Sounds like you might need to clean things up from the original
aborted run - delete the .commands file and any .msf files and try
again?
Cheers.
On 18 Nov 2007, at 01:46, Lokke Highstein wrote:
> hi, thanks for the help.
>
> we ran this job just like every other job, in that ted logged in via
> ssh to the head node and ran the job via command line. running
> bedpost jobs works just fine this way, so we are curious what we
> have to do differently for this type of job.
>
> thanks again, we're really excited about the type of work we are
> able to do with the new version of fsl.
>
> -lokke
>
> On Nov 17, 2007, at 4:29 AM, Steve Smith wrote:
>
>> This sounds like you're running tbss_2_reg simultaneously on more
>> than one machine? To run this with SGE, you should run it just
>> once, on an SGE submission machine, and it will do the SGE
>> submissions of the sub-jobs for you.
>>
>> Cheers.
>>
>>
>> On 16 Nov 2007, at 21:54, Ted Yanagihara wrote:
>>
>>> Hi list,
>>>
>>> I am trying to run TBSS on our cluster and tried to set up the
>>> SGE_ROOT as described on the FSL website, but found no reference
>>> to SGE_ROOT in tbss_2_reg although we do see that fsl_sub is
>>> called at the end of tbss_2_reg. The cluster has been working for
>>> all our other jobs (thanks to the list's help), but here is the
>>> error we get after running "tbss_2_reg -T"
>>>
>>> wc: .commands: open: No such file or directory
>>> qsub: command required for a binary job
>>>
>>>
>>> Thanks in advance!
>>>
>>> ted
>>>
>>
>>
>> ---------------------------------------------------------------------------
>> 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
>> ---------------------------------------------------------------------------
---------------------------------------------------------------------------
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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