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dev-tests

try openssl install via conda #12

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try openssl install via conda

try openssl install via conda #12

Workflow file for this run

.github/workflows/dev-tests.yml at d9d896c
name: dev-tests
on:
push:
branches:
- '**'
- '!main'
- '!master'
tags-ignore:
- '*'
pull_request:
branches:
- '**'
- '!main'
- '!master'
jobs:
build:
runs-on: ubuntu-latest
strategy:
matrix:
python-version: ['3.12'] #'3.7', '3.8', '3.9', '3.10', '3.11',
steps:
- uses: actions/checkout@v3
- name: Set up Miniconda
uses: conda-incubator/setup-miniconda@v2
with:
miniconda-version: "latest"
auto-update-conda: true
python-version: ${{ matrix.python-version }}
activate-environment: xpresspipe
- name: Install dependencies
shell: bash -l {0}
run: |
conda clean --all
conda env update --file requirements.yml --name xpresspipe
conda activate xpresspipe
pip install .
pip install codecov
- name: Run test_arguments.py
shell: bash -l {0}
run: |
conda activate xpresspipe
coverage run -a tests/test_arguments.py
- name: Run test_utils.py
shell: bash -l {0}
run: |
conda activate xpresspipe
coverage run -a tests/test_utils.py
- name: Run test_bam.py
shell: bash -l {0}
run: |
conda activate xpresspipe
coverage run -a tests/test_bam.py
- name: Run test_modifyGTF.py
shell: bash -l {0}
run: |
conda activate xpresspipe
coverage run -a tests/test_modifyGTF.py
- name: Run test_truncateGTF.py
shell: bash -l {0}
run: |
conda activate xpresspipe
coverage run -a tests/test_truncateGTF.py
- name: Run test_metagene.py
shell: bash -l {0}
run: |
conda activate xpresspipe
coverage run -a tests/test_metagene.py
- name: Run test_periodicity.py
shell: bash -l {0}
run: |
conda activate xpresspipe
coverage run -a tests/test_periodicity.py
- name: Run test_complexity.py
shell: bash -l {0}
run: |
conda activate xpresspipe
coverage run -a tests/test_complexity.py
- name: Run test_rrnaProbe.py
shell: bash -l {0}
run: |
conda activate xpresspipe
coverage run -a tests/test_rrnaProbe.py
- name: Run test_help.py
shell: bash -l {0}
run: |
conda activate xpresspipe
coverage run -a tests/test_help.py
- name: Run test_pipelines.py
shell: bash -l {0}
run: |
conda activate xpresspipe
coverage run -a tests/test_pipelines.py
- name: Generate coverage report
shell: bash -l {0}
run: |
conda activate xpresspipe
coverage report
bash <(curl -s https://codecov.io/bash) -cF python