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Add RNA-Seq TIN QC support #246

Add RNA-Seq TIN QC support

Add RNA-Seq TIN QC support #246

Workflow file for this run

# This workflow will build and test LongReadSum
name: build tests
on:
push:
branches: [ main ]
pull_request:
branches: [ main ]
jobs:
build-and-test:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v3
- name: Download assets
uses: dsaltares/fetch-gh-release-asset@1.0.0
with:
repo: 'WGLab/LongReadSum'
version: 'tags/v1.3.1'
file: 'SampleData.zip'
- name: Unzip assets
shell: bash --login {0}
run: unzip SampleData.zip
- name: Set up conda environment
uses: conda-incubator/setup-miniconda@v2
with:
activate-environment: longreadsum
environment-file: environment.yml
python-version: 3.9
auto-activate-base: false
- name: Check conda environment activation
shell: bash --login {0}
run: |
conda info --envs
which python
python --version
- name: Build LongReadSum
shell: bash --login {0} # --login enables PATH variable access
run: |
source activate longreadsum
make
- name: Run tests
shell: bash --login {0}
run: |
source activate longreadsum
mkdir output # Unit test output folder
python -m pytest