notbugAs an Amazon Associate I earn from qualifying purchases.
Want a good read? Try FreeBSD Mastery: Jails (IT Mastery Book 15)

Hardware failure

The website is running on the old server. The new server stopped working at about 0200 UTC on 2020-08-22. The database was restored from 2020-08-21 00:59:15+00 UTC. We think we have covered all commits. Nothing should be missing. Any changes you made to your accounts after the restore date will be lost. Sorry about that.
non port: biology/samtools/distinfo
SVNWeb

Number of commits found XX: 8

Mon, 3 Aug 2020
[ 18:22 jwb ] Original commit   Revision:544098
544098 biology/samtools/Makefile
544098 biology/samtools/distinfo
544098 biology/samtools/files/patch-Makefile
544098 biology/samtools/files/patch-test_test.pl
544098 biology/samtools/pkg-plist
biology/samtools: Upgrade to 1.10

Numerous bug fixes and enhancements:
https://github.com/samtools/samtools/releases/tag/1.10

Take maintainership per ports/248089

PR:             ports/248089
Thu, 2 Aug 2018
[ 19:28 fernape ] Original commit   Revision:476246
476246 biology/samtools/Makefile
476246 biology/samtools/distinfo
biology/samtools: update to 1.9

PR:	230171
Submitted by:	ndowens.fbsd@yandex.com
Approved by:	tcberner (mentor)
Differential Revision:	https://reviews.freebsd.org/D16569
Wed, 25 Oct 2017
[ 10:19 pizzamig ] Original commit   Revision:452840
452840 biology/bcftools/Makefile
452840 biology/bcftools/distinfo
452840 biology/bcftools/files/patch-Makefile
452840 biology/bcftools/files/patch-configure.ac
452840 biology/bcftools/files/patch-misc_run-roh.pl
452840 biology/bcftools/files/patch-prob1.c
452840 biology/bcftools/files/patch-test_test.pl
452840 biology/bcftools/files/pkg-message.in
452840 biology/bcftools/pkg-plist
452840 biology/htslib/Makefile

(Only the first 10 of 25 ports in this commit are shown above. View all ports for this commit)
biology/htslib biology/bcftools biology/samtools: Update to 1.6

PR:		223094
Submitted by:	mzaki@niid.go.jp
Approved by:	cartwright@asu.edu (maintainer)
Approved by:	olivier (mentor)
Differential Revision:	https://reviews.freebsd.org/D12768
Thu, 26 May 2016
[ 20:28 pi ] Original commit   Revision:415914
415914 biology/bcftools/Makefile
415914 biology/bcftools/distinfo
415914 biology/bcftools/pkg-plist
415914 biology/htslib/Makefile
415914 biology/htslib/distinfo
415914 biology/samtools/Makefile
415914 biology/samtools/distinfo
415914 biology/samtools/files/patch-Makefile
biology/{htslib|samtools|bcftools}: 1.3 -> 1.3.1

Changes:
  https://sourceforge.net/p/samtools/mailman/message/35033807/

PR:		209653
Submitted by:	cartwright@asu.edu (maintainer)
Fri, 25 Dec 2015
[ 01:31 junovitch ] Original commit   Revision:404398
404398 biology/bcftools/Makefile
404398 biology/bcftools/distinfo
404398 biology/bcftools/files/patch-Makefile
404398 biology/bcftools/files/patch-plugins_fixploidy.mk
404398 biology/bcftools/files/patch-plugins_vcf2sex.mk
404398 biology/bcftools/files/patch-prob1.c
404398 biology/bcftools/files/patch-test_test.pl
404398 biology/bcftools/files/pkg-message.in
404398 biology/bcftools/pkg-plist
404398 biology/htslib/Makefile

(Only the first 10 of 27 ports in this commit are shown above. View all ports for this commit)
biology/{bcftools,htslib,samtools}: update 1.2.x -> 1.3

- Update ports to 1.3 and set BUILD_DEPENDS of dependent ports to require
  version 1.3 of htslib.
- Add CURL option to htslib
- Add TEST_TARGET with perl and bash dependencies for testing
- Tidy up spacing and pkg-message's

PR:		205524
PR:		205525
PR:		205526
Submitted by:	cartwright@asu.edu (maintainer)
Wed, 6 May 2015
[ 15:16 mat ] Original commit   Revision:385521
385521 benchmarks/flowgrind/Makefile
385521 benchmarks/flowgrind/distinfo
385521 biology/htslib/Makefile
385521 biology/htslib/distinfo
385521 biology/samtools/Makefile
385521 biology/samtools/distinfo
385521 cad/cura-engine/Makefile
385521 cad/cura-engine/distinfo
385521 cad/elmerfem/Makefile
385521 cad/elmerfem/distinfo

(Only the first 10 of 348 ports in this commit are shown above. View all ports for this commit)
Update ports in the [bcd]* categories to not use GH_COMMIT.

With minor cleanups to make things simpler.

With hat:	portmgr
Sponsored by:	Absolight
Fri, 6 Mar 2015
[ 12:53 robak ] Original commit   Revision:380597
380597 biology/samtools/Makefile
380597 biology/samtools/distinfo
biology/samtools: update 1.1 -> 1.2

PR:		198292
Submitted by:	Reed Cartwright <cartwright@asu.edu>
Mon, 15 Dec 2014
[ 21:59 pawel ] Original commit   Revision:374767
374767 biology/Makefile
374767 biology/samtools
374767 biology/samtools/Makefile
374767 biology/samtools/distinfo
374767 biology/samtools/files
374767 biology/samtools/files/patch-Makefile
374767 biology/samtools/files/patch-errmod.c
374767 biology/samtools/files/pkg-message.in
374767 biology/samtools/pkg-descr
374767 biology/samtools/pkg-plist
Samtools implements various utilities for post-processing alignments in the
SAM, BAM, and CRAM formats, including indexing, variant calling (in conjunction
with bcftools), and a simple alignment viewer.

WWW: http://www.htslib.org/

PR:		195592
Submitted by:	Reed A. Cartwright <cartwright@asu.edu>

Number of commits found XX: 8

Login
User Login
Create account

Servers and bandwidth provided by
New York Internet, iXsystems, and RootBSD

This site
What is FreshPorts?
About the authors
Issues
FAQ
How big is it?
The latest upgrade!
Privacy
Blog
Contact

Search
Enter Keywords:
 
more...

Latest Vulnerabilities
chromiumOct 21
mysql56-serverOct 21
mysql57-serverOct 21
mysql80-serverOct 21
mariadb103-clientOct 18
mariadb103-serverOct 18
mariadb104-clientOct 18
mariadb104-serverOct 18
mariadb105-clientOct 18
mariadb105-serverOct 18
drupal7Oct 17
py-matrix-synapseOct 17
powerdns-recursorOct 14
linux-flashplayerOct 13
rubygem-actionpack60Oct 10

10 vulnerabilities affecting 119 ports have been reported in the past 14 days

* - modified, not new

All vulnerabilities

Last updated:
2020-10-21 18:33:27


Ports
Home
Categories
Deleted ports
Sanity Test Failures
Newsfeeds

Statistics
Graphs
NEW Graphs (Javascript)
Traffic

Calculated hourly:
Port count 41171
Broken 56
Deprecated 275
Ignore 293
Forbidden 4
Restricted 146
No CDROM 73
Vulnerable 23
Expired 10
Set to expire 246
Interactive 0
new 24 hours 62
new 48 hours62
new 7 days71
new fortnight113
new month213

Servers and bandwidth provided by
New York Internet, iXsystems, and RootBSD
Valid HTML, CSS, and RSS.
Copyright © 2000-2020 Dan Langille. All rights reserved.