diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index 83d2195..b7c0b09 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -82,7 +82,7 @@ jobs: - name: Download the vecscreen test data run: | mkdir vecscreen - wget -c https://tolit.cog.sanger.ac.uk/test-data/resources/vecscreen/GCA_900155405.1_PRJEB18760_genomic.fna -O vecscreen/GCA_900155405.1_PRJEB18760_genomic.fna + curl -L https://ftp.ncbi.nlm.nih.gov/blast/db/v4/16SMicrobial_v4.tar.gz | tar -C vecscreen -xzf - - name: Run pipeline with test data # TODO nf-core: You can customise CI pipeline run tests as required diff --git a/assets/github_testing/test.yaml b/assets/github_testing/test.yaml index e4e7b82..7b35de1 100755 --- a/assets/github_testing/test.yaml +++ b/assets/github_testing/test.yaml @@ -20,7 +20,7 @@ busco_lineages_folder: /home/runner/work/ascc/ascc/busco_database/lineages fcs_gx_database_path: /home/runner/work/ascc/ascc/FCS_gx/ diamond_uniprot_database_path: /home/runner/work/ascc/ascc/diamond/UP000000212_1234679_tax.dmnd diamond_nr_database_path: /home/runner/work/ascc/ascc/diamond/UP000000212_1234679_tax.dmnd -vecscreen_database_path: /home/runner/work/ascc/ascc/NT_database +vecscreen_database_path: /home/runner/work/ascc/ascc/vecscreen seqkit: sliding: 6000 window: 100000