Cannot invoke "com.jetbrains.python.sdk.flavors.conda.CondaInfoJson.getEnvs()" because "info" is null

[adrinjalali]

Using: pycharm-community-edition 2023.3.3-1 on archlinux

[jonashaag]

Please paste the logs from ~/.cache/micromamba-pycharm.log

[adrinjalali]

Here's the log. It seems it thinks micromamba is not in my PATH? It is for my zsh, should it be in my bashrc instead?

$ cat ~/.cache/micromamba-pycharm.log 
Attempting to run: ['self-check']
Attempting to run: ['self-check']
Attempting to run: ['info', '--envs', '--json']
Traceback (most recent call last):
  File "/usr/bin/conda", line 105, in <module>
    sys.exit(main(args))
             ^^^^^^^^^^
  File "/usr/bin/conda", line 54, in main
    base_env = micromamba_json(["info"])["base environment"]
               ^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/usr/bin/conda", line 30, in micromamba_json
    return json.loads(micromamba(cmd + ["--json"]))
                      ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/usr/bin/conda", line 25, in micromamba
    out = subprocess.check_output(["micromamba"] + cmd)
          ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/usr/lib/python3.11/subprocess.py", line 466, in check_output
    return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/usr/lib/python3.11/subprocess.py", line 548, in run
    with Popen(*popenargs, **kwargs) as process:
         ^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/usr/lib/python3.11/subprocess.py", line 1026, in __init__
    self._execute_child(args, executable, preexec_fn, close_fds,
  File "/usr/lib/python3.11/subprocess.py", line 1950, in _execute_child
    raise child_exception_type(errno_num, err_msg, err_filename)
FileNotFoundError: [Errno 2] No such file or directory: 'micromamba'
Attempting to run: ['info', '--envs', '--json']
Traceback (most recent call last):
  File "/home/adrin/opt/micromamba-pycharm/conda", line 105, in <module>
    sys.exit(main(args))
             ^^^^^^^^^^
  File "/home/adrin/opt/micromamba-pycharm/conda", line 54, in main
    base_env = micromamba_json(["info"])["base environment"]
               ^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/adrin/opt/micromamba-pycharm/conda", line 30, in micromamba_json
    return json.loads(micromamba(cmd + ["--json"]))
                      ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/adrin/opt/micromamba-pycharm/conda", line 25, in micromamba
    out = subprocess.check_output(["micromamba"] + cmd)
          ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/usr/lib/python3.11/subprocess.py", line 466, in check_output
    return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/usr/lib/python3.11/subprocess.py", line 548, in run
    with Popen(*popenargs, **kwargs) as process:
         ^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/usr/lib/python3.11/subprocess.py", line 1026, in __init__
    self._execute_child(args, executable, preexec_fn, close_fds,
  File "/usr/lib/python3.11/subprocess.py", line 1950, in _execute_child
    raise child_exception_type(errno_num, err_msg, err_filename)
FileNotFoundError: [Errno 2] No such file or directory: 'micromamba'

[adrinjalali]

Added to PATH in my .bashrc as well, same result.

[jonashaag]

I wonder how you were able to run self-check successfully but then it fails when called from PyCharm. Does PyCharm call Micromamba through bash maybe?

[adrinjalali]

self-check passes cause micromamba is in my PATH, both in zshrc and bashrc. It was only in my zsh, but I put it in my bash as well and still same result. Hmm...

Wonder how I can get the info on which shell pycharm is running this script

[jonashaag]

You could log os.environ in the Python script

[jonashaag]

Or put a looong sleep in the script and check htop/pstree/ps aux

[adrinjalali]

I found a different solution (using a conda executable I already have available). So closing this one for now. I think it'd be nice for the conda executable in this repo to be able to read the path to micromamba from a config file maybe?

[GeorgySk]

@jonashaag I'm having the same issue. Here is a minimal example to reproduce it.

Dockerfile

FROM mambaorg/micromamba
ARG MAMBA_DOCKERFILE_ACTIVATE=1
RUN micromamba install -y -n base -c conda-forge \
       git \
       python && \
    micromamba clean --all --yes
RUN git clone https://github.com/jonashaag/micromamba-pycharm.git /home/micromamba-pycharm
RUN /home/micromamba-pycharm/conda self-check

Steps to reproduce:

1. Create a project in PyCharm with this Dockerfile.
2. Go to Settings -> Project ... -> Python interpreter -> Add interpreter -> On Docker.
3. At the window "1/3 Create a new Docker target" leave everything default and press Next.
4. Wait for the image to be built and press Next.
5. At the last window, select Conda environment and in the Conda Executable type in /home/micromamba-pycharm/conda.
6. Press Load Environments. Here you should see the same error.

I'm not sure if I'm getting the logs correctly, though.
If I copy the image id that is printed on the step "2/3. Building Docker image..." (for example, at the line "Successfully built 5175f82d2c76") and launch a container by running docker run -it --rm 5175f82d2c76 bash, then cat ~/.cache/micromamba-pycharm.log gives me only:

Attempting to run: ['self-check']

---

PyCharm version:

PyCharm 2023.3.3 (Professional Edition)
Build #PY-233.13763.11, built on January 25, 2024

[jonashaag]

I can reproduce but I don't know how to get the logs out of this short running container :( And the IDE logs don't show anything interesting

[qbly27]

if you run

import os
print(os.environ['PATH'])

you might get the some paths that tells your operating system where to look for executable programs. However, micromamba cannot be found in these paths. So you can add a soft link to one of the paths, such as sudo ln -s /YOU PATH/micromamba /usr/bin/micromamba