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Port details
mmseqs2 Ultra fast and sensitive sequence search and clustering suite
13.45111_2 biology on this many watch lists=0 search for ports that depend on this port Find issues related to this port Report an issue related to this port View this port on Repology. pkg-fallout 13.45111_2Version of this port present on the latest quarterly branch.
Maintainer: jwb@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2021-06-24 17:33:13
Last Update: 2021-09-12 21:05:53
Commit Hash: 031ddba
License: GPLv3
Description:
SVNWeb : git : Homepage
pkg-plist: as obtained via: make generate-plist
Expand this list (5 items)
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  1. bin/mmseqs
  2. /usr/local/share/MMseqs2/bash-completion.sh
  3. /usr/local/share/licenses/MMseqs2-13.45111_2/catalog.mk
  4. /usr/local/share/licenses/MMseqs2-13.45111_2/LICENSE
  5. /usr/local/share/licenses/MMseqs2-13.45111_2/GPLv3
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Dependency lines:
  • MMseqs2>0:biology/mmseqs2
To install the port: cd /usr/ports/biology/mmseqs2/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/mmseqs2
  • pkg install MMseqs2
PKGNAME: MMseqs2
Flavors: there is no flavor information for this port.
NOT_FOR_ARCHS: armv6 armv7 i386 mips powerpc powerpcspe
distinfo:
Packages (timestamps in pop-ups are UTC):
MMseqs2
ABIlatestquarterly
FreeBSD:11:aarch64--
FreeBSD:11:amd6413.45111_213.45111_2
FreeBSD:11:armv6--
FreeBSD:11:i386--
FreeBSD:11:mips--
FreeBSD:11:mips64--
FreeBSD:12:aarch64-13.45111_2
FreeBSD:12:amd6413.45111_213.45111_2
FreeBSD:12:armv6--
FreeBSD:12:armv7--
FreeBSD:12:i386--
FreeBSD:12:mips--
FreeBSD:12:mips64--
FreeBSD:12:powerpc64--
FreeBSD:13:aarch64-13.45111_2
FreeBSD:13:amd6413.45111_213.45111_2
FreeBSD:13:armv6--
FreeBSD:13:armv7--
FreeBSD:13:i386--
FreeBSD:13:mips--
FreeBSD:13:mips64--
FreeBSD:13:powerpc64-13.45111_2
FreeBSD:14:aarch6413.45111_2-
FreeBSD:14:amd6413.45111_2-
FreeBSD:14:armv6--
FreeBSD:14:armv7--
FreeBSD:14:i386--
FreeBSD:14:mips--
FreeBSD:14:mips64--
FreeBSD:14:powerpc64--
 

Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. cmake : devel/cmake
  2. ninja : devel/ninja
  3. perl5>=5.32.r0<5.33 : lang/perl5.32
Library dependencies:
  1. libzstd.so : archivers/zstd
There are no ports dependent upon this port

Configuration Options:
Options name:

USES:

pkg-message:
If installing:
Master Sites:
Expand this list (1 items)
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  1. https://codeload.github.com/soedinglab/MMseqs2/tar.gz/13-45111?dummy=/
Collapse this list.

Number of commits found: 4

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
12 Sep 2021 21:05:53
 files touched by this commit commit hash:031ddba476c1b13c1430eb5192822da37a390fc9  13.45111_2
pkubaj search for other commits by this committer
biology/mmseqs2: disable on 32-bits

32-bits are not supported per https://github.com/soedinglab/MMseqs2/issues/460
29 Jun 2021 14:04:48
 files touched by this commit commit hash:a881e9d0c3ccd79a71282e2e239cfbf2c22107f7  13.45111_2
jwb search for other commits by this committer
biology/mmseqs2: Fix runtime error when built with clang

Disable IPS4O to avoid deadlocks (upstream developer fix)
Removing USE_GCC should fix pkg build errors caused by
26 Jun 2021 16:29:25
 files touched by this commit commit hash:b8bf1cfd41e7503311351d0246b328c7abcea8b1  13.45111_1
jwb search for other commits by this committer
biology/mmseqs2: Enable at least SSE2 by default

Hangs when built with clang and minimal optimizations, so build with
GCC temporarily.  Upstream is investigating.
24 Jun 2021 17:31:42
 files touched by this commit commit hash:cf14bbb325bb8696c275ebbabff3da95a75815eb  13.45111
jwb search for other commits by this committer
biology/mmseqs2: Ultra fast and sensitive sequence search and clustering suite

MMseqs2 (Many-against-Many sequence searching) is a software suite to search
and cluster huge protein and nucleotide sequence sets. MMseqs2 is open source
GPL-licensed software implemented in C++ for FreeBSD, Linux, MacOS, and (via
via cygwin) Windows. The software is designed to run on multiple cores and
servers and exhibits very good scalability. MMseqs2 can run 10000 times
faster than BLAST. At 100 times its speed it achieves almost the same
sensitivity. It can perform profile searches with the same sensitivity as
PSI-BLAST at over 400 times its speed.

Number of commits found: 4