kasinadhuni$ /Users/ak.kasinadhuni/trial_vbm/attempt2/struc/fslvbm2b ; exit;
> ** ERROR (nifti_image_read): failed to find header file for 'con_002_struc_GM'
> ** ERROR: nifti_image_open(con_002_struc_GM): bad header info
> Error: failed to open file con_002_struc_GM
> ERROR: Could not open image con_002_struc_GM
> Image Exception : #22 :: Failed to read volume con_002_struc_GM
> terminate called after throwing an instance of 'RBD_COMMON::BaseException'
> /Applications/FSL/fsl/bin/fsl_reg: line 124: 48191 Abort trap ${FSLDIR}/bin/flirt -ref $REFERENCE -in $INPUT $INMASK -omat ${I2R}.mat $flirtopts
> ** ERROR (nifti_image_read): failed to find header file for 'con_002_struc_GM'
> ** ERROR: nifti_image_open(con_002_struc_GM): bad header info
> Error: failed to open file con_002_struc_GM
> ERROR: Could not open image con_002_struc_GM
> Image Exception : #22 :: Failed to read volume con_002_struc_GM
> terminate called after throwing an instance of 'RBD_COMMON::BaseException'
>
> ..and so on..
>
> Do you think you would need me to list the others as well so that you can help better?
>
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