./biology/canu, Single molecule sequence assembler for genomes large and small

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Branch: CURRENT, Version: 2.2nb3, Package name: canu-2.2nb3, Maintainer: bacon

Canu is a fork of the Celera Assembler, designed for high-noise single-molecule
sequencing (such as the PacBio RS II/Sequel or Oxford Nanopore MinION).

Canu is a hierarchical assembly pipeline which runs in four steps:

Detect overlaps in high-noise sequences using MHAP

Generate corrected sequence consensus

Trim corrected sequences

Assemble trimmed corrected sequences


Required to run:
[graphics/gnuplot] [lang/perl5] [devel/boost-libs]

Required to build:
[devel/boost-headers] [pkgtools/cwrappers]

Master sites:

Filesize: 2343.938 KB

Version history: (Expand)

CVS history: (Expand)


   2024-02-23 15:30:59 by Jason Bacon | Files touched by this commit (1) 
Log message:
biology/canu: Update to 2.2nb3

Remove gnuplot dependency.  It isn't necessary for basic canu
functionality, and it pulls in a rust dependency, which causes
frequent breakage.
   2023-12-29 19:25:02 by Adam Ciarcinski | Files touched by this commit (254) 
Log message:
revbump for boost-libs
   2023-07-06 11:43:03 by Thomas Klausner | Files touched by this commit (2483) 
Log message:
*: recursive bump for perl 5.38
   2023-06-01 05:33:32 by Thomas Klausner | Files touched by this commit (2) 
Log message:
canu: remove patches that are not in distinfo
   2023-06-01 05:33:03 by Thomas Klausner | Files touched by this commit (1) 
Log message:
canu: use github framework variables
   2023-05-20 16:42:11 by Jason Bacon | Files touched by this commit (13) 
Log message:
biology/canu: Fix build on Darwin aarch64

Replace SIMDE with upstream source hacks from FreeBSD port
Should also work on powerpc, but untested
No changes to existing binaries
   2023-05-20 13:27:27 by Jason Bacon | Files touched by this commit (13) 
Log message:
biology/canu: Hacks to support Darwin x86

OpenMP support needs improvement
Darwin aarch64 still blocked by glib2 build issues
No changes to binaries on other platforms
   2023-05-18 20:17:32 by Jason Bacon | Files touched by this commit (15) 
Log message:
biology/canu: Update to 2.2

Numerous new features, enhancements, and bug fixes since 1.8
Enabled support for aarch64
May work on other 64-bit platforms, but untested

Changes: https://github.com/marbl/canu/releases