Merge pull request #14 from matrulda/upgrade_python_version

Upgrade to python 3.13 and use GHA instead of travis

Author: matrulda

.github/workflows/run_tests.yml

@@ -0,0 +1,26 @@
+name: Run Unit Tests
+
+on: [push, pull_request]
+
+jobs:
+  build:
+    runs-on: ubuntu-22.04
+    steps:
+    - uses: actions/checkout@v4
+    
+    - name: Set up Python 3.13
+      uses: actions/setup-python@v5
+      with:
+        python-version: '3.13'
+    
+    - name: Install dependencies
+      run: |
+        python3 -m pip install --upgrade pip
+        pip install -r requirements/dev .
+    
+    - name: Launch tests
+      run: |
+        pytest --cov=fastq_demux --cov-report=xml tests/
+    
+    - name: Update data on codecov
+      uses: codecov/codecov-action@v5

.travis.yml

@@ -1,5 +1,5 @@
 # first stage
-FROM python:3.7 AS builder
+FROM python:3.13 AS builder
 
 COPY requirements.txt .
 COPY requirements/* ./requirements/
@@ -8,7 +8,7 @@ COPY requirements/* ./requirements/
 RUN pip install --user -r requirements.txt
 
 # second unnamed stage
-FROM python:3.7-slim
+FROM python:3.13-slim
 WORKDIR /code
 
 # copy only the dependencies installation from the 1st stage image

Dockerfile

@@ -95,7 +95,7 @@ Example usage with a data directory mounted into the container from the local fi
 ```
 docker run -v $(pwd)/tests:/data fastq_demux:master \
 --R1 /data/dual-index-short_Undetermined_S0_L001_R1_001.fastq.gz \
---samplesheet /data/samplesheet.tsv
+--samplesheet /data/samplesheet_dual_index.tsv
 ```
 
 ## Performance