If you got all the output (files called merged_*) you can ignore that error message...
Saad.
On 4 Mar 2010, at 02:18, Joanne Lin wrote:
> Thank you for that. I got it running, but after 20 something hours, it
> appears to have finished but I got error messages -
>
> Errors - /usr/local/fsl/bin/bedpostx: line 250: kill: (4591) - No such
> process
>
> And this one -
>
> grab failed: window not viewable
> grab failed: window not viewable
> while executing
> "grab -global $w"
> (procedure "tk::MbPost" line 118)
> invoked from within
> "tk::MbPost $tk::Priv(inMenubutton) 1077 101"
> invoked from within
> "if {$tk::Priv(inMenubutton) ne ""} {
> tk::MbPost $tk::Priv(inMenubutton) 1077 101
> }"
> (command bound to event)
>
> Thoughts?
>
> Cheers,
> Jo
>
>
> On Tue, 2010-03-02 at 22:41 +1300, Saad Jbabdi wrote:
>> Make sure these files are called "bvals" and "bvecs" with no extension
>> (i.e. NOT bvals.txt etc.)
>>
>>
>> Saad.
>>
>>
>>
>> On 2 Mar 2010, at 03:01, Joanne Lin wrote:
>>
>>> Hi everyone,
>>>
>>> I am trying to select an input directory in the bedpostx GUI, but
>>> have
>>> come up with an error message -
>>>
>>> wrong # args: should be "set_working_directory cwd filename"
>>> wrong # args: should be "set_working_directory cwd filename"
>>> while executing
>>> "set_working_directory dtifit(cwd) /home/jlin137/Data/FSL
>>> Analysis/Controls/fdt_subj02"
>>> ("eval" body line 1)
>>> invoked from within
>>> "eval "$command $outputfile1" "
>>> (procedure "feat_file:invoke" line 29)
>>> invoked from within
>>> "feat_file:invoke .wdialog1
>>> bedpost(directory) .fdt.bedpost.directory.var_filhis .fdt.bedpost.directory.var_selhis ::FileEntry {set_working_directory d..."
>>> invoked from within
>>> ".wdialog1.f4.but_ok invoke"
>>> ("uplevel" body line 1)
>>> invoked from within
>>> "uplevel #0 [list $w invoke]"
>>> (procedure "tk::ButtonUp" line 22)
>>> invoked from within
>>> "tk::ButtonUp .wdialog1.f4.but_ok"
>>> (command bound to event)
>>>
>>>
>>> I then ran bedpostx_datacheck and got this -
>>>
>>>
>>> .//data
>>> data_type INT16
>>> dim1 128
>>> dim2 128
>>> dim3 45
>>> dim4 31
>>> datatype 4
>>> pixdim1 1.7968750000
>>> pixdim2 1.7968750000
>>> pixdim3 3.0000000000
>>> pixdim4 1.0000000000
>>> cal_max 2853.0000
>>> cal_min 0.0000
>>> file_type NIFTI-1+
>>>
>>> .//nodif_brain_mask
>>> data_type INT16
>>> dim1 128
>>> dim2 128
>>> dim3 45
>>> dim4 1
>>> datatype 4
>>> pixdim1 1.7968750000
>>> pixdim2 1.7968750000
>>> pixdim3 3.0000000000
>>> pixdim4 1.0000000000
>>> cal_max 0.0000
>>> cal_min 0.0000
>>> file_type NIFTI-1+
>>>
>>> num lines in .//bvals
>>> cat: .//bvals: No such file or directory
>>> 0
>>> num words in .//bvals
>>> cat: .//bvals: No such file or directory
>>> 0
>>> num lines in .//bvecs
>>> cat: .//bvecs: No such file or directory
>>> 0
>>> num words in .//bvecs
>>> cat: .//bvecs: No such file or directory
>>> 0
>>> cat: .//bvals: No such file or directory
>>> cat: .//bvals: No such file or directory
>>> Runtime error (func=(main), adr=3): Divide by zero
>>> cat: .//bvecs: No such file or directory
>>> cat: .//bvecs: No such file or directory
>>> Runtime error (func=(main), adr=3): Divide by zero
>>> /usr/local/fsl/bin/bedpostx_datacheck: line 51: [: too many
>>> arguments
>>> /usr/local/fsl/bin/bedpostx_datacheck: line 55: [: too many
>>> arguments
>>> /usr/local/fsl/bin/bedpostx_datacheck: line 59: [: too many
>>> arguments
>>> number of elements in bvals is not equal to number of vols in data
>>> /usr/local/fsl/bin/bedpostx_datacheck: line 67: [: too many
>>> arguments
>>>
>>> It seems that it's telling me my bvecs/bvals aren't in the place
>>> where
>>> they should be, but they are. Could there be something wrong with
>>> my
>>> files or the format of them?
>>>
>>>
>>> Cheers,
>>> Jo
>>>
>>>
>>>
>>>
>>
>> --
>> Saad Jbabdi
>> University of Oxford, FMRIB Centre
>>
>>
>> JR Hospital, Headington, OX3 9DU, UK
>> (+44)1865-222466 (fax 717)
>> www.fmrib.ox.ac.uk/~saad
>>
>>
>>
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>> __________ Information from ESET NOD32 Antivirus, version of virus
>> signature database 4910 (20100302) __________
>>
>> The message was checked by ESET NOD32 Antivirus.
>>
>> http://www.eset.com
>
--
Saad Jbabdi
University of Oxford, FMRIB Centre
JR Hospital, Headington, OX3 9DU, UK
(+44)1865-222466 (fax 717)
www.fmrib.ox.ac.uk/~saad
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