FreshPorts -- The Place For Ports If you buy from Amazon USA, please support us by using this link.
Follow us
Blog
Twitter

non port: head/biology/pycogent/Makefile
SVNWeb

Number of commits found: 17

Mon, 8 Aug 2016
[ 11:21 wen ] Original commit   Revision:419818
419818 biology/pycogent/Makefile
419818 biology/pycogent/distinfo
- Update to 1.9 [1]
- Moved to github [1]
- Depend on newer sqlalchemy10 [1]
- Update pkg-descr and WWW [1]
- Limit python to -2.7 [2]
- Reset maintainer to python@ for better maintain

PR:		211621
Submitted by:	pi@ [1], koobs@ [2]
Fri, 1 Apr 2016
[ 13:29 mat ] Original commit   Revision:412344
412344 Mk/Uses/gecko.mk
412344 Mk/bsd.fpc.mk
412344 Mk/bsd.gecko.mk
412344 Mk/bsd.port.mk
412344 accessibility/accerciser/Makefile
412344 accessibility/at-spi/Makefile
412344 accessibility/at-spi2-atk/Makefile
412344 accessibility/at-spi2-core/Makefile
412344 accessibility/caribou/Makefile
412344 accessibility/dasher/Makefile

(Only the first 10 of 1009 ports in this commit are shown above. View all ports for this commit)
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.

With hat:	portmgr
Sponsored by:	Absolight
Sun, 19 Oct 2014
[ 07:38 mva ] Original commit   Revision:371171
371171 benchmarks/pybench/Makefile
371171 benchmarks/tsung/Makefile
371171 biology/py-biopython/Makefile
371171 biology/pycogent/Makefile
371171 biology/pyfasta/Makefile
371171 biology/python-nexus/Makefile
371171 biology/seqan/Makefile
371171 biology/velvet/Makefile
- Convert ports from benchmarks/ and biology/ to new USES=python

Approved by:	portmgr (implicit)
Wed, 10 Sep 2014
[ 20:50 gerald ] Original commit   Revision:367888
367888 accessibility/accerciser/Makefile
367888 accessibility/jovie/Makefile
367888 accessibility/kaccessible/Makefile
367888 accessibility/kdeaccessibility4/Makefile
367888 accessibility/kmag/Makefile
367888 accessibility/kmousetool/Makefile
367888 accessibility/kmouth/Makefile
367888 accessibility/orca/Makefile
367888 arabic/kde4-l10n/Makefile
367888 arabic/libreoffice/Makefile

(Only the first 10 of 3171 ports in this commit are shown above. View all ports for this commit)
Update the default version of GCC in the Ports Collection from GCC 4.7.4
to GCC 4.8.3.

Part II, Bump PORTREVISIONs.

PR:		192025
Tested by:	antoine (-exp runs)
Approved by:	portmgr (implicit)
Fri, 2 May 2014
[ 14:00 wen ] Original commit   Revision:352814
352814 biology/pycogent/Makefile
352814 biology/pycogent/pkg-descr
352814 biology/pycogent/pkg-plist
- Stage support [1]
- Pet portlint [1]
- Add LICENSE
- Convert to PYDISTUTILS_AUTOPLIST

PR:		188819 [1]
Submitted by:	Bartek Rutkowski <ports@robakdesign.com> [1]
Mon, 10 Mar 2014
[ 20:55 gerald ] Original commit   Revision:347809
347809 archivers/hs-tar/Makefile
347809 archivers/hs-zip-archive/Makefile
347809 archivers/hs-zlib-bindings/Makefile
347809 archivers/hs-zlib-conduit/Makefile
347809 archivers/hs-zlib-enum/Makefile
347809 archivers/hs-zlib/Makefile
347809 astro/R-cran-maptools/Makefile
347809 astro/astrometry/Makefile
347809 astro/nightfall/Makefile
347809 astro/py-RO/Makefile

(Only the first 10 of 1081 ports in this commit are shown above. View all ports for this commit)
Update the default version of GCC used in the Ports Collection from
GCC 4.6.4 to GCC 4.7.3.  This entails updating the lang/gcc port as
well as changing the default in Mk/bsd.default-versions.mk.

Part II, Bump PORTREVISIONs.

PR:		182136
Supported by:	Christoph Moench-Tegeder <cmt@burggraben.net> (fixing many ports)
Tested by:	bdrewery (two -exp runs)
Sat, 26 Oct 2013
[ 00:52 gerald ] Original commit   Revision:331644
331644 archivers/hs-tar/Makefile
331644 archivers/hs-zip-archive/Makefile
331644 archivers/hs-zlib-bindings/Makefile
331644 archivers/hs-zlib-conduit/Makefile
331644 archivers/hs-zlib-enum/Makefile
331644 archivers/hs-zlib/Makefile
331644 astro/R-cran-maptools/Makefile
331644 astro/astrometry/Makefile
331644 astro/nightfall/Makefile
331644 astro/py-RO/Makefile

(Only the first 10 of 1147 ports in this commit are shown above. View all ports for this commit)
Update to libmpc version 1.0.1 which brings the following fixes:

 - Switched to automake 1.11.6, see CVE-2012-3386.
 - #14669: Fixed extraction of CC from gmp.h.
 - Fixed case of intermediate zero real or imaginary part in mpc_fma,
   found by hydra with GMP_CHECK_RANDOMIZE=1346362345.

This is on top of the following changes from version 1.0

 - Licence change towards LGPLv3+ for the code and GFDLv1.3+ (with no
   invariant sections) for the documentation.
 - 100% of all lines are covered by tests
 - Renamed functions
   . mpc_mul_2exp to mpc_mul_2ui
   . mpc_div_2exp to mpc_div_2ui
(Only the first 15 lines of the commit message are shown above View all of this commit message)
Fri, 20 Sep 2013
[ 15:55 bapt ] Original commit   Revision:327709
327709 biology/ariadne/Makefile
327709 biology/artemis/Makefile
327709 biology/avida/Makefile
327709 biology/babel/Makefile
327709 biology/biococoa/Makefile
327709 biology/biojava/Makefile
327709 biology/blast/Makefile
327709 biology/blat/Makefile
327709 biology/boinc-simap/Makefile
327709 biology/chemeq/Makefile

(Only the first 10 of 94 ports in this commit are shown above. View all ports for this commit)
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology)
Mon, 8 Oct 2012
[ 03:17 wen ] Original commit   Revision:305516
305516 biology/pycogent/Makefile
305516 biology/pycogent/distinfo
305516 biology/pycogent/pkg-plist
- Update to 1.5.3
- Trim Makefile headers
Sun, 10 Jun 2012
[ 18:42 swills ] Original commit 
1.8 arabic/arabtex/Makefile
1.5 archivers/p5-Archive-SimpleExtractor/Makefile
1.20 archivers/p5-POE-Filter-Zlib/Makefile
1.7 archivers/p5-PerlIO-via-Bzip2/Makefile
1.12 audio/gigedit/Makefile
1.8 audio/p5-Filesys-Virtual-DAAP/Makefile
1.9 audio/p5-Net-DAAP-Client/Makefile
1.6 benchmarks/p5-Benchmark-Stopwatch/Makefile
1.28 biology/p5-AcePerl/Makefile
1.28 biology/p5-Bio-Das/Makefile

(Only the first 10 of 639 ports in this commit are shown above. View all ports for this commit)
- Convert all remaining instances of BUILD_DEPENDS=${RUN_DEPENDS} or
  RUN_DEPENDS=${BUILD_DEPENDS} to use := which portlint has warned
  about for a while.

PR:             ports/168208
Approved by:    portmgr (miwi)
Thu, 11 Aug 2011
[ 11:37 wen ] Original commit 
1.7 biology/pycogent/Makefile
1.5 biology/pycogent/distinfo
1.5 biology/pycogent/pkg-plist
- Update to 1.5.1
Sat, 25 Jun 2011
[ 07:21 nivit ] Original commit 
1.6 biology/pycogent/Makefile
1.12 databases/py-Elixir/Makefile
1.10 games/anki/Makefile.inc
1.11 games/py-anki/Makefile
- Fix *_DEPENDS after the repocopy of databases/py-sqlalchemy
  (This port doesn't yet support SQLAlchemy 0.7.X)
- Bump PORTREVISION
Wed, 10 Nov 2010
[ 08:52 wen ] Original commit 
1.5 biology/pycogent/Makefile
1.4 biology/pycogent/distinfo
1.4 biology/pycogent/pkg-plist
- Update to 1.5.0
Tue, 1 Jun 2010
[ 06:57 wen ] Original commit 
1.4 biology/pycogent/Makefile
1.3 biology/pycogent/distinfo
1.3 biology/pycogent/pkg-plist
- Update to 1.4.1
Thu, 17 Dec 2009
[ 06:51 wen ] Original commit 
1.3 biology/pycogent/Makefile
1.2 biology/pycogent/distinfo
1.2 biology/pycogent/pkg-plist
- Update to 1.4
- Update my mail address to FreeBSD
Sat, 22 Aug 2009
[ 00:15 amdmi3 ] Original commit 
1.22 benchmarks/iperf/Makefile
1.24 benchmarks/lmbench/Makefile
1.14 benchmarks/sysbench/Makefile
1.26 biology/avida/Makefile
1.2 biology/libsbml/Makefile
1.23 biology/mopac/Makefile
1.10 biology/protomol/Makefile
1.2 biology/pycogent/Makefile
1.9 cad/adms/Makefile
1.7 cad/atlc/Makefile

(Only the first 10 of 78 ports in this commit are shown above. View all ports for this commit)
- Switch SourceForge ports to the new File Release System: categories starting
with B,C
Mon, 22 Jun 2009
[ 12:46 miwi ] Original commit 
1.109 biology/Makefile
1.1 biology/pycogent/Makefile
1.1 biology/pycogent/distinfo
1.1 biology/pycogent/pkg-descr
1.1 biology/pycogent/pkg-plist
PyCogent is a software library for genomic biology. It is a fully integrated
and thoroughly tested framework for: controlling third-party applications;
devising workflows; querying databases; conducting novel probabilistic
analyses of biological sequence evolution; and generating publication quality
graphics. It is distinguished by many unique built-in capabilities (such as
true codon alignment) and the frequent addition of entirely new methods for
the analysis of genomic data.

WWW:    http://pycogent.sourceforge.net/

PR:             ports/135863
Submitted by:   Wen Heping <wenheping at gmail.com>

Number of commits found: 17

Login
User Login
Create account

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

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

Search
Enter Keywords:
 
more...

Latest Vulnerabilities
chromiumDec 05
ImageMagickDec 04
ImageMagick-nox11Dec 04
ImageMagick7Dec 04
ImageMagick7Dec 04
ImageMagick7-nox11Dec 04
ImageMagick7-nox11Dec 04
py-cryptographyDec 04
py-pillowDec 04
py3-pillowDec 04
qemuDec 04
qemu-develDec 04
qemu-sbrunoDec 04
xen-kernelDec 04
xen-kernelDec 04

35 vulnerabilities affecting 75 ports have been reported in the past 14 days

* - modified, not new

All vulnerabilities


Ports
Home
Categories
Deleted ports
Sanity Test Failures
Newsfeeds

Statistics
Graphs
NEW Graphs (Javascript)
Traffic

Calculated hourly:
Port count 26935
Broken 313
Deprecated 149
Ignore 578
Forbidden 1
Restricted 214
No CDROM 82
Vulnerable 59
Expired 9
Set to expire 128
Interactive 0
new 24 hours 11
new 48 hours19
new 7 days60
new fortnight114
new month275

Servers and bandwidth provided by
New York Internet, SuperNews, and RootBSD
Valid HTML, CSS, and RSS.
Copyright © 2000-2014 Dan Langille. All rights reserved.