11FROM condaforge/miniforge3:latest
22LABEL io.github.snakemake.containerized="true"
3- LABEL io.github.snakemake.conda_env_hash="7071b22b1161190c06be3ac061ab0019a1a8d3038532c9134e070a3875414ef5 "
3+ LABEL io.github.snakemake.conda_env_hash="a74592ad8bd4ec05cb4d3f2bde91dd12ba674df1828dc48cc7e2c39b95aed05c "
44
55# Step 2: Retrieve conda environments
66
@@ -149,15 +149,16 @@ COPY workflow/envs/snpeff.yaml /conda-envs/0adafb79cb1bec58ef4c77bf4cca4f95/envi
149149
150150# Conda environment:
151151# source: workflow/envs/var_calling.yaml
152- # prefix: /conda-envs/5150d0f0a91d7f7a789a06f453d63479
152+ # prefix: /conda-envs/81e46c677a6cc0618c93963d57d17d3f
153153# channels:
154154# - conda-forge
155155# - bioconda
156156# dependencies:
157157# - ivar==1.4.2
158158# - samtools==1.17
159- RUN mkdir -p /conda-envs/5150d0f0a91d7f7a789a06f453d63479
160- COPY workflow/envs/var_calling.yaml /conda-envs/5150d0f0a91d7f7a789a06f453d63479/environment.yaml
159+ # - bcftools==1.17
160+ RUN mkdir -p /conda-envs/81e46c677a6cc0618c93963d57d17d3f
161+ COPY workflow/envs/var_calling.yaml /conda-envs/81e46c677a6cc0618c93963d57d17d3f/environment.yaml
161162
162163# Step 3: Generate conda environments
163164
@@ -172,7 +173,7 @@ RUN conda env create --prefix /conda-envs/9c24a867826615972cc288081976e7fc --fil
172173 conda env create --prefix /conda-envs/96f3c1cec4b3ce5d72f708992272e9c1 --file /conda-envs/96f3c1cec4b3ce5d72f708992272e9c1/environment.yaml && \
173174 conda env create --prefix /conda-envs/8ad6cdcf265d30289788da99d5bf9fff --file /conda-envs/8ad6cdcf265d30289788da99d5bf9fff/environment.yaml && \
174175 conda env create --prefix /conda-envs/0adafb79cb1bec58ef4c77bf4cca4f95 --file /conda-envs/0adafb79cb1bec58ef4c77bf4cca4f95/environment.yaml && \
175- conda env create --prefix /conda-envs/5150d0f0a91d7f7a789a06f453d63479 --file /conda-envs/5150d0f0a91d7f7a789a06f453d63479 /environment.yaml && \
176+ conda env create --prefix /conda-envs/81e46c677a6cc0618c93963d57d17d3f --file /conda-envs/81e46c677a6cc0618c93963d57d17d3f /environment.yaml && \
176177 conda clean --all -y
177178
178179# Step 4: Run post-deploy scripts
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