actions test

.github/workflows/python-package-conda.yml

@@ -17,44 +17,27 @@ jobs:
       uses: actions/setup-python@v5
       with:
         python-version: 3.9.19
-  #  - name: Install dependencies
-  #    run: |
-  #      # $CONDA is an environment variable pointing to the root of the miniconda directory
-  #  - run:   |
-  #      #sudo apt update
-  #      #sudo apt install gcc-10 g++-10
-  #  - name: Add conda to system path
-  #    run: |
-  #      # $CONDA is an environment variable pointing to the root of the miniconda directory
-  #      echo $CONDA/bin >> $GITHUB_PATH
-  #      echo $CONDA_PREFIX
-  #      $CONDA/bin/conda list
-  #      $CONDA/bin/conda info --base
-  #      $CONDA/bin/conda info --envs
-  #      #CONDA_PREFIX=/usr/share/miniconda/envs/testenv
     - name: Initiate conda channels
       uses: conda-incubator/setup-miniconda@v3
       with:
         channels: conda-forge,bioconda,default
    #     activate-environment: testenv
         auto-activate-base: true
+    - name: Initialize conda
+      run: |
+        conda init
     - name: Set up QIIME Conda environment
       run: |
-        ls 
-        pwd
         conda env create -n testenv --file https://data.qiime2.org/distro/amplicon/qiime2-amplicon-2024.5-py39-linux-conda.yml
     - name: Install Dependencies
       run: |
-        ls
-        pwd
         conda activate testenv
         conda install biopython=1.84
         pip install pyzstd
         pip install pytest
         pip install .
     - name: Test with pytest
       run: |
-        conda activate activate testenv
         pytest
     - name: Test qiime install
       run: |