From 7d940828cf1cdf8ae69719e2c0fde4a251603428 Mon Sep 17 00:00:00 2001 From: Marmaduke Woodman <marmaduke.woodman@univ-amu.fr> Date: Thu, 13 Feb 2020 14:39:59 +0100 Subject: [PATCH 1/3] add dockerfile for running lib tests --- scientific_library/Dockerfile | 17 +++++++++++++++++ 1 file changed, 17 insertions(+) create mode 100644 scientific_library/Dockerfile diff --git a/scientific_library/Dockerfile b/scientific_library/Dockerfile new file mode 100644 index 000000000..38acd7d51 --- /dev/null +++ b/scientific_library/Dockerfile @@ -0,0 +1,17 @@ +FROM continuumio/miniconda3 + +RUN apt-get -y update && apt-get -y install build-essential gcc + +RUN conda install python=3.7 nomkl numba scipy numpy networkx scikit-learn cython pip numexpr psutil \ + pytest pytest-cov pytest-benchmark pytest-mock matplotlib \ + psycopg2 pytables scikit-image==0.14.2 simplejson cherrypy docutils + +RUN apt-get install -y zip +RUN cd /opt \ + && wget -q https://zenodo.org/record/3497545/files/tvb_data_2_0_1.zip?download=1 -O tvb_data.zip \ + && unzip tvb_data.zip \ + && rm tvb_data.zip \ + && cd tvb_data \ + && python3 setup.py develop + +RUN pip install h5py>=2.10 tvb-gdist pytest-xdist -- GitLab From 8cda2987ce6b4d69442c6e4633fedcfc5711415f Mon Sep 17 00:00:00 2001 From: Marmaduke Woodman <marmaduke.woodman@univ-amu.fr> Date: Thu, 13 Feb 2020 15:00:22 +0100 Subject: [PATCH 2/3] add minimal gh action --- .github/workflows/docker-lib-ci.yml | 8 ++++++++ 1 file changed, 8 insertions(+) create mode 100644 .github/workflows/docker-lib-ci.yml diff --git a/.github/workflows/docker-lib-ci.yml b/.github/workflows/docker-lib-ci.yml new file mode 100644 index 000000000..2c19f4856 --- /dev/null +++ b/.github/workflows/docker-lib-ci.yml @@ -0,0 +1,8 @@ +name: docker-based library testing +on: [push] +jobs: + build: + runs-on: tvb/library + steps: + - name: pytest library + run: ls \ No newline at end of file -- GitLab From c67eba6664f972448106cab2e583248fa769af48 Mon Sep 17 00:00:00 2001 From: Marmaduke Woodman <marmaduke.woodman@univ-amu.fr> Date: Thu, 13 Feb 2020 15:21:19 +0100 Subject: [PATCH 3/3] build & test --- .github/workflows/docker-lib-ci.yml | 9 ++++++--- 1 file changed, 6 insertions(+), 3 deletions(-) diff --git a/.github/workflows/docker-lib-ci.yml b/.github/workflows/docker-lib-ci.yml index 2c19f4856..10ab090e5 100644 --- a/.github/workflows/docker-lib-ci.yml +++ b/.github/workflows/docker-lib-ci.yml @@ -2,7 +2,10 @@ name: docker-based library testing on: [push] jobs: build: - runs-on: tvb/library + runs-on: ubuntu-latest steps: - - name: pytest library - run: ls \ No newline at end of file + - uses: actions/checkout@v1 + - name: Build image + run: docker build -f scientific_library/Dockerfile -t tvb/lib-ci scientific_library + - name: Run tests + run: docker run --rm -v $PWD:/work -w /work/scientific_library tvb/lib-ci pytest -Wignore -n8 \ No newline at end of file -- GitLab