Just kidding, the problem has been fixed on our end.
We found that the 2nd higher-level analysis was taking a longer time
to access the cope directories compared to the 1st higher-level did
to access the postproc directories. It was taking so long that it
timed-out and thought the data were missing.
Thanks!
ted
On Oct 30, 2008, at 8:04 PM, Ted Yanagihara wrote:
> Thanks for the help with this, I've re-run all of my lower level
> directories and run two types of group analyses. Now I think I've
> isolated the problem. When running a higher-level analysis on all
> my runs for a given subject, there is no problem. When I then try
> to do a second higher-level analysis on each cope directory across
> my subjects, I get the errors below. However, if I run a single
> higher-level analysis where all of my inputs are the postproc
> directories it runs smoothly. From what I can tell, the error says
> that FEAT cannot open some of the cope directories, but each time I
> run it there the directories that it can and cannot find are
> different.
>
> Our admin tells me that all the mounts are fine and haven't been
> giving problems to anyone else. Any suggestions would help. Thank
> you!!
>
> ted
>
> Here is an example of the error:
>
>
> /common/fsl4.1/bin/featregapply /Volumes/Clinical/data/tyanagihara/
> sweat/heat/x_nc83/s1/group_r34GTr12/cope1.feat
> couldn't change working directory to "/Volumes/Clinical/data/
> tyanagihara/sweat/heat/x_nc83/s1/group_r34GTr12/cope1.feat": no
> such file or directory
> while executing
> "cd [ lindex $argv 0 ]"
> (file "/common/fsl4.1/bin/featregapply" line 144)
>
> /common/fsl4.1/bin/featregapply /Volumes/Clinical/data/tyanagihara/
> sweat/heat/x_sp78/s1/group_r34GTr12/cope1.feat
> couldn't change working directory to "/Volumes/Clinical/data/
> tyanagihara/sweat/heat/x_sp78/s1/group_r34GTr12/cope1.feat": no
> such file or directory
> while executing
> "cd [ lindex $argv 0 ]"
> (file "/common/fsl4.1/bin/featregapply" line 144)
>
> /common/fsl4.1/bin/featregapply /Volumes/Clinical/data/tyanagihara/
> sweat/heat/p_ao78/s1/group_r34GTr12/cope1.feat
>
> /common/fsl4.1/bin/featregapply /Volumes/Clinical/data/tyanagihara/
> sweat/heat/p_dc70/s1/group_r34GTr12/cope1.feat
>
> /common/fsl4.1/bin/featregapply /Volumes/Clinical/data/tyanagihara/
> sweat/heat/p_dd83/s1/group_r34GTr12/cope1.feat
>
>
>
> On Oct 28, 2008, at 3:26 AM, Steve Smith wrote:
>
>> Hi,
>>
>> I think this isn't related to mean_func but in trying to process
>> lower-level FEAT directories to find information in the headers of
>> the .con and .lcon files - possibly your lower-level FEAT
>> directories no longer have all the correct files in them?
>>
>> Cheers.
>>
>>
>>
>> On 27 Oct 2008, at 18:30, Ted Yanagihara wrote:
>>
>>> In my group analysis, FEAT keeping having an error when it takes
>>> the mean across time of mean_func.nii.gz. However, when I run
>>> this command manually, it works fine. Any ideas on what is
>>> causing this error? Thanks in advance.
>>>
>>> From report_log:
>>>
>>> /common/fsl4.1/bin/fslmaths mean_func -Tmean mean_func
>>> syntax error in expression "1.000000e+00 * ": premature end of
>>> expression
>>> while executing
>>> "expr $mean_lcon_incr * [ exec sh -c "cat $feat_files($session)/
>>> design.lcon" ] "
>>> (procedure "feat5:proc_gfeatprep" line 194)
>>> invoked from within
>>> "feat5:proc_gfeatprep "
>>> ("-gfeatprep" arm line 2)
>>> invoked from within
>>> "switch -- [ lindex $argv $argindex ] {
>>>
>>> -I {
>>> incr argindex 1
>>> set session [ lindex $argv $argindex ]
>>> }
>>>
>>> -D {
>>> incr argindex 1
>>> set..."
>>> ("for" body line 2)
>>> invoked from within
>>> "for { set argindex 1 } { $argindex < $argc } { incr argindex 1 } {
>>> switch -- [ lindex $argv $argindex ] {
>>>
>>> -I {
>>> incr argindex 1
>>> set ses..."
>>> (file "/common/fsl4.1/bin/feat" line 137)
>>>
>>
>>
>> ---------------------------------------------------------------------
>> ------
>> Stephen M. Smith, Professor of Biomedical Engineering
>> Associate Director, Oxford University FMRIB Centre
>>
>> FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
>> +44 (0) 1865 222726 (fax 222717)
>> [log in to unmask] http://www.fmrib.ox.ac.uk/~steve
>> ---------------------------------------------------------------------
>> ------
>>
>
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