adding a new travis run with singularity

.travis.yml

@@ -26,7 +26,6 @@ env:
     - INSTALL_TYPE="sdist"
     - INSTALL_TYPE="wheel"
     - INSTALL_DEPENDS="pip==18.1 setuptools==30.2.1"
-    - INSTALL_DEPENDS="pip==10.0.1 setuptools==30.3.0"
     - DEPENDS="-r min-requirements.txt"
     - CHECK_TYPE="style"
 
@@ -36,10 +35,15 @@ matrix:
   include:
   - python: 3.7
     env: JOBQUEUE="slurm"
-  allow_failures:
+  - language: go
+    go: 1.13
+    env:
+      - JOBQUEUE="singularity"
+      - INSTALL_TYPE="develop"
   - python: 3.7
     env: INSTALL_DEPENDS="pip==10.0.1 setuptools==30.3.0"
-  - python: 3.8
+  allow_failures:
+  - python: 3.7
     env: INSTALL_DEPENDS="pip==10.0.1 setuptools==30.3.0"
 
 

ci/none.sh

@@ -47,7 +47,7 @@ function travis_before_script {
 
 function travis_script {
     if [ "$CHECK_TYPE" = "test" ]; then
-        pytest -vs -n auto --cov pydra tutorial --cov-config .coveragerc --cov-report xml:cov.xml --doctest-modules pydra
+        pytest -vs -n auto --cov pydra --cov-config .coveragerc --cov-report xml:cov.xml --doctest-modules pydra tutorial
     elif [ "$CHECK_TYPE" = "style" ]; then
         black --check pydra tools setup.py
     fi

ci/singularity.sh

@@ -0,0 +1,36 @@
+# local build environment
+
+function travis_before_install {
+    sudo apt-get update;
+    sudo apt-get install flawfinder squashfs-tools uuid-dev libuuid1 libffi-dev libssl-dev libssl1.0.0 \
+    libarchive-dev libgpgme11-dev libseccomp-dev wget gcc make pkg-config -y;
+    export VERSION=3.5.0;
+    travis_retry wget -q https://github.com/sylabs/singularity/releases/download/v${VERSION}/singularity-${VERSION}.tar.gz;
+    tar -xzf singularity-${VERSION}.tar.gz;
+    cd singularity;
+    ./mconfig;
+    make -C ./builddir;
+    sudo make -C ./builddir install;
+    cd -;
+    travis_retry wget -q https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh;
+    bash Miniconda3-latest-Linux-x86_64.sh -b -p $HOME/miniconda;
+    eval "$($HOME/miniconda/bin/conda shell.bash hook)"
+}
+
+function travis_install {
+    python setup.py develop
+    # Verify import with bare install
+    python -c 'import pydra; print(pydra.__version__)'
+}
+
+function travis_before_script {
+    pip install -e ".[test]"
+}
+
+function travis_script {
+    pytest -vs --cov pydra --cov-config .coveragerc --cov-report xml:cov.xml --doctest-modules pydra
+}
+
+function travis_after_script {
+    codecov --file cov.xml --flags unittests -e TRAVIS_JOB_NUMBER
+}