Add missing demes package

NBISweden · Feb 1, 2024 · 571baa7 · 571baa7
1 parent e765ea1
commit 571baa7
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Showing 2 changed files with 6 additions and 3 deletions.
diff --git a/scripts/Dockerfile b/scripts/Dockerfile
@@ -42,7 +42,8 @@ RUN conda init bash
 COPY env.yaml /tmp/env.yaml
 RUN conda env update -n base -f /tmp/env.yaml
 ENV PATH /miniconda3/envs/base/bin:$PATH
-RUN /bin/bash -c "source activate base"
+RUN conda init && \
+    echo "conda activate base" >> ~/.bashrc
 
 RUN python -m ipykernel install --user --display-name "Population Genomics in Practice (Python)"
 RUN python -m pip install git+https://github.com/NBISweden/pgip-tools

diff --git a/scripts/env.yaml b/scripts/env.yaml
@@ -12,16 +12,18 @@ dependencies:
   - bwa
   - ca-certificates
   - csvtk
-#  - cyvcf2
+  - demes
   - demesdraw
   - d4tools
   - fastqc
   - gatk4
   - gawk
-#  - htslib=1.15.1
   - ipykernel
   - jupyter
   - jupyter-cache
+  - libarchive
+  - libmamba
+  - mamba
   - mosdepth # =0.3.3
   - msprime>=1.2
   - multiqc