Import Carputils Error when trying to run reentry protocol example

Question

Hi,

I am running to a carputils import error when I am trying to run the python script for the reentry protocol example (example 21). The error I am running into is

Traceback (most recent call last):
  File "/home/silvalab/.local/lib/python3.8/site-packages/bin/tuneCV", line 8, in <module>
    from carputils import tools
ImportError: No module named carputils
Traceback (most recent call last):
  File "run.py", line 730, in <module>
    run()
  File "/home/silvalab/.local/lib/python3.8/site-packages/carputils/tools.py", line 524, in wrapped
    ret = run(args, job)
  File "run.py", line 456, in run
    converge_CV(args,job)
  File "run.py", line 657, in converge_CV
    job.bash(cmd)
  File "/home/silvalab/.local/lib/python3.8/site-packages/carputils/job/job.py", line 242, in bash
    self.register(ShellCommand(cmd, message), *args, **kwargs)
  File "/home/silvalab/.local/lib/python3.8/site-packages/carputils/job/job.py", line 119, in register
    self._queue.pop(0).execute()
  File "/home/silvalab/.local/lib/python3.8/site-packages/carputils/job/command.py", line 163, in execute
    divertoutput.call(self._cmd, stdout=self._stdout, stderr=self._stderr)
  File "/home/silvalab/.local/lib/python3.8/site-packages/carputils/divertoutput.py", line 43, in wrapped
    return func(cmd, *args, **kwargs)
  File "/home/silvalab/.local/lib/python3.8/site-packages/carputils/divertoutput.py", line 147, in call
    raise subprocess.CalledProcessError(proc.returncode, cmd[0])
subprocess.CalledProcessError: Command '/home/silvalab/.local/lib/python3.8/site-packages/bin/tuneCV' returned non-zero exit status 1.

Please let me know if you have ideas on how to fix this error. It is not letting me run/calculate anything for this example. Thanks for the help in advance.

Best,

Sushruth

Comments

Seems that your PYTHONPATH is not set correctly. What's the output of

python -c "import sys; print(sys.path)"

?

---

Here's the output:
python -c "import sys; print(sys.path)"
['', '/usr/lib/python2.7', '/usr/lib/python2.7/plat-x86_64-linux-gnu', '/usr/lib/python2.7/lib-tk', '/usr/lib/python2.7/lib-old', '/usr/lib/python2.7/lib-dynload', '/usr/local/lib/python2.7/dist-packages', '/usr/lib/python2.7/dist-packages']

This is because I also have Python 2 installed, this gives the Python 2 path. Calling Python 3:

python3 -c "import sys; print(sys.path)"
['', '/usr/lib/python38.zip', '/usr/lib/python3.8', '/usr/lib/python3.8/lib-dynload', '/home/silvalab/.local/lib/python3.8/site-packages', '/usr/local/lib/python3.8/dist-packages', '/usr/lib/python3/dist-packages']

Answer 1

carputils needs to be in your PYTHONPATH:

https://opencarp.org/download/installation#development-installation

Comments

I added the two lines:
export PATH=$PATH:$HOME/openCARP/external/carputils/bin
export PYTHONPATH=$PYTHONPATH:$HOME/openCARP/external/carputils

Now when I run python -c "import sys; print(sys.path)":
['', '/home/silvalab/Desktop/openCARP/tutorials/02_EP_tissue/21_reentry_induction', '/home/silvalab/Desktop/openCARP/external/carputils', '/usr/lib/python2.7', '/usr/lib/python2.7/plat-x86_64-linux-gnu', '/usr/lib/python2.7/lib-tk', '/usr/lib/python2.7/lib-old', '/usr/lib/python2.7/lib-dynload', '/usr/local/lib/python2.7/dist-packages', '/usr/lib/python2.7/dist-packages']

When I try to run example 21 "reentry induction", I am receiving a different error:
Traceback (most recent call last):
  File "/home/silvalab/Desktop/openCARP/external/carputils/bin/tuneCV", line 8, in <module>
    from carputils import tools
  File "/home/silvalab/Desktop/openCARP/external/carputils/carputils/tools.py", line 29, in <module>
    from pathlib import Path
ImportError: No module named pathlib
Traceback (most recent call last):
  File "run.py", line 730, in <module>
    run()
  File "/home/silvalab/Desktop/openCARP/external/carputils/carputils/tools.py", line 524, in wrapped
    ret = run(args, job)
  File "run.py", line 456, in run
    converge_CV(args,job)
  File "run.py", line 657, in converge_CV
    job.bash(cmd)
  File "/home/silvalab/Desktop/openCARP/external/carputils/carputils/job/job.py", line 242, in bash
    self.register(ShellCommand(cmd, message), *args, **kwargs)
  File "/home/silvalab/Desktop/openCARP/external/carputils/carputils/job/job.py", line 119, in register
    self._queue.pop(0).execute()
  File "/home/silvalab/Desktop/openCARP/external/carputils/carputils/job/command.py", line 163, in execute
    divertoutput.call(self._cmd, stdout=self._stdout, stderr=self._stderr)
  File "/home/silvalab/Desktop/openCARP/external/carputils/carputils/divertoutput.py", line 43, in wrapped
    return func(cmd, *args, **kwargs)
  File "/home/silvalab/Desktop/openCARP/external/carputils/carputils/divertoutput.py", line 147, in call
    raise subprocess.CalledProcessError(proc.returncode, cmd[0])
subprocess.CalledProcessError: Command '/home/silvalab/Desktop/openCARP/external/carputils/bin/tuneCV' returned non-zero exit status 1.

Let me know what you think!

Sushruth

---

There seems to be something wrong with your local python installation. pathlib is part of the python standard library: https://docs.python.org/3.8/library/pathlib.html