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Port details on branch 2022Q2
bwa Burrows-Wheeler sequence aligner
0.7.17_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 0.7.17_1Version of this port present on the latest quarterly branch.
Maintainer: jwb@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2015-09-25 18:39:48
Last Update: 2024-01-10 08:16:01
Commit Hash: 1b819e4
License: GPLv3
WWW:
https://sourceforge.net/projects/bio-bwa/
Description:
BWA is a program for aligning sequencing reads against a large reference genome (e.g. human genome). It has two major components, one for read shorter than 150bp and the other for longer reads.
Homepage    cgit ¦ Codeberg ¦ GitHub ¦ GitLab ¦ SVNWeb

Manual pages:
FreshPorts has no man page information for this port.
pkg-plist: as obtained via: make generate-plist
Expand this list (7 items)
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  1. bin/bwa
  2. bin/qualfa2fq.pl
  3. bin/xa2multi.pl
  4. share/man/man1/bwa.1.gz
  5. /usr/local/share/licenses/bwa-0.7.17_2/catalog.mk
  6. /usr/local/share/licenses/bwa-0.7.17_2/LICENSE
  7. /usr/local/share/licenses/bwa-0.7.17_2/GPLv3
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Dependency lines:
  • bwa>0:biology/bwa
To install the port:
cd /usr/ports/biology/bwa/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/bwa
  • pkg install bwa
NOTE: If this package has multiple flavors (see below), then use one of them instead of the name specified above.
PKGNAME: bwa
Flavors: there is no flavor information for this port.
distinfo:
TIMESTAMP = 1598613295 SHA256 (lh3-bwa-v0.7.17_GH0.tar.gz) = 980b9591b61c60042c4a39b9e31ccaad8d17ff179d44d347997825da3fdf47fd SIZE (lh3-bwa-v0.7.17_GH0.tar.gz) = 232593

Expand this list (2 items)

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SHA256 (2a1ae7b6f34a96ea25be007ac9d91e57e9d32284.patch) = 15216a79759a2390bda4a4684af34ff3108f63519d2ec3935754507f3c008da0 SIZE (2a1ae7b6f34a96ea25be007ac9d91e57e9d32284.patch) = 709

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Packages (timestamps in pop-ups are UTC):
bwa
ABIaarch64amd64armv6armv7i386powerpcpowerpc64powerpc64le
FreeBSD:13:latest0.7.17_20.7.17_2-0.7.17_20.7.17_2---
FreeBSD:13:quarterly0.7.17_10.7.17_10.7.17_10.7.17_10.7.17_10.7.17_10.7.17_10.7.17_1
FreeBSD:14:latest0.7.17_20.7.17_20.7.17_10.7.17_20.7.17_20.7.17_1-0.7.17_1
FreeBSD:14:quarterly0.7.17_10.7.17_1-0.7.17_10.7.17_10.7.17_10.7.17_10.7.17_1
FreeBSD:15:latest0.7.17_20.7.17_2n/a0.7.17_2n/a0.7.17_20.7.17_20.7.17_2
FreeBSD:15:quarterly--n/a-n/a---
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
Runtime dependencies:
  1. perl5>=5.36<5.37 : lang/perl5.36
This port is required by:
for Run
  1. biology/atac-seq
  2. biology/biostar-tools
  3. biology/chip-seq
  4. biology/ddocent

Configuration Options:
No options to configure
Options name:
biology_bwa
USES:
gmake localbase perl5 shebangfix tar:bzip2
FreshPorts was unable to extract/find any pkg message
Master Sites:
Expand this list (1 items)
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  1. https://codeload.github.com/lh3/bwa/tar.gz/v0.7.17?dummy=/
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There are no commits on branch 2022Q2 for this port