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

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Branch: CURRENT, Version: 1.8nb7, Package name: canu-1.8nb7, 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:

SHA1: 7dd79415aa5ecb95f05109f0d8d58f7cbfc336e9
RMD160: 78d4872b4034f526037ce225c699debd910bd586
Filesize: 2407.533 KB

Version history: (Expand)

CVS history: (Expand)


   2020-08-31 20:13:29 by Thomas Klausner | Files touched by this commit (3631) | Package updated
Log message:
*: bump PKGREVISION for perl-5.32.
   2020-05-16 21:50:21 by Roland Illig | Files touched by this commit (2) 
Log message:
biology/canu: fix build on NetBSD-8.0-x86_64
   2020-05-16 21:40:59 by Roland Illig | Files touched by this commit (1) 
Log message:
biology/canu: fix SUBST blocks to actually find the Java code
   2020-05-14 20:30:05 by Roland Illig | Files touched by this commit (1) 
Log message:
biology/canu: don't try to chmod system binaries

/usr/bin/chmod -R g-w /home/pbulk/build/biology/canu/work
chmod: WARNING: can't change /home/pbulk/build/biology/canu/work/.gcc/bin/cc
chmod: WARNING: can't change /home/pbulk/build/biology/canu/work/.gcc/bin/g++

Just good that serious pkgsrc builds are run as an unprivileged user,
with no chance of bricking the whole operating system.
   2020-05-06 16:05:09 by Adam Ciarcinski | Files touched by this commit (591) | Package updated
Log message:
revbump after boost update
   2020-01-12 21:20:50 by Ryo ONODERA | Files touched by this commit (574) 
Log message:
*: Recursive revbump from devel/boost-libs
   2019-08-22 14:23:56 by Ryo ONODERA | Files touched by this commit (678) 
Log message:
Recursive revbump from boost-1.71.0
   2019-08-11 15:25:21 by Thomas Klausner | Files touched by this commit (3557) | Package updated
Log message:
Bump PKGREVISIONs for perl 5.30.0