From 6fa302c2a26a2836bcda4c8e4246603b98f8f931 Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?M=C3=A1t=C3=A9=20Balajti?= <mate.balajti@unibas.ch>
Date: Tue, 19 Sep 2023 13:38:02 +0200
Subject: [PATCH] update setup, ci
---
.gitlab-ci.yml | 7 ++-----
setup.py | 4 ++--
tests/__init__.py | 2 +-
tsg/main.py | 1 +
4 files changed, 6 insertions(+), 8 deletions(-)
diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index cec4b98..28ed56a 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -13,9 +13,8 @@ build-job: # First stage deployment and installation of dependencies.
- pip install -r requirements.txt
- pip install -r requirements_dev.txt
- pip install -e .
- - echo "Dependencies successfully deployed."
-Coverage-test-job: # Test Stage
+unit-test-job: # Test Stage
stage: test # Starts when the above build stages finishes installing dependencies.
script:
- pip install -r requirements.txt
@@ -23,9 +22,8 @@ Coverage-test-job: # Test Stage
- pip install -e .
- coverage run --source tsg -m pytest
- coverage report -m
- - echo "Coverage successfully deployed."
-Flake8/Pylint/mypy-test-job: # Test Stage
+lint-test-job: # Test Stage
stage: test # Deploys and runs all 3 linters.
script:
- pip install -r requirements.txt
@@ -34,4 +32,3 @@ Flake8/Pylint/mypy-test-job: # Test Stage
- flake8 --docstring-convention google tsg/ tests/
- pylint tsg/ tests/
- mypy tsg/ tests/
- - echo "Linters successfully deployed."
diff --git a/setup.py b/setup.py
index 638df50..47e0eb5 100644
--- a/setup.py
+++ b/setup.py
@@ -1,6 +1,6 @@
"""Set up project."""
from pathlib import Path
-from setuptools import setup, find_packages
+from setuptools import setup, find_packages # type: ignore
project_root_dir = Path(__file__).parent.resolve()
with open(project_root_dir / "requirements.txt",
@@ -16,7 +16,7 @@ setup(
url=URL,
license='MIT',
author='Larissa Glass, Michael Zimmermann, Andri Fraenkl',
- author_email='mate.balajti@unibas.ch',
+ author_email='michael.zimmermann@unibas.ch',
description='Transcript structure generator',
packages=find_packages(),
install_requires=INSTALL_REQUIRES,
diff --git a/tests/__init__.py b/tests/__init__.py
index 8c26b48..01d21ff 100644
--- a/tests/__init__.py
+++ b/tests/__init__.py
@@ -1 +1 @@
-"""Tests for the package tsg."""
+"""Initialise tests."""
diff --git a/tsg/main.py b/tsg/main.py
index d2c1bb6..7926ef5 100644
--- a/tsg/main.py
+++ b/tsg/main.py
@@ -308,6 +308,7 @@ class Gtf:
class TranscriptGenerator:
"""Class to sample a transcript."""
+ # pylint: disable=W0613
def __new__(
cls,
transcript_id: str,
--
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