error due to 'PosixPath' versus 'str' TypeError

[pvavra]

Trying to walk through the example study, we are getting an error (but only when running this on medusa, it seems).

At the stage of importing the dcm, it fails:

datalad hirni-import-dcm --anon-subject 001 https://github.com/datalad/example-dicom-structural/archive/master.tar.gz acq1
[INFO   ] Creating a new annex repo at /home/data/sfb_cuetarget/scratch/my_raw_dataset/acq1/dicoms 
[INFO   ] Adding content of the archive master.tar.gz into annex <AnnexRepo path=/home/data/sfb_cuetarget/scratch/my_raw_dataset/acq1/dicoms (<class 'datalad.support.annexrepo.AnnexRepo'>)> 
[INFO   ] Finished adding master.tar.gz: Files processed: 389, +git: 2, +annex: 387 
[ERROR  ] '<' not supported between instances of 'str' and 'PosixPath' [status.py:__call__:324] (TypeError)      

The error seems to happen after the metadata processing (I see a bunch of progress bars just fine, but they then jump to the error).

This is currently using python 3.6.9. Using the default (system-level installed on cluster) 3.5 python version was giving this problem at another location (complaining about 'PosixPath' not having a 'startswith' function).

Not sure this is due to datalad or hirni or a weird setup on the medusa cluster. On my local machine this works fine (using 3.6.8).

Note on python setup:
Converining the python environment, I created a virtual environment using
python3 -m venv datalad
and than updated pip and setuptools using the following oneliner
pip list --outdated --format=freeze | grep -v '^-e' | cut -d = -f 1 | xargs -n1 pip install -U

and than installed (in that order) datalad
pip install git+https://github.com/datalad/datalad
and hirni:
pip install git+https://github.com/psychoinformatics-de/datalad-hirni.git#egg=datalad_hirni

datalad_wtf.txt

[bpoldrack]

Hey @pvavra,

thanks for trying and reporting!

This smells like psychoinformatics-de/datalad-hirni#129

Currently datalad-hirni is incompatible with datalad 0.12.0rc6 (+ python below something around 3.7). Trying to get the fixes merged and released in the dependency chain (can't be fixed within datalad-hirni alone) and will report back here.

However, I'm not sure how you ended up with datalad 0.12.0rc6. Could you please try to explicitly install pip install datalad==0.12.0rc5 and see whether that works for you?

[bpoldrack]

PS:
Now I see it. You installed datalad from cutting edge master branch directly. So, for now, try installing as mentioned above or just install datalad-hirni in a fresh environment. It depends on datalad and will currently install 0.12.0rc4 automatically.

[pvavra]

Yep, looks like related to the above issue. Moving conversation there.
Feel free to close issue here (and if you want me to open a new one at datalad_hirni, let me know)

[sorry for posting in the wrong place.. was late last night..]