Dear DTI experts:
I am wondering if anyone could help find the solution for this tracula script
error:
RuntimeError: Command:
dmri_pathstats --intrc START_610/dpath/lh.cst_AS_avg33_mni_bbr --dtbase
START_610/dmri/dtifit --path lh.cst --subj START_610 --out
START_610/dpath/lh.cst_AS_avg33_mni_bbr/pathstats.overall.txt --outvox
START_610/dpath/lh.cst_AS_avg33_mni_bbr/pathstats.byvoxel.txt
ERROR: Could not open
/gablab/p/START/NEW_DTI_ANALYSIS_2017/START_610/START_610/dpath/lh.cst_AS_avg33_mni_bbr/path.map.txt
for reading
Below I pasted the last bits of the log including the error messages.
Your help is being greatly appreciated.
Yuwen
----
170712-12:28:30,168 interface INFO:
stdout 2017-07-12T12:28:30.165030:Computing statistics on
/gablab/p/START/NEW_DTI_ANALYSIS_2017/START_610/START_610/dpath/lh.cst_AS_avg33_mni_bbr...
170712-12:28:30,168 interface INFO:
stdout 2017-07-12T12:28:30.165030:ERROR: Could not open
/gablab/p/START/NEW_DTI_ANALYSIS_2017/START_610/START_610/dpath/lh.cst_AS_avg33_mni_bbr/path.map.txt
for reading Traceback (most recent call last):
File "/home/yuwenh/script/dti_2017pipeline_YHMK.py", line 292, in <module>
make_tables(args.subject)
File "/home/yuwenh/script/dti_2017pipeline_YHMK.py", line 262, in make_tables
cmd.run()
File
"/om/user/yuwenh/envs/CEMO_env/lib/python2.7/site-packages/nipype/interfaces/base.py",
line 1085, in run
runtime = self._run_wrapper(runtime)
File
"/om/user/yuwenh/envs/CEMO_env/lib/python2.7/site-packages/nipype/interfaces/base.py",
line 1728, in _run_wrapper
runtime = self._run_interface(runtime)
File
"/om/user/yuwenh/envs/CEMO_env/lib/python2.7/site-packages/nipype/interfaces/base.py",
line 1762, in _run_interface
self.raise_exception(runtime)
File
"/om/user/yuwenh/envs/CEMO_env/lib/python2.7/site-packages/nipype/interfaces/base.py",
line 1686, in raise_exception
**runtime.dictcopy()))
RuntimeError: Command:
dmri_pathstats --intrc START_610/dpath/lh.cst_AS_avg33_mni_bbr --dtbase
START_610/dmri/dtifit --path lh.cst --subj START_610 --out
START_610/dpath/lh.cst_AS_avg33_mni_bbr/pathstats.overall.txt --outvox
START_610/dpath/lh.cst_AS_avg33_mni_bbr/pathstats.byvoxel.txt
Standard output:
cwd /gablab/p/START/NEW_DTI_ANALYSIS_2017/START_610
cmdline dmri_pathstats --intrc START_610/dpath/lh.cst_AS_avg33_mni_bbr --dtbase
START_610/dmri/dtifit --path lh.cst --subj START_610 --out
START_610/dpath/lh.cst_AS_avg33_mni_bbr/pathstats.overall.txt --outvox
START_610/dpath/lh.cst_AS_avg33_mni_bbr/pathstats.byvoxel.txt
Input tracula directory:
/gablab/p/START/NEW_DTI_ANALYSIS_2017/START_610/START_610/dpath/lh.cst_AS_avg33_mni_bbr
Input DTI fit base:
/gablab/p/START/NEW_DTI_ANALYSIS_2017/START_610/START_610/dmri/dtifit
Pathway name: lh.cst
Subject name: START_610
Output file for overall measures:
/gablab/p/START/NEW_DTI_ANALYSIS_2017/START_610/START_610/dpath/lh.cst_AS_avg33_mni_bbr/pathstats.overall.txt
Output file for voxel-by-voxel measures:
/gablab/p/START/NEW_DTI_ANALYSIS_2017/START_610/START_610/dpath/lh.cst_AS_avg33_mni_bbr/pathstats.byvoxel.txt
Lower threshold for probability: 0.200000 Computing statistics on
/gablab/p/START/NEW_DTI_ANALYSIS_2017/START_610/START_610/dpath/lh.cst_AS_avg33_mni_bbr...
ERROR: Could not open
/gablab/p/START/NEW_DTI_ANALYSIS_2017/START_610/START_610/dpath/lh.cst_AS_avg33_mni_bbr/path.map.txt
for reading Standard error:
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