PennLINC / xcpEngine

Official public repository for the XCP Engine. This tool is deprecated in favor of XCP-D and ASLPrep.
MIT License
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Problems with .csv #491

Open rglezgz opened 2 years ago

rglezgz commented 2 years ago

Describe the bug What were you trying to do when the crash happened? I tried to run the structural pipeline, however, the modules run without doing anything.

Cohort file Paste cohort file between the triple backticks

id0,img
sub-130S6319,bbb\sub-130S6319\anat\sub-130S6319_T1w.nii.gz

...,...,...

Design File Paste your entire design (.dsn) file between the triple backticks

It is the same file given in the tutorials

Error message Paste your error message between the backticks

· [D][/design/design.dsn]
INFO: /root/matlab/startup.m does not exist … creating
sed: cannot rename /design/sedyyBjXX: Device or resource busy
· [C][/cohort/cohort.csv]
Error in file(file, “rt”) : cannot open the connection
Calls: read.csv → read.table → file
In addition: Warning messages:
1: In file(file, “rt”) :
‘raw = FALSE’ but ‘/cohort/cohort.csv’ is not a regular file
2: In file(file, “rt”) :
cannot open file ‘/cohort/cohort.csv’: it is a directory
Execution halted
· [O][/xcpOutput]
· [M][Executing serially]
····································································
Date: 202208312314
UUID: 5d54fccf-e0da-49bf-94b6-3eb0cf977fa0

Runtime Information How were you running the software? Docker? Singularity? Directly? If Directly, please consider using Docker or Singluarity first before submitting a bug report.

I used docker. Additional context Add any other context about the problem here.