drab

RNA-seq count tables, revisited

Structure

• src/: Contains C++ source code and CMakeLists.txt
• env/: Contains Conda environment specifications
• workflow/: Contains Snakefile for build automation

Running with snmk

To build and run the example using Snakemake:

cd workflow
snakemake --use-conda --cores 1

This will:

1. Create a conda environment with cmake and g++
2. Compile the C++ code
3. Run the executable and save output to output/hello_output.txt

Building src

To build manually without Snakemake:

mkdir -p build
cd build
cmake ../src
cmake --build .
./hello

CI/CD

• snakemake.yml to run the workflow (serially)