Merge pull request #1784 from veg/docker

add dockerfile

Dockerfile

@@ -0,0 +1,26 @@
+FROM ubuntu:24.04
+
+# Install build dependencies
+RUN apt-get update && \
+    apt-get install --no-install-recommends -y build-essential cmake
+
+# Add a non-root user
+RUN groupadd -r hyphyuser && useradd -r -g hyphyuser hyphyuser
+
+# Create a directory for the project
+WORKDIR /hyphy
+
+# Copy project files
+COPY ./cmake /hyphy/cmake
+COPY ./src /hyphy/src
+COPY ./contrib /hyphy/contrib
+COPY ./res /hyphy/res
+COPY CMakeLists.txt /hyphy
+COPY ./tests /hyphy/tests
+
+RUN chown -R hyphyuser:hyphyuser .
+
+# Install project
+RUN cmake . && make -j install
+
+USER hyphyuser

README.md

@@ -9,6 +9,20 @@ HyPhy is an open-source software package for the analysis of genetic sequences u
 #### Install
 `conda install -c bioconda hyphy`
 
+#### Running with Docker
+You can also run HyPhy without having to install it on your system using the provided Dockerfile. Following the below instructions starts an interactive Docker container where HyPhy is already available. 
+
+If you don't have Docker installed, first look at [Docker Desktop](https://docs.docker.com/desktop/).
+
+**Please note you must change this code snippet to point to the appropriate location for your input data. This will be made available inside the container at `/hyphy/data`.**
+
+```
+git clone https://github.com/veg/hyphy.git
+cd hyphy
+docker build -t hyphy:latest .
+docker run --rm -v [path-to-your-input-data]:/hyphy/data -it hyphy:latest
+```
+
 #### Run with Command Line Arguments
 `hyphy <method_name> --alignment <path_to_alignment_file> <additional_method_specific_arguments>`  
 + _`<method_name>` is the name of the analysis you wish to run (can be: absrel, bgm, busted, fade, fel, fubar, gard, meme, relax or slac)_