Merged all dependencies into env.yaml.

EichlerLab · Nov 26, 2024 · 921106c · 921106c
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Showing 3 changed files with 8 additions and 14 deletions.
diff --git a/README.md b/README.md
@@ -112,10 +112,10 @@ Multiple samples can be provided via the configfile. Each sample should contain
 See [`docs/ISSUES.md`](docs/ISSUES.md) for edge-cases and effects of parameter tuning.
 
 ## Testing
-Set up the dev conda environment and pull test data with [`git-lfs`](https://git-lfs.com/).
+Set up the conda environment and pull test data with [`git-lfs`](https://git-lfs.com/).
 ```bash
-conda env create --name test_cdr_finder -f test/env_dev.yaml
-conda activate test_cdr_finder
+conda env create --name cdr_finder -f test/env.yaml
+conda activate cdr_finder
 git lfs install && git lfs pull
 ```
 

diff --git a/env.yaml b/env.yaml
@@ -2,5 +2,10 @@ channels:
   - conda-forge
 dependencies:
   - python==3.12
+  - anaconda::git-lfs
   - pip:
     - snakemake==8.18.2
+    - pytest
+    - intervaltree==3.1.0
+    - polars==0.20.31
+    - scipy==1.14.1
diff --git a/test/env_dev.yaml b/test/env_dev.yaml