.travis.yml

# 'sudo required' will give us 7,5 GB memory, but has slower startup times, as we start a VM instead of a Container
sudo: required
language: python
cache: pip

python: 2.7

jobs:
  include:
    - stage: lint
      addons: {}
      before_install: skip
      install:
        - pip install flake8 flake8-import-order planemo
        - planemo --version
        - git diff --quiet "$TRAVIS_COMMIT_RANGE" -- ; GIT_DIFF_EXIT_CODE=$?
        - |
          if [ "$GIT_DIFF_EXIT_CODE" -gt 1 ] ; then
              git remote set-branches --add origin master
              git fetch
              TRAVIS_COMMIT_RANGE=origin/master...
          fi
        - echo $TRAVIS_COMMIT_RANGE
        - |
          planemo ci_find_repos --exclude_from .tt_blacklist \
                                --exclude deprecated \
                                --exclude packages \
                                --changed_in_commit_range "$TRAVIS_COMMIT_RANGE" \
                                --output changed_repositories.list
        - cat changed_repositories.list
      script:
        - set -e
        #- cd "$TRAVIS_BUILD_DIR" && flake8 --exclude=.git,./deprecated/ .
        - while read -r DIR; do planemo shed_lint --tools --ensure_metadata --urls --report_level warn --fail_level error --recursive "$DIR"; done < changed_repositories.list

    - stage: test
      env: CHUNK=0

    - stage: test
      env: CHUNK=1

    - stage: test
      env: CHUNK=2

    - stage: deploy
      if: (type = push) AND (branch = master)
      addons: {}
      before_install: skip
      install:
        - pip install planemo
        - planemo --version
        - git diff --quiet "$TRAVIS_COMMIT_RANGE" -- ; GIT_DIFF_EXIT_CODE=$?
        - |
          if [ "$GIT_DIFF_EXIT_CODE" -gt 1 ] ; then
              git remote set-branches --add origin master
              git fetch
              TRAVIS_COMMIT_RANGE=origin/master...
          fi
        - echo $TRAVIS_COMMIT_RANGE
        - |
          planemo ci_find_repos --exclude_from .tt_blacklist \
                                --changed_in_commit_range "$TRAVIS_COMMIT_RANGE" \
                                --output changed_repositories.list
        - cat changed_repositories.list
      script:
        - set -e
        - |
          if [ "$TRAVIS_PULL_REQUEST" == "false" -a "$TRAVIS_BRANCH" == "master" ]; then
              while read -r DIR; do planemo shed_update --shed_target testtoolshed --shed_email "$SHED_EMAIL" --shed_password "$SHED_PASSWORD" --force_repository_creation "$DIR" || exit 1; done < changed_repositories.list
              while read -r DIR; do planemo shed_update --shed_target toolshed --shed_email "$SHED_EMAIL" --shed_password "$SHED_PASSWORD" --force_repository_creation "$DIR" || exit 1; done < changed_repositories.list
          fi

before_install:
  - export GALAXY_REPO=https://github.com/galaxyproject/galaxy
  - export GALAXY_RELEASE=release_19.05
  - export PLANEMO_CONDA_PREFIX="$HOME/conda"
  - unset JAVA_HOME

install:
  - pip install planemo
  - planemo conda_init
  - export PATH="$PLANEMO_CONDA_PREFIX/bin:$PATH"
  - conda install -y -c conda-forge conda=4.3.34
  - planemo --version
  - conda --version
  - git diff --quiet "$TRAVIS_COMMIT_RANGE" -- ; GIT_DIFF_EXIT_CODE=$?
  - |
    if [ "$GIT_DIFF_EXIT_CODE" -gt 1 ] ; then
        git remote set-branches --add origin master
        git fetch
        TRAVIS_COMMIT_RANGE=origin/master...
    fi
  - echo $TRAVIS_COMMIT_RANGE
  - |
    planemo ci_find_repos --exclude data_managers \
                          --exclude packages \
                          --exclude deprecated \
                          --exclude_from .tt_blacklist \
                          --changed_in_commit_range "$TRAVIS_COMMIT_RANGE" \
                          --output changed_repositories.list
  - touch changed_repositories_chunk.list changed_tools_chunk.list
  - |
    if [ -s changed_repositories.list ]; then
        if [ $(wc -l < changed_repositories.list) -eq 1 ]; then
            planemo ci_find_tools --chunk_count 3 --chunk "${CHUNK}" \
                                  --output changed_tools_chunk.list \
                                  $(cat changed_repositories.list)
        else
            planemo ci_find_repos --chunk_count 3 --chunk "${CHUNK}" \
                                  --output changed_repositories_chunk.list \
                                  $(cat changed_repositories.list)
        fi
    fi
  - cat changed_repositories.list
  - cat changed_repositories_chunk.list
  - cat changed_tools_chunk.list

script:
  - set -e
  - |
    if [ -s changed_tools_chunk.list ]; then

        if grep -Fq "msconvert" changed_tools_chunk.list
        then
          planemo test --docker --galaxy_branch "$GALAXY_RELEASE" --galaxy_source "$GALAXY_REPO" $(cat changed_tools_chunk.list)
        else
          travis_wait 45 planemo test --conda_dependency_resolution --conda_auto_install --conda_channels iuc,bioconda,conda-forge,defaults --galaxy_branch "$GALAXY_RELEASE" --galaxy_source "$GALAXY_REPO" $(cat changed_tools_chunk.list)
        fi
    elif [ -s changed_repositories_chunk.list ]; then
        while read -r DIR; do
            if [[ $DIR == *"msconvert"* ]]; then
                planemo test --docker --galaxy_branch "$GALAXY_RELEASE" --galaxy_source "$GALAXY_REPO" "$DIR"
            else
               travis_wait 45 planemo test --conda_dependency_resolution --conda_auto_install --conda_channels iuc,bioconda,conda-forge,defaults --galaxy_branch "$GALAXY_RELEASE" --galaxy_source "$GALAXY_REPO" "$DIR"
            fi
        done < changed_repositories_chunk.list
    fi