open-discussion
open-discussion > RE: FSL jobs failing inconsistently
Jun 14, 2014 04:06 AM | Zaixu Cui
RE: FSL jobs failing inconsistently
Hi, Miguel,
Thanks for your interesting in PANDA.
Some subjects were finished (e.g. 00001), but some subjects were failed (e.g. 00038).
The task 'extractB0_00038' of Subject 00038 was failed.
The reason is as following:
fslroi /Volumes/Data/Mike/twins/output_PANDA/00038/tmp/twins_00038_DWI_01.nii.gz /Volumes/Data/Mike/twins/output_PANDA/00038/tmp/data_b0.nii.gz 0 1
ERROR:: Environment variable FSLOUTPUTTYPE is not set!
Please make sure that the appropriate configuration file is sourced by your shell
e.g. bash or sh users add the line ". ${FSLDIR}/etc/fslconf/fsl.sh"
e.g. tcsh or csh users add the line "source ${FSLDIR}/etc/fslconf/fsl.csh"
extracting b0 volume is done!
Maybe you can check it.
But I'm confused that the task 'extractB0_00001' of subject 00001 was finished.
If you cannot solve the problem according to this instruction, please contact me.
Best regrads
Zaixu
Thanks for your interesting in PANDA.
Some subjects were finished (e.g. 00001), but some subjects were failed (e.g. 00038).
The task 'extractB0_00038' of Subject 00038 was failed.
The reason is as following:
fslroi /Volumes/Data/Mike/twins/output_PANDA/00038/tmp/twins_00038_DWI_01.nii.gz /Volumes/Data/Mike/twins/output_PANDA/00038/tmp/data_b0.nii.gz 0 1
ERROR:: Environment variable FSLOUTPUTTYPE is not set!
Please make sure that the appropriate configuration file is sourced by your shell
e.g. bash or sh users add the line ". ${FSLDIR}/etc/fslconf/fsl.sh"
e.g. tcsh or csh users add the line "source ${FSLDIR}/etc/fslconf/fsl.csh"
extracting b0 volume is done!
Maybe you can check it.
But I'm confused that the task 'extractB0_00001' of subject 00001 was finished.
If you cannot solve the problem according to this instruction, please contact me.
Best regrads
Zaixu
Threaded View
| Title | Author | Date |
|---|---|---|
| Miguel Burgaleta | Jun 10, 2014 | |
| Zaixu Cui | Jun 14, 2014 | |
| Miguel Burgaleta | Jun 16, 2014 | |
| Zaixu Cui | Jun 18, 2014 | |
| Miguel Burgaleta | Jun 18, 2014 | |
| Chenxi Zhao | Jun 21, 2014 | |
| Miguel Burgaleta | Jun 22, 2014 | |
