Cactus 2.6.4 2023-07-02

Cactus 2.6.4 is available in the following forms:

• Docker Image: quay.io/comparative-genomics-toolkit/cactus:v2.6.4
  GPU-accelerated Docker Image: quay.io/comparative-genomics-toolkit/cactus:v2.6.4-gpu
  Install instructions in README.md
• Pre-compiled Binaries Linux Tarball: cactus-bin-v2.6.4.tar.gz
  Install instructions in BIN-INSTALL.md
• Pre-compiled Binaries For Older CPU Architectures Linux Tarball: cactus-bin-legacy-v2.6.4.tar.gz
  Install instructions in BIN-INSTALL.md
• Source Tarball: cactus-v2.6.4.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 (and, since version 2.3.1, support Cactus's pangenome pipeline).

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

Release Notes

This is another minor patch release to fix support for multiple values to --reference.

• Don't fail if a given reference contig contains no sequences from the 2nd reference. This issue prevented completing of HPRC graphs with --reference GRCh38 CHM13 because CHM13 wasn't present in the non-chromosome components.
• Fix --dupeMode consensus to output MAF with rows sorted (and, importantly, leaving the first row as reference).