From 7c3b7c8e492b9abaed9e60beb3029365af48d3fe Mon Sep 17 00:00:00 2001 From: Luis Kress Date: Mon, 2 Jun 2025 07:36:12 +0000 Subject: [PATCH 1/4] chore: Fix integrationtest and release CI pipeline --- .github/workflows/integration_tests.yml | 14 +++++++------- .github/workflows/release.yml | 2 +- 2 files changed, 8 insertions(+), 8 deletions(-) diff --git a/.github/workflows/integration_tests.yml b/.github/workflows/integration_tests.yml index c94ef65..c46dbc3 100755 --- a/.github/workflows/integration_tests.yml +++ b/.github/workflows/integration_tests.yml @@ -15,14 +15,14 @@ jobs: - name: Set up Python ${{ matrix.python-version }} uses: actions/setup-python@v5 - with: - python-version: ${{ matrix.python-version }} + with: + python-version: ${{ matrix.python-version }} - - name: Install dependencies - run: | - python -m pip install --upgrade pip - pip install -r requirements.txt - pip install . + - name: Install dependencies + run: | + python -m pip install --upgrade pip + pip install -r requirements.txt + pip install . - name: Run integration tests run: | diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index 3bf3bab..c3279ca 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -13,7 +13,7 @@ jobs: - uses: actions/setup-python@v5 with: - python-version: 3.10 + python-version: '3.10' - name: Install dependencies run: | From c2536ef428570d1f284dcc6ad53a21561465b05a Mon Sep 17 00:00:00 2001 From: Luis Kress Date: Mon, 2 Jun 2025 07:54:44 +0000 Subject: [PATCH 2/4] chore: install bedtools for integration tests --- .github/workflows/integration_tests.yml | 1 + 1 file changed, 1 insertion(+) diff --git a/.github/workflows/integration_tests.yml b/.github/workflows/integration_tests.yml index c46dbc3..35fab4a 100755 --- a/.github/workflows/integration_tests.yml +++ b/.github/workflows/integration_tests.yml @@ -20,6 +20,7 @@ jobs: - name: Install dependencies run: | + apt install bedtools python -m pip install --upgrade pip pip install -r requirements.txt pip install . From 6908d4d0d603d4ca1c6a03283e13968855419d08 Mon Sep 17 00:00:00 2001 From: Luis Kress Date: Mon, 2 Jun 2025 07:56:18 +0000 Subject: [PATCH 3/4] chore: update integration test in CI --- .github/workflows/integration_tests.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/integration_tests.yml b/.github/workflows/integration_tests.yml index 35fab4a..b4e91f7 100755 --- a/.github/workflows/integration_tests.yml +++ b/.github/workflows/integration_tests.yml @@ -20,7 +20,7 @@ jobs: - name: Install dependencies run: | - apt install bedtools + sudo apt install bedtools python -m pip install --upgrade pip pip install -r requirements.txt pip install . From 2ecf95a49823230c300b7ad5aaec9170f4a550a4 Mon Sep 17 00:00:00 2001 From: Luis Kress Date: Mon, 2 Jun 2025 08:13:31 +0000 Subject: [PATCH 4/4] chore: bump version --- vafator/__init__.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/vafator/__init__.py b/vafator/__init__.py index ee3c590..90a0094 100755 --- a/vafator/__init__.py +++ b/vafator/__init__.py @@ -1,4 +1,4 @@ -VERSION='2.2.1' +VERSION='2.2.2' AMBIGUOUS_BASES = ['N', 'M', 'R', 'W', 'S', 'Y', 'K', 'V', 'H', 'D', 'B']