diff --git a/.travis.yml b/.travis.yml
deleted file mode 100644
index 7db143a8d465f93dd0da35ad150ed827165e6a01..0000000000000000000000000000000000000000
--- a/.travis.yml
+++ /dev/null
@@ -1,170 +0,0 @@
-######## Testing minimal compiler requirements ########
-# GCC 8.1.0
-# Clang 8.0
-# Apple Clang 1100.0.33.16
-#######################################################
-
-# Ignore bors testing branches.
-if: NOT branch =~ \.tmp$
-
-language: cpp
-sudo: false
-
-matrix:
- include:
-########################## OS X #########################
-## test gcc8 - single node/rank with threading backend ##
- - name: "osx, gcc, serial, py"
- os: osx
- osx_image: xcode12
- python: 3.6
- env:
- - MATRIX_EVAL="brew install gcc@8 && brew link --force --overwrite gcc@8 && brew install cmake && CC=gcc-8 && CXX=g++-8"
- - BUILD_NAME=cthread-osx-gcc-py
- - WITH_DISTRIBUTED=serial WITH_PYTHON=true PY=3 WITH_NEUROML=ON ARCH=native
- compiler: gcc-8
-
-## test gcc8 - mpi with threading backend ##
- - name: "osx, gcc, mpi, py"
- os: osx
- osx_image: xcode12
- python: 3.6
- env:
- - MATRIX_EVAL="brew install gcc@8 && brew link --force --overwrite gcc@8 && brew install cmake && CC=gcc-8 && CXX=g++-8"
- - BUILD_NAME=mpi-osx-gcc-py
- - WITH_DISTRIBUTED=mpi WITH_PYTHON=true PY=3 WITH_NEUROML=ON ARCH=native
- compiler: gcc-8
-
-## test clang9 - single node/rank with threading backend ##
- - name: "osx, apple clang, serial, py"
- os: osx
- osx_image: xcode12
- python: 3.6
- env:
- - MATRIX_EVAL="CC=clang && CXX=clang++"
- - BUILD_NAME=cthread-osx-clang-py
- - WITH_DISTRIBUTED=serial WITH_PYTHON=true PY=3 WITH_NEUROML=ON ARCH=native
- compiler: clang
-
-## test clang9 - mpi with threading backend ##
- - name: "osx, apple clang, mpi, py"
- os: osx
- osx_image: xcode12
- python: 3.6
- env:
- - MATRIX_EVAL="CC=clang && CXX=clang++"
- - BUILD_NAME=mpi-osx-clang
- - WITH_DISTRIBUTED=mpi WITH_PYTHON=true PY=3 WITH_NEUROML=ON ARCH=native
- compiler: clang
-
-######################### LINUX #########################
-## test gcc8 - single node/rank with threading backend ##
- - name: "linux, gcc, serial, py"
- os: linux
- dist: bionic
- addons:
- apt:
- sources:
- packages:
- - g++-8
- - openmpi-bin
- - libopenmpi-dev
- - libxml2
- env:
- - MATRIX_EVAL="CC=gcc-8 && CXX=g++-8"
- - BUILD_NAME=cthread-linux-gcc-py
- - WITH_DISTRIBUTED=serial WITH_PYTHON=true PY=3 WITH_NEUROML=ON ARCH=haswell
- compiler: gcc-8
-
-## test gcc8 - mpi with threading backend ##
- - name: "linux, gcc, mpi, py"
- os: linux
- dist: bionic
- addons:
- apt:
- sources:
- packages:
- - g++-8
- - openmpi-bin
- - libopenmpi-dev
- - libxml2
- env:
- - MATRIX_EVAL="CC=gcc-8 && CXX=g++-8"
- - BUILD_NAME=mpi-linux-gcc-py
- - WITH_DISTRIBUTED=mpi WITH_PYTHON=true PY=3 WITH_NEUROML=ON ARCH=haswell
- compiler: gcc-8
-
-## test clang8 - single node/rank with threading backend ##
-# Note: need g++8 for C++17 stdlib.
- - name: "linux, clang, serial, py"
- os: linux
- dist: bionic
- addons:
- apt:
- sources:
- packages:
- - g++-8
- - clang-8
- - openmpi-bin
- - libopenmpi-dev
- - libxml2
- env:
- - MATRIX_EVAL="CC=clang-8 && CXX=clang++-8"
- - BUILD_NAME=cthread-linux-clang-py
- - WITH_DISTRIBUTED=serial WITH_PYTHON=true PY=3 WITH_NEUROML=ON ARCH=native
- compiler: clang-8.0
-
-## test clang8 - mpi with threading backend ##
-# Note: need g++8 for C++17 stdlib.
- - name: "linux, clang, mpi, py"
- os: linux
- dist: bionic
- addons:
- apt:
- sources:
- packages:
- - g++-8
- - clang-8
- - openmpi-bin
- - libopenmpi-dev
- - libxml2
- env:
- - MATRIX_EVAL="CC=clang-8 && CXX=clang++-8"
- - BUILD_NAME=mpi-linux-clang-py
- - WITH_DISTRIBUTED=mpi WITH_PYTHON=true PY=3 WITH_NEUROML=ON ARCH=native
- compiler: clang-8.0
-
-before_install:
- - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then export HOMEBREW_NO_AUTO_UPDATE=1; brew cask uninstall --force oclint; fi
-
-install:
- - |
- if [[ "$WITH_PYTHON" == "true" ]]; then
- curl https://bootstrap.pypa.io/get-pip.py -o get-pip.py
- python$PY get-pip.py
- pip$PY --version
- pip$PY install pandas
- pip$PY install seaborn
- fi
- - if [[ ( "$WITH_PYTHON" == "true" ) && ( "$TRAVIS_OS_NAME" == "osx" ) ]]; then pip$PY install numpy; fi
- - |
- if [[ "$WITH_DISTRIBUTED" == "mpi" ]]; then
- if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then
- brew install open-mpi;
- if [[ "$WITH_PYTHON" == "true" ]]; then
- pip$PY install mpi4py
- fi
- elif [[ ( "$TRAVIS_OS_NAME" == "linux" ) && ( "$WITH_PYTHON" == "true" ) ]]; then
- pip$PY install mpi4py
- fi
- fi
-
-before_script:
- - eval "${MATRIX_EVAL}"
-
-script: source ./scripts/travis/build.sh
-
-notifications:
- email:
- on_success: never
- on_failure: always
diff --git a/README.md b/README.md
index 448660def79e387ace900c9b0934f440810d63fd..e357256d13ad13b58dcb6d02257c61828b0e6203 100644
--- a/README.md
+++ b/README.md
@@ -1,4 +1,8 @@
-[](https://gitlab.com/cscs-ci/arbor-sim/arbor/-/commits/master) [](https://travis-ci.org/arbor-sim/arbor) [](https://codecov.io/gl/cscs-ci:arbor-sim/arbor) [](https://gitpod.io/#https://github.com/arbor-sim/arbor)
+[](https://gitlab.com/cscs-ci/arbor-sim/arbor/-/commits/master)
+[](https://github.com/arbor-sim/arbor/actions?query=workflow%3A%22Basic+Tests+and+Documentation%22)
+[](https://codecov.io/gl/cscs-ci:arbor-sim/arbor)
+[](https://gitpod.io/#https://github.com/arbor-sim/arbor)
+[](https://arbor.readthedocs.io/en/latest/)
# Arbor Library
diff --git a/doc/contrib/pr.rst b/doc/contrib/pr.rst
index 5eb2dae5263d32bf1a2523301eef2c3ea8d705bd..01d1d11e264c222bdb466bdb4b76a8ad723ebb85 100644
--- a/doc/contrib/pr.rst
+++ b/doc/contrib/pr.rst
@@ -32,12 +32,13 @@ the workflow is as follows:
as the Arbor project.
If this is a problem for you, please contact us at
`arbor-sim@fz-juelich.de <mailto:arbor-sim@fz-juelich.de>`__.
-5. A PR on Github is automatically built and tested by our CI bot called Travis.
- You can also run these tests yourself by building them first
+5. A PR on Github is automatically built and tested by GitHub Actions CI pipelines.
+ You can run these tests yourself by building them first
(``make tests``) and then running them (``./bin/*unit*``).
- If you make changes effecting simulations on GPUs, you can post a reply to
- your PR with ``bors try``. This will run our GPU test-suite.
+ your PR with ``bors try``, which will run the test-suite with GPU and MPI
+ enabled on `Piz Daint <https://www.cscs.ch/computers/piz-daint/>`_.
6. A member of the Arbor development team will review your contribution.
If they approve, your PR will be merged! Normally this should happen
within a few days.
@@ -55,7 +56,7 @@ Each pull request is reviewed according to these guidelines:
- At least one core Arbor team member needs to mark your PR with a
positive review.
-- Travis CI must produce a favourable result on your PR.
+- GitHub Actions CI must produce a favourable result on your PR.
- An Arbor team member will (squash) merge the PR with the PR change
summery as commit message.
- Consider using Gitpod to review larger PRs, see under checks on the Github PR page.
diff --git a/doc/index.rst b/doc/index.rst
index 0424bb7b259f6b34db56e1313e81fabd9e0d03c7..bb28039bb6121869cee6efdf8449998dbff7aaa1 100644
--- a/doc/index.rst
+++ b/doc/index.rst
@@ -1,8 +1,8 @@
Arbor
=====
-.. image:: https://travis-ci.org/arbor-sim/arbor.svg?branch=master
- :target: https://travis-ci.org/arbor-sim/arbor
+.. image:: https://github.com/arbor-sim/arbor/workflows/Basic%20Tests%20and%20Documentation/badge.svg
+ :target: https://github.com/arbor-sim/arbor/actions?query=workflow%3A%22Basic+Tests+and+Documentation%22
Welcome to the documentation for Arbor, the multi-compartment neural network simulation library.
diff --git a/scripts/travis/build.sh b/scripts/travis/build.sh
deleted file mode 100755
index 60e6e95b385452b524888b2ec3b99b4fc16a45c1..0000000000000000000000000000000000000000
--- a/scripts/travis/build.sh
+++ /dev/null
@@ -1,135 +0,0 @@
-RED='\033[0;31m'
-YELLOW='\033[0;33m'
-CLEAR='\033[0m'
-
-error() {>&2 echo -e "${RED}ERROR${CLEAR}: $1"; exit 1;}
-progress() { echo; echo -e "${YELLOW}STATUS${CLEAR}: $1"; echo;}
-
-base_path=`pwd`
-build_path=build-${BUILD_NAME}
-
-#
-# print build-specific and useful information
-#
-progress "build environment"
-
-compiler_version=`${CXX} --version | grep -m1 ""`
-cmake_version=`cmake --version | grep version | awk '{print $3}'`
-
-echo "compiler : ${compiler_version}"
-echo "cmake : ${cmake_version}"
-echo "build path : ${build_path}"
-echo "base path : ${base_path}"
-echo "python3 : $(which python3)"
-echo "python3ver : $(python3 --version)"
-
-if [[ "${WITH_DISTRIBUTED}" == "mpi" ]]; then
- echo "mpi : on"
- export OMPI_CC=${CC}
- export OMPI_CXX=${CXX}
- CC="mpicc"
- CXX="mpicxx"
- launch="mpiexec -n 4"
- # on mac:
- # --oversubscribe flag allows more processes on a node than processing elements
- # --mca btl tcp,self for Open MPI to use the "tcp" and "self" Byte Transfer Layers for transporting MPI messages
- # "self" to deliver messages to the same rank as the sender
- # "tcp" sends messages across TCP-based networks (Transmission Control Protocol with Internet Protocol)
- if [[ "$TRAVIS_OS_NAME" = "osx" ]]; then
- launch="${launch} --oversubscribe --mca btl tcp,self"
- fi
- WITH_MPI="ON"
-else
- echo "mpi : off"
- launch=""
- WITH_MPI="OFF"
-fi
-
-if [[ "${WITH_PYTHON}" == "true" ]]; then
- echo "python : on"
- ARB_WITH_PYTHON="ON"
- # The build process creates the arbor module in build_path/python/arbor
- export PYTHONPATH=$PYTHONPATH:${base_path}/${build_path}/python
- python_path=$base_path/python
- echo "python src : ${python_path}"
- echo "PYTHONPATH : ${PYTHONPATH}"
-
- if [[ "$TRAVIS_OS_NAME" = "linux" ]]; then
- pypref=$(python-config --prefix)
- PY_FLAGS="-DPYTHON_EXECUTABLE=$pypref/bin/python3.6 -DPYTHON_INCLUDE_DIR=$pypref/include/python3.6m -DPYTHON_LIBRARY=$pypref/lib/python3.6/config-3.6m-x86_64-linux-gnu/libpython3.6m.so"
- else
- PY_FLAGS=""
- fi
-else
- echo "python : off"
- ARB_WITH_PYTHON="OFF"
-fi
-
-#
-# make build path
-#
-mkdir -p $build_path
-cd $build_path
-
-#
-# run cmake
-#
-progress "Configuring with cmake"
-
-# Fix CMake/Homebrew/XCode mess. See: https://github.com/apple/swift/pull/32436
-if which xcrun >/dev/null; then
- typeset -x CMAKE_PREFIX_PATH="${CMAKE_PREFIX_PATH}":$(xcrun --sdk macosx --show-sdk-path)/usr
-fi
-
-cmake_flags="-DARB_WITH_ASSERTIONS=ON -DARB_USE_BUNDLED_LIBS=ON -DARB_WITH_NEUROML=${WITH_NEUROML} -DARB_WITH_MPI=${WITH_MPI} -DARB_WITH_PYTHON=${ARB_WITH_PYTHON} -DARB_ARCH=${ARCH} ${CXX_FLAGS} ${PY_FLAGS}"
-echo "cmake flags: ${cmake_flags}"
-cmake .. ${cmake_flags} || error "unable to configure cmake"
-
-export ARB_NUM_THREADS=2
-
-progress "C++ unit tests"
-make unit -j4 || error "building unit tests"
-./bin/unit --gtest_color=no || error "running unit tests"
-
-progress "C++ modcc unit testss"
-make unit-modcc -j4 || error "building modcc unit tests"
-./bin/unit-modcc --gtest_color=no || error "running modcc unit tests"
-
-progress "C++ distributed unit tests (local)"
-make unit-local -j4 || error "building local distributed unit tests"
-./bin/unit-local || error "running local distributed unit tests"
-
-if [[ "${WITH_DISTRIBUTED}" == "mpi" ]]; then
- progress "C++ distributed unit tests (MPI)"
- make unit-mpi -j4 || error "building MPI distributed unit tests"
- ${launch} ./bin/unit-mpi || error "running MPI distributed unit tests"
-fi
-
-if [[ "${WITH_PYTHON}" == "true" ]]; then
- progress "Building python module"
- make pyarb -j4 || error "building pyarb"
- progress "Python unit tests"
- python$PY $python_path/test/unit/runner.py -v2 || error "running python unit tests (serial)"
- progress "Python example: network_ring"
- python$PY $python_path/example/network_ring.py || error "running python network_ring example"
- progress "Python example: single_cell_model"
- python$PY $python_path/example/single_cell_model.py || error "running python single_cell_model example"
- progress "Python example: single_cell_recipe"
- python$PY $python_path/example/single_cell_recipe.py || error "running python single_cell_recipe example"
- progress "Python example: single_cell_detailed"
- python$PY $python_path/example/single_cell_detailed.py $python_path/example/morph.swc || error "running python single_cell_detailed example"
- progress "Python example: single_cell_detailed_recipe"
- python$PY $python_path/example/single_cell_detailed_recipe.py $python_path/example/morph.swc || error "running python single_cell_detailed_recipe example"
- progress "Python example: single_cell_swc"
- python$PY $python_path/example/single_cell_swc.py $base_path/test/unit/swc/pyramidal.swc || error "running python single_cell_swc example"
- if [[ "${WITH_DISTRIBUTED}" = "mpi" ]]; then
- if [[ "$TRAVIS_OS_NAME" = "osx" ]]; then
- progress "Python distributed unit tests (MPI)"
- ${launch} python$PY $python_path/test/unit_distributed/runner.py -v2 || error "running python distributed unit tests (MPI)"
- else
- progress "Python distributed unit tests (MPI) -- skipping on Linux due to Travis config issues on Bionic."
- fi
- fi
-fi
-
-cd $base_path