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Port details
minimap2 Pairwise aligner for genomic and spliced nucleotide sequences
2.24 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 Version of this port present on the latest quarterly branch.
Maintainer: jwb@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2019-04-24 18:04:07
Last Update: 2022-09-07 21:58:51
Commit Hash: fb16dfe
License: MIT
Description:
Homepage    cgit ¦ Codeberg ¦ GitHub ¦ GitLab ¦ SVNWeb
pkg-plist: as obtained via: make generate-plist
Expand this list (16 items)
Collapse this list.
  1. /usr/local/share/licenses/minimap2-2.24/catalog.mk
  2. /usr/local/share/licenses/minimap2-2.24/LICENSE
  3. /usr/local/share/licenses/minimap2-2.24/MIT
  4. bin/minimap2
  5. bin/minimap2-lite
  6. bin/sdust
  7. man/man1/minimap2.1.gz
  8. share/minimap2/test/MT-human.fa
  9. share/minimap2/test/MT-orang.fa
  10. share/minimap2/test/q-inv.fa
  11. share/minimap2/test/q2.fa
  12. share/minimap2/test/t-inv.fa
  13. share/minimap2/test/t2.fa
  14. @owner
  15. @group
  16. @mode
Collapse this list.
Dependency lines:
  • minimap2>0:biology/minimap2
To install the port:
cd /usr/ports/biology/minimap2/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/minimap2
  • pkg install minimap2
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
PKGNAME: minimap2
Flavors: there is no flavor information for this port.
distinfo:

Packages (timestamps in pop-ups are UTC):
minimap2
ABIlatestquarterly
FreeBSD:11:aarch64pkg-falloutpkg-fallout
FreeBSD:11:amd642.222.20
FreeBSD:11:armv6pkg-falloutpkg-fallout
FreeBSD:11:i3862.222.20
FreeBSD:11:mipspkg-falloutpkg-fallout
FreeBSD:11:mips64pkg-falloutpkg-fallout
FreeBSD:12:aarch64pkg-fallout2.24
FreeBSD:12:amd642.242.24
FreeBSD:12:armv6pkg-falloutpkg-fallout
FreeBSD:12:armv7pkg-falloutpkg-fallout
FreeBSD:12:i3862.242.24
FreeBSD:12:mipspkg-falloutpkg-fallout
FreeBSD:12:mips64pkg-falloutpkg-fallout
FreeBSD:12:powerpc64pkg-falloutpkg-fallout
FreeBSD:13:aarch642.242.24
FreeBSD:13:amd642.242.24
FreeBSD:13:armv6pkg-fallout2.24
FreeBSD:13:armv72.242.24
FreeBSD:13:i3862.242.24
FreeBSD:13:mipspkg-falloutpkg-fallout
FreeBSD:13:mips64pkg-falloutpkg-fallout
FreeBSD:13:powerpc64pkg-fallout2.24
FreeBSD:13:riscv64pkg-fallout2.24
FreeBSD:14:aarch642.24pkg-fallout
FreeBSD:14:amd642.24pkg-fallout
FreeBSD:14:armv62.24pkg-fallout
FreeBSD:14:armv72.24pkg-fallout
FreeBSD:14:i3862.24pkg-fallout
FreeBSD:14:mipspkg-falloutpkg-fallout
FreeBSD:14:mips64pkg-falloutpkg-fallout
FreeBSD:14:powerpc642.24pkg-fallout
FreeBSD:14:riscv64pkg-falloutpkg-fallout
 
Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. simde>0 : devel/simde
  2. gmake>=4.3 : devel/gmake
This port is required by:
for Run
  1. biology/biostar-tools

Configuration Options:
Options name:
USES:
FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (1 items)
Collapse this list.
  1. https://codeload.github.com/lh3/minimap2/tar.gz/v2.24?dummy=/
Collapse this list.

Number of commits found: 14

Commit History - (may be incomplete: for full details, see links to repositories near top of page)
CommitCreditsLog message
07 Sep 2022 21:58:51
commit hash:fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash:fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash:fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4commit hash:fb16dfecae4a6efac9f3a78e0b759fb7a3c53de4 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
Remove WWW entries moved into port Makefiles

Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.

This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.

Approved by:		portmgr (tcberner)
2.24
07 Sep 2022 21:10:59
commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52 files touched by this commit
Stefan Eßer (se) search for other commits by this committer
Add WWW entries to port Makefiles

It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.

Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.

There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.
(Only the first 15 lines of the commit message are shown above View all of this commit message)
2.24
31 Dec 2021 14:30:52
commit hash:2b4cfc8ff39b9c6afa6984ca1deb5e0ce612608bcommit hash:2b4cfc8ff39b9c6afa6984ca1deb5e0ce612608bcommit hash:2b4cfc8ff39b9c6afa6984ca1deb5e0ce612608bcommit hash:2b4cfc8ff39b9c6afa6984ca1deb5e0ce612608b files touched by this commit
Jason W. Bacon (jwb) search for other commits by this committer
biology/minimap2: Update to 2.24

Fix chaining algorithm issue resulting in poorly aligned regions

Reported by:    portscout
2.23_1
03 Dec 2021 17:22:37
commit hash:8261e82cd510324b14e5463928e537a342cbddbfcommit hash:8261e82cd510324b14e5463928e537a342cbddbfcommit hash:8261e82cd510324b14e5463928e537a342cbddbfcommit hash:8261e82cd510324b14e5463928e537a342cbddbf files touched by this commit
Jason W. Bacon (jwb) search for other commits by this committer
biology/minimap2: Unbreak on i386 by resotring -msse flags
2.23
30 Nov 2021 16:29:13
commit hash:325754dd3899cb5b179ebc6ef87fbe4f4648c6adcommit hash:325754dd3899cb5b179ebc6ef87fbe4f4648c6adcommit hash:325754dd3899cb5b179ebc6ef87fbe4f4648c6adcommit hash:325754dd3899cb5b179ebc6ef87fbe4f4648c6ad files touched by this commit
Jason W. Bacon (jwb) search for other commits by this committer
biology/minimap2: Update to 2.23

Also switch to SIMDE Makefile to support non-x86 platforms

Changes:        https://github.com/lh3/minimap2/releases/tag/v2.23
Reported by:    portscout
2.22
25 Oct 2021 12:58:29
commit hash:61b661339366b6ee95ca1de0667979da9240c6b8commit hash:61b661339366b6ee95ca1de0667979da9240c6b8commit hash:61b661339366b6ee95ca1de0667979da9240c6b8commit hash:61b661339366b6ee95ca1de0667979da9240c6b8 files touched by this commit
Alexey Dokuchaev (danfe) search for other commits by this committer
Style: improve ONLY_FOR_ARCHS_REASON (grammar, markup, etc.)

ONLY_FOR_ARCHS_REASON is used as part of the sentence and thus should
start with lower-case letter and not end with a period which is added
by the framework, similar to other knobs like BROKEN, IGNORE, et al.

While here, remove needless quoting, add missing Oxford comma, expand
contractions and jargonisms, use correct spelling for proper names.
2.22
22 Aug 2021 17:46:37
commit hash:d09fdd5d58f48741598964eea8e0ca227638d6dccommit hash:d09fdd5d58f48741598964eea8e0ca227638d6dccommit hash:d09fdd5d58f48741598964eea8e0ca227638d6dccommit hash:d09fdd5d58f48741598964eea8e0ca227638d6dc files touched by this commit
Jason W. Bacon (jwb) search for other commits by this committer
biology/minimap2: Add pkg-plist to repo
2.22
22 Aug 2021 14:15:06
commit hash:205fcac2210ba735dde3e037616661ab16cd5e66commit hash:205fcac2210ba735dde3e037616661ab16cd5e66commit hash:205fcac2210ba735dde3e037616661ab16cd5e66commit hash:205fcac2210ba735dde3e037616661ab16cd5e66 files touched by this commit
Jason W. Bacon (jwb) search for other commits by this committer
biology/minimap2: Update to 2.22

Changelog: https://github.com/lh3/minimap2/releases/tag/v2.22

Reported by:    portscout
2.20
29 May 2021 21:06:34
commit hash:da0bb00a74646f1a22eed576fb041c0d04a03a19commit hash:da0bb00a74646f1a22eed576fb041c0d04a03a19commit hash:da0bb00a74646f1a22eed576fb041c0d04a03a19commit hash:da0bb00a74646f1a22eed576fb041c0d04a03a19 files touched by this commit
Jason W. Bacon (jwb) search for other commits by this committer
biology/minimap2: Update to 2.20

Add "extra" binaries to install

Changes:    https://github.com/lh3/minimap2/releases/tag/v2.20
2.18
11 Apr 2021 19:18:02
commit hash:a2fa05009fd280fcf8e93f1062b554fdcca63c9acommit hash:a2fa05009fd280fcf8e93f1062b554fdcca63c9acommit hash:a2fa05009fd280fcf8e93f1062b554fdcca63c9acommit hash:a2fa05009fd280fcf8e93f1062b554fdcca63c9a files touched by this commit
Jason W. Bacon (jwb) search for other commits by this committer
biology/minimap2: Update to 2.18

Numerous bug fixes and a few minor improvements

Reported by:    portscout
2.17
07 Apr 2021 08:09:01
commit hash:cf118ccf875508b9a1c570044c93cfcc82bd455ccommit hash:cf118ccf875508b9a1c570044c93cfcc82bd455ccommit hash:cf118ccf875508b9a1c570044c93cfcc82bd455ccommit hash:cf118ccf875508b9a1c570044c93cfcc82bd455c files touched by this commit
Mathieu Arnold (mat) search for other commits by this committer
One more small cleanup, forgotten yesterday.
Reported by:	lwhsu
2.17
06 Apr 2021 14:31:07
commit hash:305f148f482daf30dcf728039d03d019f88344ebcommit hash:305f148f482daf30dcf728039d03d019f88344ebcommit hash:305f148f482daf30dcf728039d03d019f88344ebcommit hash:305f148f482daf30dcf728039d03d019f88344eb files touched by this commit
Mathieu Arnold (mat) search for other commits by this committer
Remove # $FreeBSD$ from Makefiles.
2.17
05 May 2019 14:56:07
Revision:500860Original commit files touched by this commit
jwb search for other commits by this committer
biology/minimap2: Upgrade to 2.17

Reported by:    portscout
2.16
24 Apr 2019 18:03:49
Revision:499895Original commit files touched by this commit
jwb search for other commits by this committer
biology/minimap2: Pairwise aligner for genomic and spliced nucleotide sequences

Minimap2 is a versatile sequence alignment program that aligns DNA or mRNA
sequences against a large reference database.

Number of commits found: 14