From 2bd8a6b53455f221cd6322eacb5725d19eff6d17 Mon Sep 17 00:00:00 2001
From: "Lisa B. A. Sousa" <44869855+lisa-sousa@users.noreply.github.com>
Date: Thu, 26 Jan 2023 14:01:52 +0100
Subject: [PATCH] Delete .github/workflows directory

---
 .github/workflows/test.yml         | 63 ------------------------------
 .github/workflows/test_modules.yml | 29 --------------
 2 files changed, 92 deletions(-)
 delete mode 100644 .github/workflows/test.yml
 delete mode 100644 .github/workflows/test_modules.yml

diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml
deleted file mode 100644
index e613afcd..00000000
--- a/.github/workflows/test.yml
+++ /dev/null
@@ -1,63 +0,0 @@
-name: test
-
-on: 
-  push:
-    branches:
-      - main
-      - dev
-  pull_request:
-    branches:
-      - main
-      - dev
-  workflow_dispatch:
-  workflow_call:
-
-jobs:
-  build:
-  
-    runs-on: ${{ matrix.os }}
-    strategy:
-      max-parallel: 12
-      matrix:
-        os: [ubuntu-latest, macos-latest] #, windows-latest
-        python-version: ["3.10"] #"3.7", "3.8", "3.9", , "3.11"
-        
-    steps:
-    - name: Checkout Repository 
-      uses: actions/checkout@v3
-    
-    - name: Setup Python
-      uses: actions/setup-python@v4
-      with:
-        python-version: ${{ matrix.python-version }}
-        
-    - name: Setup Conda for Ubuntu and Mac
-      if: matrix.os != 'windows-latest'
-      run: |
-        #$CONDA is an environment variable pointing to the root of the miniconda directory
-        echo $CONDA/bin >> $GITHUB_PATH
-        
-    - name: Setup Conda for Windows
-      if: matrix.os == 'windows-latest'
-      uses: s-weigand/setup-conda@v1
-      with:
-        update-conda: true
-        python-version: ${{ matrix.python-version }}
-        conda-channels: anaconda, conda-forge, bioconda
-    
-    - name: Install conda dependencies
-      run: |
-        conda config --add channels bioconda
-        conda install blast
-        conda install bedtools
-        conda install bowtie
-        conda install bowtie2
-        
-    - name: Install pip dependencies
-      run: |
-        python -m pip install --upgrade pip
-        pip install pytest
-        pip install -e .
-    
-    - name: Test with pytest
-      run: pytest
diff --git a/.github/workflows/test_modules.yml b/.github/workflows/test_modules.yml
deleted file mode 100644
index 98402102..00000000
--- a/.github/workflows/test_modules.yml
+++ /dev/null
@@ -1,29 +0,0 @@
-name: Python Package using Conda
-
-on: 
-  push:
-    branches: dev
-
-jobs:
-  build-linux:
-    runs-on: ubuntu-latest
-    strategy:
-      max-parallel: 5
-
-    steps:
-    - uses: actions/checkout@v3
-    - name: Set up Python 3.8
-      uses: actions/setup-python@v3
-      with:
-        python-version: 3.8
-    - 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
-    - name: Install dependencies
-      run: |
-        conda install -c bioconda bowtie
-        conda install -c bioconda bowtie2
-        conda install -c bioconda blast
-        conda install -c bioconda bedtools
-        pip install -e .