STEPS

Inspired by The Long-Term Evolution Experiment, Serially Transferred Evolving Population Simulator (aka STEPS) models the dynamics of asexual populations as they grow and evolve throughout a serial transfer experiment. Information regarding how to install, compile, and run STEPS can all be found in the User Manual file along with other helpful information such as: example runs and how to interpret them, core assumptions made by model, and a walk through of web-based version. Basic installation, run, and compilation instructions can also be found below.

Instructions to build and run:

1. Install Rust and Cargo using rustup
2. Navigate to the root directory of the project
3. Compile as described below
4. Run ./target/release/steps help or ./target/debug/steps help for usage instructions

Compilation Options

• Basic compilation command is cargo build for debug or cargo build --release for release (optimized) mode
• To target the native CPU and allow better optimization, use RUSTFLAGS="-C target-cpu=native" cargo build [...]
  • A specific architecture like skylake can be specified instead of native
  • Make sure the target CPU selected will not cause issues for any computers you use to run the code
• Release mode and target specification are highly recommended
• On the MSU HPCC, use RUSTFLAGS="-C target-cpu=skylake" cargo build --release
• On a single personal computer, use RUSTFLAGS="-C target-cpu=native" cargo build --release
• For more portable libraries when compiling for Linux, the crt-static feature can be used
  • RUSTFLAGS="[...] -C target-feature=+crt-static" cargo build [...] --target=x86_64-unknown-linux-gnu