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Port details
ad2vcf Add allelic depth info from a SAM stream to a VCF file
0.1.3 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 0.1.2Version of this port present on the latest quarterly branch.
Maintainer: jwb@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2021-03-23 15:15:07
Last Update: 2021-06-11 15:39:02
Commit Hash: c906bf3
License: BSD2CLAUSE
Description:
SVNWeb : git : Homepage
pkg-plist: as obtained via: make generate-plist
Expand this list (5 items)
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  1. bin/ad2vcf
  2. man/man1/ad2vcf.1.gz
  3. /usr/local/share/licenses/ad2vcf-0.1.3/catalog.mk
  4. /usr/local/share/licenses/ad2vcf-0.1.3/LICENSE
  5. /usr/local/share/licenses/ad2vcf-0.1.3/BSD2CLAUSE
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Dependency lines:
  • ad2vcf>0:biology/ad2vcf
To install the port: cd /usr/ports/biology/ad2vcf/ && make install clean
To add the package, run one of these commands:
  • pkg install biology/ad2vcf
  • pkg install ad2vcf
PKGNAME: ad2vcf
Flavors: there is no flavor information for this port.
distinfo:
Packages (timestamps in pop-ups are UTC):
ad2vcf
ABIlatestquarterly
FreeBSD:11:aarch64--
FreeBSD:11:amd640.1.30.1.2
FreeBSD:11:armv6--
FreeBSD:11:i3860.1.30.1.2
FreeBSD:11:mips--
FreeBSD:11:mips64--
FreeBSD:12:aarch64-0.1.2
FreeBSD:12:amd640.1.30.1.2
FreeBSD:12:armv6--
FreeBSD:12:armv7--
FreeBSD:12:i3860.1.30.1.2
FreeBSD:12:mips--
FreeBSD:12:mips64--
FreeBSD:12:powerpc64-0.1.2
FreeBSD:13:aarch64-0.1.2
FreeBSD:13:amd640.1.30.1.2
FreeBSD:13:armv6-0.1.2
FreeBSD:13:armv7-0.1.2
FreeBSD:13:i3860.1.30.1.2
FreeBSD:13:mips--
FreeBSD:13:mips64--
FreeBSD:13:powerpc64-0.1.2
FreeBSD:14:aarch640.1.3-
FreeBSD:14:amd640.1.3-
FreeBSD:14:armv60.1.2-
FreeBSD:14:armv70.1.2-
FreeBSD:14:i3860.1.3-
FreeBSD:14:mips--
FreeBSD:14:mips640.1.3-
FreeBSD:14:powerpc640.1.2-
 

Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Library dependencies:
  1. libbiolibc.so : biology/biolibc
  2. libxtend.so : devel/libxtend
There are no ports dependent upon this port

Configuration Options:
Options name:
Master Sites:
Expand this list (1 items)
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  1. https://codeload.github.com/auerlab/ad2vcf/tar.gz/0.1.3?dummy=/
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Number of commits found: 5

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
11 Jun 2021 15:39:02
 files touched by this commit commit hash:c906bf342e2faaae31004582f1dc16e15d9b1543  0.1.3
jwb search for other commits by this committer
biology/ad2vcf: Remove comment used to silence portlint
11 Jun 2021 15:05:18
 files touched by this commit commit hash:874cf7c2593df5d25830b1a6292d0474f8647d5d  0.1.3
jwb search for other commits by this committer
biology/ad2vcf: Update to 0.1.3

Updates for new biolibc API

Changes:        https://github.com/auerlab/ad2vcf/releases
07 Apr 2021 08:09:01
 files touched by this commit commit hash:cf118ccf875508b9a1c570044c93cfcc82bd455c  0.1.2
mat search for other commits by this committer
One more small cleanup, forgotten yesterday.
Reported by:	lwhsu
06 Apr 2021 14:31:07
 files touched by this commit commit hash:305f148f482daf30dcf728039d03d019f88344eb  0.1.2
mat search for other commits by this committer
Remove # $FreeBSD$ from Makefiles.
23 Mar 2021 15:15:01
Original commit files touched by this commit Revision:569033  0.1.2
jwb search for other commits by this committer
biology/ad2vcf: Add allelic depth info from a SAM stream to a VCF file

ad2vdf extracts allelic depth info from a SAM stream and adds it to a
corresponding single-sample VCF file.  SAM input is read via stdin and the VCF
input file is taken as a command-line argument. This allows expensive BAM/CRAM
decoding to be performed in parallel by a separate samtools process.

Number of commits found: 5