Add docker-compose config for the Reproducible environment

.gitignore

@@ -0,0 +1,4 @@
+.snakemake/
+example_data/output/
+example_data/reference/STARIndex/
+example_data/reference/SalmonIndex/

Dockerfile

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+FROM continuumio/miniconda3
+
+WORKDIR /app
+
+# Prepare environment
+RUN conda config --add channels bioconda
+RUN conda config --add channels conda-forge
+RUN conda install -y -c conda-forge mamba=0.23.3
+RUN mamba install -y -c bioconda snakemake=6.10.0

README.md

@@ -19,6 +19,11 @@ git clone https://github.com/csoneson/ARMOR.git
 cd ARMOR && snakemake --use-conda
 ```
 
+Or using docker:
+```
+docker-compose up
+```
+
 To use the ARMOR workflow on your own data, follow the steps outlined in the [wiki](https://github.com/csoneson/ARMOR/wiki).
 
 ## Workflow graph

docker-compose.yml

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+version: "3.9"
+services:
+  armor:
+    build: .
+    volumes:
+      - ./:/app
+    command: snakemake --use-conda --cores all