diff --git a/Dockerfile b/Dockerfile index f9e52d43..ac60e1e8 100644 --- a/Dockerfile +++ b/Dockerfile @@ -12,7 +12,8 @@ ARG vpipe_path=${install_path}/V-pipe ARG envs_path=${install_path}/conda_envs ARG test_data=/test-data ARG virus_download_list -ARG snaketag=stable +# HACK Snakemake v8 has breaking changes +ARG snaketag=v7.32.4 ### ### Stage 0: download conda environments diff --git a/tests/conda_snakedeploy_env.yaml b/tests/conda_snakedeploy_env.yaml index 3f8172ca..ce615fae 100644 --- a/tests/conda_snakedeploy_env.yaml +++ b/tests/conda_snakedeploy_env.yaml @@ -4,6 +4,6 @@ channels: - bioconda dependencies: - python <3.12 # temporary fix for snakemake issue #2480 - - snakemake-minimal + - snakemake-minimal <8 # HACK Snakemake v8 has breaking changes - snakedeploy - go-yq diff --git a/tests/conda_test_env.yaml b/tests/conda_test_env.yaml index 7c0122b8..e852d1b3 100644 --- a/tests/conda_test_env.yaml +++ b/tests/conda_test_env.yaml @@ -4,4 +4,4 @@ channels: - bioconda #- defaults # see: https://github.com/conda-forge/status/issues/144 dependencies: - - snakemake-minimal + - snakemake-minimal <8 # HACK Snakemake v8 has breaking changes diff --git a/utils/quick_install.sh b/utils/quick_install.sh index a51e9941..207677fb 100755 --- a/utils/quick_install.sh +++ b/utils/quick_install.sh @@ -176,7 +176,8 @@ conda config --set channel_priority strict # NOTE conda-forge *HAS TO* be higher than bioconda VPIPEENV= -if mamba install --yes snakemake-minimal mamba $GIT; then # NOTE Mac OS X and some Linux dockers don't have git out of the box +# HACK Snakemake v8 has breaking changes +if mamba install --yes 'snakemake-minimal<8' mamba $GIT; then # NOTE Mac OS X and some Linux dockers don't have git out of the box : # success! else oops 'I cannot install snakemake in base environment. Conflicts ?'