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environment.yml: handle variant and newer condas better #1334

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merged 9 commits into from
Apr 24, 2024
Merged

environment.yml: handle variant and newer condas better #1334

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f78791c
environment.yml: be smarter about alternate builds of conda, set chan…
pgunn Apr 23, 2024
7d5824d
environment.yml: can't actually set channel priority in environment.yml
pgunn Apr 24, 2024
53ea964
Try adjusting CI to use environment-minimal.yml
pgunn Apr 24, 2024
8b177d5
minimal environment needs a few more things
pgunn Apr 24, 2024
701c9af
environment-minimal hasn't seen enough testing over the years.
pgunn Apr 24, 2024
5082983
If we're to use environment-minimal for CI we need to include nose
pgunn Apr 24, 2024
b6e67c5
prevent old numpy breaking typing
pgunn Apr 24, 2024
0b81678
yaml: Prevent old versions of numpy and associated problems
pgunn Apr 24, 2024
14af8d5
CI's way of managing updating the test environment means lots of mini…
pgunn Apr 24, 2024
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2 changes: 1 addition & 1 deletion .github/workflows/run_tests.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -26,7 +26,7 @@ jobs:
with:
auto-update-conda: true
python-version: ${{ matrix.python-version }}
environment-file: environment.yml
environment-file: environment-minimal.yml
activate-environment: caiman

- name: Install OS Dependencies
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10 changes: 7 additions & 3 deletions environment-minimal.yml
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Original file line number Diff line number Diff line change
@@ -1,19 +1,23 @@
channels:
- conda-forge
- defaults
dependencies:
- python <=3.12
- av
- cython
- future
- h5py
- h5py >=3.4.0
- holoviews >=1.16.2
- ipython
- ipyparallel
- ipywidgets
- matplotlib
- moviepy
- numpy <2.0.0
- nose
- numpy <2.0.0,>=1.26
- numpydoc
- opencv
- peakutils
- pims
- psutil
- pynwb
- scikit-image >=0.19.0
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5 changes: 3 additions & 2 deletions environment.yml
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Original file line number Diff line number Diff line change
@@ -1,12 +1,13 @@
channels:
- conda-forge
- defaults
dependencies:
- python <=3.12
- av
- bokeh >=3.1.1
- coverage
- cython
- h5py
- h5py >=3.4.0
- holoviews >=1.16.2
- ipykernel
- ipython
Expand All @@ -17,7 +18,7 @@ dependencies:
- moviepy
- mypy
- nose
- numpy <2.0.0
- numpy <2.0.0,>=1.26
- numpydoc
- opencv
- panel >=1.0.2
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