{
  "language": "generic",
  "os": [
    "linux"
  ],
  "dist": "bionic",
  "env": [
    "global=AUTH_TOKEN=[secure]"
  ],
  "addons": {
    "apt": {
      "packages": [
        "graphviz"
      ]
    }
  },
  "services": [
    "mysql"
  ],
  "cache": {
    "pip": true,
    "directories": [
      "$HOME/deps"
    ]
  },
  "before_install": [
    "cpanm -nq local::lib",
    "eval \"$(perl -Mlocal::lib=${HOME}/deps)\"",
    "export ENSEMBL_BRANCH='release/116'",
    "export SECONDARY_BRANCH='main'",
    "git clone --depth 1 https://github.com/Ensembl/ensembl-git-tools.git",
    "export PATH=$PATH:$PWD/ensembl-git-tools/bin",
    "git-ensembl --clone --branch $ENSEMBL_BRANCH --secondary_branch $SECONDARY_BRANCH --depth 1 ensembl-test",
    "git-ensembl --clone --branch $ENSEMBL_BRANCH --secondary_branch $SECONDARY_BRANCH --depth 1 ensembl-rest",
    "git-ensembl --clone --branch $ENSEMBL_BRANCH --secondary_branch $SECONDARY_BRANCH --depth 1 ensembl-funcgen",
    "git-ensembl --clone --branch $ENSEMBL_BRANCH --secondary_branch $SECONDARY_BRANCH --depth 1 ensembl-variation",
    "git-ensembl --clone --branch $ENSEMBL_BRANCH --secondary_branch $SECONDARY_BRANCH --depth 1 ensembl-io",
    "git-ensembl --clone --branch $ENSEMBL_BRANCH --secondary_branch $SECONDARY_BRANCH --depth 1 ensembl",
    "git-ensembl --clone --branch $ENSEMBL_BRANCH --secondary_branch $SECONDARY_BRANCH --depth 1 ensembl-datacheck",
    "git-ensembl --clone --branch $ENSEMBL_BRANCH --secondary_branch $SECONDARY_BRANCH --depth 1 ensembl-metadata",
    "git-ensembl --clone --branch version/2.7.0 --depth 1 ensembl-hive",
    "git-ensembl --clone --branch main --depth 1 ensembl-taxonomy",
    "ln -s . ensembl-compara",
    "git clone --branch v1.6.x --depth 1 https://github.com/bioperl/bioperl-live",
    "git clone --branch release-1-6-9 --depth 1 https://github.com/bioperl/bioperl-run",
    "sed -i '/Bio::DB::HTS/d' ensembl-rest/cpanfile",
    "export ENSEMBL_ROOT_DIR=$PWD",
    "export EHIVE_ROOT_DIR=$PWD/ensembl-hive",
    "export PERL5LIB=$PERL5LIB:$PWD/bioperl-live",
    "export PERL5LIB=$PERL5LIB:$PWD/bioperl-run/lib",
    "export PERL5LIB=$PERL5LIB:$PWD/modules",
    "export PERL5LIB=$PERL5LIB:$PWD/travisci/fake_libs/",
    "export PERL5LIB=$PERL5LIB:$PWD/ensembl/modules",
    "export PERL5LIB=$PERL5LIB:$PWD/ensembl-rest/lib",
    "export PERL5LIB=$PERL5LIB:$PWD/ensembl-hive/modules",
    "export PERL5LIB=$PERL5LIB:$PWD/ensembl-test/modules",
    "export PERL5LIB=$PERL5LIB:$PWD/ensembl-funcgen/modules",
    "export PERL5LIB=$PERL5LIB:$PWD/ensembl-variation/modules",
    "export PERL5LIB=$PERL5LIB:$PWD/ensembl-taxonomy/modules",
    "export PERL5LIB=$PERL5LIB:$PWD/ensembl-io/modules",
    "export PERL5LIB=$PERL5LIB:$PWD/ensembl-datacheck/lib",
    "export PERL5LIB=$PERL5LIB:$PWD/ensembl-metadata/modules",
    "cp -f travisci/MultiTestDB.conf.travisci  modules/t/MultiTestDB.conf",
    "cp -f ensembl-rest/travisci/MultiTestDB.conf.travisci ensembl-rest/t/MultiTestDB.conf",
    "cp -f ensembl/travisci/MultiTestDB.conf.travisci.mysql  ensembl/modules/t/MultiTestDB.conf",
    "mysql -u root -h localhost -e 'GRANT ALL PRIVILEGES ON *.* TO \"travis\"@\"%\"'"
  ],
  "jobs": {
    "include": [
      {
        "language": "perl",
        "perl": "5.32",
        "name": "Housekeeping (all languages)",
        "install": [
          "sudo apt-get -y install shellcheck",
          "pip install --user yamllint",
          "cpanm --quiet --installdeps --notest --cpanfile ensembl/cpanfile .",
          "cpanm --quiet --installdeps --notest .",
          "yamllint --version",
          "shellcheck --version"
        ],
        "script": [
          "prove -rv ./travisci/all-housekeeping/"
        ]
      },
      {
        "language": "perl",
        "perl": "5.32",
        "name": "SQL unit tests",
        "install": [
          "cpanm --quiet --installdeps --notest --cpanfile ensembl/cpanfile .",
          "cpanm --quiet --installdeps --notest ."
        ],
        "script": [
          "prove -r ./travisci/sql-unittest/"
        ]
      },
      {
        "language": "perl",
        "perl": "5.24",
        "name": "Perl unit tests on the minimum version",
        "env": [
          {
            "COVERAGE": "true"
          }
        ],
        "install": [
          "cpanm --quiet --installdeps --notest --cpanfile ensembl/cpanfile .",
          "cpanm --quiet --installdeps --notest --cpanfile ensembl-hive/cpanfile .",
          "cpanm --quiet --installdeps --notest --cpanfile ensembl-rest/cpanfile .",
          "cpanm --quiet --installdeps --notest .",
          "cpanm --quiet --notest Devel::Cover::Report::Codecov"
        ],
        "script": [
          "./travisci/perl-unittest_harness.sh"
        ]
      },
      {
        "language": "perl",
        "perl": "5.32",
        "name": "Perl unit tests on the latest version, with code coverage",
        "env": [
          {
            "COVERAGE": "true"
          }
        ],
        "install": [
          "cpanm --quiet --installdeps --notest --cpanfile ensembl/cpanfile .",
          "cpanm --quiet --installdeps --notest --cpanfile ensembl-hive/cpanfile .",
          "cpanm --quiet --installdeps --notest --cpanfile ensembl-rest/cpanfile .",
          "cpanm --quiet --installdeps --notest .",
          "cpanm --quiet --notest Devel::Cover::Report::Codecov"
        ],
        "script": [
          "./travisci/perl-unittest_harness.sh"
        ],
        "after_success": [
          "cover --nosummary -report codecov"
        ]
      },
      {
        "language": "perl",
        "perl": "5.32",
        "name": "Perl external unit tests on the latest version, with code coverage",
        "env": [
          {
            "COVERAGE": "true"
          }
        ],
        "install": [
          "cpanm --quiet --installdeps --notest --cpanfile ensembl/cpanfile .",
          "cpanm --quiet --notest [email protected]",
          "cpanm --quiet --installdeps --notest --cpanfile ensembl-rest/cpanfile .",
          "cpanm --quiet --installdeps --notest --cpanfile ensembl-hive/cpanfile .",
          "cpanm --quiet --installdeps --notest .",
          "cpanm --quiet --notest Devel::Cover::Report::Codecov"
        ],
        "script": [
          "./travisci/perl-external_unittest_harness.sh"
        ],
        "after_success": [
          "cover --nosummary -report codecov"
        ]
      },
      {
        "language": "perl",
        "perl": "5.32",
        "name": "Perl linter",
        "install": [
          "cpanm --quiet --installdeps --notest --cpanfile ensembl/cpanfile ."
        ],
        "script": [
          "./travisci/perl-linter_harness.sh"
        ]
      },
      {
        "language": "python",
        "python": "3.10",
        "name": "Python unit tests on the minimum version",
        "install": [
          "pip install --upgrade pip",
          "pip install .[test]"
        ],
        "script": [
          "pytest --server=mysql://[email protected]:3306/"
        ]
      },
      {
        "language": "python",
        "python": "3.11",
        "name": "Python unit tests on the latest version, with code coverage",
        "install": [
          "pip install --upgrade pip",
          "pip install codecov",
          "pip install .[test]"
        ],
        "script": [
          "pytest --cov=./ --cov-report=term-missing --server=mysql://[email protected]:3306/"
        ],
        "after_success": [
          "codecov"
        ]
      },
      {
        "language": "python",
        "python": "3.10",
        "name": "Python linter",
        "install": [
          "pip install --upgrade pip",
          "pip uninstall dataclasses -y",
          "pip install .[test]"
        ],
        "script": [
          "./travisci/python-linter_harness.sh"
        ]
      }
    ]
  },
  "notifications": {
    "email": [
      {
        "on_success": "always",
        "on_failure": "always"
      }
    ]
  }
}