apriha/snps

Errors running tests on MacOSX

Closed this issue · 2 comments

willgdjones commented

I'm getting errors across the whole test suite when running them locally on my Mac OSX Catalina 10.15.4 machine.

    os.makedirs(path, exist_ok=True)
/usr/local/opt/python/Frameworks/Python.framework/Versions/3.7/lib/python3.7/os.py:213: in makedirs
    makedirs(head, exist_ok=exist_ok)
/usr/local/opt/python/Frameworks/Python.framework/Versions/3.7/lib/python3.7/os.py:223: in makedirs
    mkdir(name, mode)
E   FileNotFoundError: [Errno 2] No such file or directory: '../../../../var/folders/h3/k5sgzmp17cvbz1mm459fkf200000gn/T/tmp9ixj7r4i/fasta'

Looking around, I think this is something to do with the permissions on the /var/folders/ directories

Is there a way we can specify what temporary to use here?

apriha commented

You should be able to specify the path to the temporary directory via an environment variable. See https://docs.python.org/3/library/tempfile.html#tempfile.mkstemp

willgdjones commented

Setting TMPDIR worked 👍 . Thanks!

  • 👍1