On Thu, 19 Feb 2009 19:03:31 +0100, Markus Gschwind
<
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>Hi Rajeet!
>
>This time the problem seems resolvable ,-)
>
>it says **data dimensions do not match mask dimensions**
>
>and it shows:
>
>/home/rajeet/Desktop/new/data
>data_type INT16
>dim1 128
>dim2 128
>dim3 63
>dim4 100
>[...]
>
>and
>/home/rajeet/Desktop/new/nodif_brain_mask
>data_type FLOAT32
>dim1 176
>dim2 256
>dim3 256
>dim4 1
>[...]
>
>It looks as you took the nodif_brain_mask form a T1.
>You should take it form the dti data also.
>That is just run
>
>bet yourDTI_data yourDTI_data_brain -m
>
>(the -m mode gives you the nodif_brain_mask)
>
>I think having dont this: Enjoy!
>
>Markus
>
>
>2009/2/19 Rajeet Saluja <
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>
>> Hi,
>>
>> So after about a week of loading and re-loading FSL, I think I finally have
>> it installed correctly...Only problem is I'm still having a problem with
>> FDT-bedpostx step.
>>
>> When I run FEEDS, everything seems to pass including FDT. Doing "echo
>> $FSLDIR" yeilds "/usr/share/fsl", but when I try it out I get the following
>> issues: After running DTIFIT, everything seems to be okay except that at
>> the very end, I get the following error message in a separate window, while
>> in the terminal all it says is "Done"
>>
>> window name "prompt" already exists in parent
>> window name "prompt" already exists in parent
>> while executing
>> "toplevel .prompt -borderwidth 5"
>> (procedure "MxPause" line 4)
>> invoked from within
>> "MxPause " Done! " "
>> (procedure "fdt:apply" line 317)
>> invoked from within
>> "fdt:apply .fdt keep"
>> invoked from within
>> ".fdt.apply invoke"
>> ("uplevel" body line 1)
>> invoked from within
>> "uplevel #0 [list $w invoke]"
>> (procedure "tk::ButtonUp" line 22)
>> invoked from within
>> "tk::ButtonUp .fdt.apply"
>> (command bound to event)
>>
>>
>> Also, if I try running bedpostx_datacheck, I get the following info:
>>
>> /home/rajeet/Desktop/new/data
>> data_type INT16
>> dim1 128
>> dim2 128
>> dim3 63
>> dim4 100
>> datatype 4
>> pixdim1 2.0000000000
>> pixdim2 2.0000000000
>> pixdim3 2.0000000000
>> pixdim4 1.0000000000
>> cal_max 0.0000
>> cal_min 0.0000
>> file_type NIFTI-1+
>>
>> /home/rajeet/Desktop/new/nodif_brain_mask
>> data_type FLOAT32
>> dim1 176
>> dim2 256
>> dim3 256
>> dim4 1
>> datatype 16
>> pixdim1 1.0000000000
>> pixdim2 1.0000000000
>> pixdim3 1.0000000000
>> pixdim4 1.0000000000
>> cal_max 0.0000
>> cal_min 0.0000
>> file_type NIFTI-1+
>>
>> num lines in /home/rajeet/Desktop/new/bvals
>> 1
>> num words in /home/rajeet/Desktop/new/bvals
>> 100
>> num lines in /home/rajeet/Desktop/new/bvecs
>> 3
>> num words in /home/rajeet/Desktop/new/bvecs
>> 300
>> data dimensions do not match mask dimensions
>>
>>
>> Now, I understood that you don't necessarily need to run DTIFIT in order to
>> go through the FDT procedure, but running the bedpostx_datacheck prior to
>> the DTIFIT stage yielded the exact same message. Any ideas? Could this
>> mean that the bvals and bvecs files are no good? Thanks in advance...
>>
>> Rajeet
>>
>
>
>
>--
>Dr. med. Markus Gschwind, M.D.
>Laboratory for Neurology and Imaging of Cognition
>Dept of Neurosciences
>University Medical Center (CMU)
>1 Michel-Servet - 1211 GENEVA - CH
>
>Tel 0041 (0) 22 379 5324
>Fax 0041 (0) 22 379 5402
>email:
[log in to unmask]
>
http://labnic.unige.ch
>
