Installation

Trim Galore v2 ships as a single static binary. No Python, no Perl, no Cutadapt, no Java, no igzip, no pigz, no external FastQC. Pick whichever channel fits the rest of your stack.

The current stable release on crates.io is v2.0.0. v2.1.0 is in beta. cargo install trim-galore without --version installs v2.0.0. To install the beta:

cargo install trim-galore --version 2.1.0-beta.7
docker pull ghcr.io/felixkrueger/trimgalore:beta

To send feedback on the beta, open an issue with the beta-feedback label. This notice goes away at v2.1.0 GA.

From crates.io

Requires the Rust toolchain (1.88+):

cargo install trim-galore

From bioconda

conda install -c bioconda trim-galore

Build from source

git clone https://github.com/FelixKrueger/TrimGalore.git
cd TrimGalore
cargo build --release
# Binary is at target/release/trim_galore

Latest development version

To install the latest unreleased changes from the development branch:

cargo install --git https://github.com/FelixKrueger/TrimGalore --branch optimus_prime trim-galore --force

--force overwrites any existing trim_galore binary (e.g. a v2.0.0 install from crates.io).

Docker

Multi-arch images (amd64 and arm64) are published to the GitHub Container Registry:

docker run --rm -v "$PWD":/data -w /data \
    ghcr.io/felixkrueger/trimgalore:beta \
    trim_galore input.fastq.gz

FastQC is built in via the bundled fastqc-rust library, so --fastqc works without Java or an external fastqc install.

Tag	Updates
`:beta`	latest prerelease (currently v2.1.0-beta.7)
`:v2.1.0-beta.7`	pinned to a specific prerelease
`:dev`	every push to the `optimus_prime` development branch
`:latest`	latest stable release (publishes from v2.1.0 GA onward)

Prebuilt binaries

Prebuilt binaries for Linux (x86_64, aarch64) and macOS (Apple Silicon) are on the Releases page. On Intel Mac, install via cargo install trim-galore (local build) or use the Docker amd64 image.

Runtime dependencies

None. Trim Galore v2 is a single static binary. Adapter trimming, gzip, and FastQC reporting (--fastqc) all run in-process. Python, Perl, Cutadapt, Java, igzip, pigz, and the external FastQC tarball are no longer required.

Verifying the install

trim_galore --version

Should print:

trim_galore 2.1.0-beta.7 (Oxidized Edition)
<git-hash> — <os>/<arch> — built <ISO-8601-UTC>

The first line is also what -V prints. The second line is the build provenance (commit, target triple, deterministic build timestamp).