requirements.txt are not satisfiable

[yarikoptic]

(base) yoh@typhon:/data/aind/try-aind-1/code/aind-ephys-pipeline$ cat ./environment/requirements.txt
spikeinterface==0.103.0
pyvips==2.2.1
torch==2.6.0
pynwb==2.8.2
hdbscan==0.8.40
neuroconv==0.6.7
wavpack-numcodecs==0.2.2
hdmf-zarr==0.9.0
s3fs==2025.3.0
seaborn==0.13.2
aind-data-schema==1.3.0
aind-qcportal-schema==0.4.0
aind-metadata-upgrader==0.0.24
aind-nwb-utils==0.1.0(base) yoh@typhon:/data/aind/try-aind-1/code/aind-ephys-pipeline$ uv venv && uv pip install -r ./environment/requirements.txt
Using CPython 3.13.7 interpreter at: /tmp/dl-miniconda-ccd7fgbn/bin/python
Creating virtual environment at: .venv
Activate with: source .venv/bin/activate
Using Python 3.13.7 environment at: /tmp/dl-miniconda-ccd7fgbn
  × No solution found when resolving dependencies:
  ╰─▶ Because spikeinterface==0.103.0 depends on numpy>=2.0.0 and only the following versions of numpy are
      available:
          numpy<=2.0.0
          numpy==2.0.1
          numpy==2.0.2
          numpy==2.1.0
          numpy==2.1.1
          numpy==2.1.2
          numpy==2.1.3
          numpy==2.2.0
          numpy==2.2.1
          numpy==2.2.2
          numpy==2.2.3
          numpy==2.2.4
          numpy==2.2.5
          numpy==2.2.6
          numpy==2.3.0
          numpy==2.3.1
          numpy==2.3.2
          numpy==2.3.3
      we can conclude that spikeinterface==0.103.0 depends on numpy>=2.0.0.
      And because only the following versions of numpy are available:
          numpy<=1.26.0
          numpy==1.26.1
          numpy==1.26.2
          numpy==1.26.3
          numpy==1.26.4
          numpy>2.0.0
      and neuroconv==0.6.7 depends on numpy>=1.26.0,<2.0.0, we can conclude that neuroconv==0.6.7 and
      spikeinterface==0.103.0 are incompatible.
      And because you require spikeinterface==0.103.0 and neuroconv==0.6.7, we can conclude that your
      requirements are unsatisfiable.

we wanted them to generate sample data.

I think it would be useful to have CI run which performs validation that proposed environment remains legit.

[alejoe91]

Hi @yarikoptic

The requirements here is a collection of packages used by different containers, so they are not supposed to get installed in the same environment. Maybe I should explain how this is used in the docs!

[CodyCBakerPhD]

Perhaps there should then be a separate container for generating the NWB sample data? To make that step more reproducible/stable

[yarikoptic]

container(s) with a recipe would be great, and ideally may be even some pip freeze versions extracted so could be recreated outside of the container if so needed.