Cactus 2.1.1 2022-06-15

Cactus 2.1.1 is available in the following forms:

• Docker Image: quay.io/comparative-genomics-toolkit/cactus:v2.1.1
  GPU-accelerated Docker Image: quay.io/comparative-genomics-toolkit/cactus:v2.1.1-gpu
  Install instructions in README.md
• Pre-compiled Binaries Linux Tarball: cactus-bin-v2.1.1.tar.gz
  Install instructions in BIN-INSTALL.md
• Pre-compiled Binaries For Older CPU Architectures (no pangenome support) Linux Tarball: cactus-bin-legacy-v2.1.1.tar.gz
  Install instructions in BIN-INSTALL.md
• Source Tarball: cactus-v2.1.1.tar.gz
  Install instructions in README.md

WARNING: do not use the github automatically generated source files (Source code (zip) or Source code (tar.gz)), these are not correct.

The Docker images and binaries linked above are built using AVX2 extensions, and require a CPU that supports them, except the "Pre-compiled Binaries For Older CPU Architectures" which should be compatible with any 64-bit architecture (but don't yet support the Cactus's pangenome pipeline).

Please subscribe to the cactus-announce low-volume mailing list to receive notice of Cactus release.

Release notes

This release includes:

• Update Segalign to fix crash while lastz-repeatmasking certain (fragmented?) assemblies using GPUs.
• Add cactus-update-prepare which generates scripts for updating HAL alignments (Thanks @thiagogenez)
• Upgrade release (CPU) Docker images from Ubuntu 18.04 to Ubuntu 22.04.
• Upgrade release GPU Docker image from Ubuntu 18.04 / Cuda 10.2 to Ubuntu 20.04 / Cuda 11.4.3 (the most recent Cuda currently supported by Terra)