/bin/sh: module: line 1: syntax error: unexpected end of file

anaconda / nb_conda_kernels

Package for managing conda environment-based kernels inside of Jupyter

BSD 3-Clause "New" or "Revised" License

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/bin/sh: module: line 1: syntax error: unexpected end of file #134

Closed edurand closed 5 years ago

edurand commented 5 years ago

Hello,

My setup is as follow: I have a conda environment where I installed Jupyter and nb_conda_kernels, and other conda environments where I installed ipykernel (among other things).

I am running into the following error: when starting the Jupyter environment Python kernel, all is fine. However, when starting a kernel from another conda environment, I get the following error message:

/bin/sh: module: line 1: syntax error: unexpected end of file 
/bin/sh: error importing function definition for `BASH_FUNC_module'

Any idea what's going on? I'm out of ideas. Thanks!

edurand commented 5 years ago

OK, this is not a nb_conda_kernels bug, I'm going to close the issue. However, for future reference, here's what happened:

After further investigation, the error is thrown in runner.py by

os.execvpe(command, (command,) + args, env)

The offending key, value in env is

'BASH_FUNC_module()': '() {  eval `/usr/bin/modulecmd bash $*`'

Obviously the function definition lacks a closing bracket. Looking at the output of printenv:

$printenv
...
BASH_FUNC_module()=() {  eval `/usr/bin/modulecmd bash $*`
}
_=/usr/bin/printenv

The function is defined over two lines which causes it to be "incorrectly" parsed in runner.py. I fixed it by downgrading to 2.1.0. Better solution would be to upgrade red hat...