From 872259c1713a6164839d12eaeb9b47e2d280a9b4 Mon Sep 17 00:00:00 2001 From: Stefan Janssen Date: Sun, 24 Nov 2024 22:09:51 +0100 Subject: [PATCH] reactivate other tests --- .github/workflows/sepp_tests.yml | 28 ++++++++++++++-------------- 1 file changed, 14 insertions(+), 14 deletions(-) diff --git a/.github/workflows/sepp_tests.yml b/.github/workflows/sepp_tests.yml index 018c194..d2c989d 100644 --- a/.github/workflows/sepp_tests.yml +++ b/.github/workflows/sepp_tests.yml @@ -35,11 +35,11 @@ jobs: run: | python setup.py config -c python setup.py install - # - name: run tests - # shell: bash -el {0} - # run: | - # conda list - # nosetests -w test/unittest --with-doctest --with-coverage + - name: run tests + shell: bash -el {0} + run: | + conda list + nosetests -w test/unittest --with-doctest --with-coverage - name: functional test shell: bash -el {0} run: | @@ -47,15 +47,15 @@ jobs: cp ./.sepp/main.config sepp-package/sepp/.sepp/main.config sepp-package/run-sepp.sh test/unittest/data/q2-fragment-insertion/input_fragments.fasta funcTest -x 2 -a test/unittest/data/q2-fragment-insertion/reference_alignment_tiny.fasta -t test/unittest/data/q2-fragment-insertion/reference_phylogeny_tiny.nwk -r test/unittest/data/q2-fragment-insertion/RAxML_info-reference-gg-raxml-bl.info; cat *funcTest-err.log diff funcTest_placement.tog.relabelled.tre test/functionaltest/funcTest_q2-tiny_placement.tog.relabelled.tre - # - name: convert coverage - # shell: bash -el {0} - # run: | - # coverage lcov - # - name: send coverage report. - # uses: coverallsapp/github-action@master - # with: - # github-token: ${{ secrets.GITHUB_TOKEN }} - # path-to-lcov: "coverage.lcov" + - name: convert coverage + shell: bash -el {0} + run: | + coverage lcov + - name: send coverage report. + uses: coverallsapp/github-action@master + with: + github-token: ${{ secrets.GITHUB_TOKEN }} + path-to-lcov: "coverage.lcov" linting: strategy: