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Dear neurodebian users and developers,<br>
<br>
I am using condor for bedpostx paralelising on Ubuntu 12.04. The
computation worked but suddenly it does not. Does anyone have same
problem? Some problem with update or something else?<br>
<br>
Here is my folder with dMRI data. I think everything should be
right.<br>
<br>
labounek@PC-E229-455:/media/407285B97285B3E6/Data/humanconnectome/Q3/151526/T1w/Diffusion$
<b>ls</b><b><br>
</b>bedpostx_qsub.RZG87UQEgeo23<b> bvals bvecs
data.nii.gz grad_dev.nii.gz nodif_brain_mask.nii.gz</b><b><br>
</b><br>
Now, when I will use bedpostx comand with default parameter setting
I will get the condor output:<br>
<br>
<b>fsl5.0-bedpostx
/media/407285B97285B3E6/Data/humanconnectome/Q3/151526/T1w/Diffusion</b><br>
______________________________________________________________________________________________________________________________________<br>
subjectdir is
/media/407285B97285B3E6/Data/humanconnectome/Q3/151526/T1w/Diffusion<br>
Making bedpostx directory structure<br>
Queuing preprocessing stages<br>
Queuing parallel processing stage<br>
Queuing post processing stage<br>
<br>
Type
/media/407285B97285B3E6/Data/humanconnectome/Q3/151526/T1w/Diffusion.bedpostX/monitor
to show progress.<br>
Type
/media/407285B97285B3E6/Data/humanconnectome/Q3/151526/T1w/Diffusion.bedpostX/cancel
to terminate all the queued tasks.<br>
<br>
You will get an email at the end of the post-processing stage.<br>
______________________________________________________________________________________________________________________________________<br>
<br>
<br>
The Diffusion.bedpostx folder is created including tipical folders
and files.<br>
<br>
<font color="#000000"><a class="moz-txt-link-abbreviated"
href="mailto:labounek@PC-E229-455:/media/407285B97285B3E6/Data/humanconnectome/Q2/Q2_diffusion_preprocessed/499566/T1w/Diffusion.bedpostX$">labounek@PC-E229-455:/media/407285B97285B3E6/Data/humanconnectome/Q2/Q2_diffusion_preprocessed/499566/T1w/Diffusion.bedpostX$</a></font>
<b>ls</b><b><br>
</b><b>cancel commands.txt diff_slices logs monitor xfms</b><br>
<br>
<br>
After comand: <b>/media/407285B97285B3E6/Data/humanconnectome/Q3/151526/T1w/Diffusion.bedpostX/monitor
</b>; I will get lots error messages lokking like these shown below
and the calculation is not working. <br>
__________________________________________________________________________________________________________________________________________________<br>
/media/407285B97285B3E6/Data/humanconnectome/Q3/151526/T1w/Diffusion.bedpostX/monitor:
1:
/media/407285B97285B3E6/Data/humanconnectome/Q3/151526/T1w/Diffusion.bedpostX/monitor:
/bin/zeropad: not found<br>
/media/407285B97285B3E6/Data/humanconnectome/Q3/151526/T1w/Diffusion.bedpostX/monitor:
1:
/media/407285B97285B3E6/Data/humanconnectome/Q3/151526/T1w/Diffusion.bedpostX/monitor:
/bin/imtest: not found<br>
/media/407285B97285B3E6/Data/humanconnectome/Q3/151526/T1w/Diffusion.bedpostX/monitor:
10: [: -eq: unexpected operator<br>
__________________________________________________________________________________________________________________________________________________<br>
<br>
In error, there is writen /bin/zeropad: not found and /bin/imtest:
not found. I am not sure what this files should do but truly I have
not them on hard disk.<br>
<br>
Preprocessing, processing and postprocessing did not start. I have
no idea what to do.<br>
<br>
Best,<br>
Rene
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