diff --git a/tests/regression_tests.sh b/tests/regression_tests.sh index 35d2a040..b180a81a 100755 --- a/tests/regression_tests.sh +++ b/tests/regression_tests.sh @@ -99,6 +99,7 @@ CONFIG_TRIM cat "${data_root}/config-extra.yaml" echo fi + export GIT_CLONE_PROTECTION_ACTIVE=false echo "config files ${config_file[*]}" PYTHONUNBUFFERED=1 snakemake \ diff --git a/workflow/envs/smallgenomeutilities.yaml b/workflow/envs/smallgenomeutilities.yaml index 6df73ff5..8d7fb593 100644 --- a/workflow/envs/smallgenomeutilities.yaml +++ b/workflow/envs/smallgenomeutilities.yaml @@ -2,4 +2,20 @@ channels: - conda-forge - bioconda dependencies: - - smallgenomeutilities=0.4.0 + - python >=3 + - progress + - numpy + - pandas + - pyyaml + - biopython + - bcbio-gff + - pysam + - pysamstats + - scikit-learn + - scipy + - matplotlib-base + - mafft + - pip + - cython + - pip: + - git+https://github.com/cbg-ethz/smallgenomeutilities.git@dev#egg=smallgenomeutilities