Merge branch 'master' of github.com:ssi-dk/bifrost_chewbbaca

.github/workflows/solve_conda_env.yml

@@ -0,0 +1,28 @@
+name: Solve conda environment
+
+on: [push]
+
+jobs:
+  check-conda:
+    runs-on: ubuntu-latest
+
+    steps:
+    - name: Checkout Code
+      uses: actions/checkout@v2
+
+    - name: Set up Miniconda
+      uses: conda-incubator/setup-miniconda@v2
+
+    - name: Install conda dependencies
+      run: |
+        $CONDA/bin/conda env update --file environment.yml --name base
+
+    - name: Format with black
+      run: |
+        $CONDA/bin/black *.py
+        $CONDA/bin/black */*.py
+
+    - name: Check conda dependencies are compatible with the main program
+      run: |
+        $CONDA/bin/python --version
+  

environment.yml

@@ -3,10 +3,10 @@ channels:
   - bioconda
   - defaults
 dependencies:
-  - snakemake-minimal==5.31.1 # updated from 5.7.1 because of envvars
-  - blast==2.14.0 # updated from blast>=2.9
-  - prodigal==2.6.3
-  - chewbbaca==3.2.0
+  - snakemake-minimal>=5.31.1 # updated from 5.7.1 because of envvars
+  - blast>=2.14.0 # updated from blast>=2.9
+  - prodigal>=2.6.3
+  - chewbbaca>=3.2.0
   - pip
   - pip:
     - pytest
@@ -17,4 +17,5 @@ dependencies:
     - argh
     - watchdog
     - bifrostlib
+    - black
     - -e .