diff --git a/.github/workflows/build.yml b/.github/workflows/build.yml index b556b4b..8f2133f 100644 --- a/.github/workflows/build.yml +++ b/.github/workflows/build.yml @@ -28,11 +28,11 @@ jobs: - name: Install dependencies run: | python -m pip install --upgrade pip setuptools - # apparently the runners all have conda installed - # use that to install syri, as it isn't on pypi - # manually install syris dependencies, conda does not install - pip install Cython numpy pandas scipy psutil igraph longestrunsubsequence pysam pulp - $CONDA/bin/conda install --freeze-installed --no-deps -c conda-forge -c bioconda "syri>=1.6.5" + # manually install syris dependencies + # seems to be no longer necessary with github install + #pip install Cython numpy pandas scipy psutil igraph longestrunsubsequence pysam pulp + # manually use pip to install syri from github, as it isn't on pypi + pip install git+https://github.com/schneebergerlab/syri.git#egg=syri if [ -f requirements.txt ]; then pip install -r requirements.txt; fi - name: Build package run: pip install .