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Port details
seqan C++ Sequence Analysis Library
1.3.1_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
Maintainer: h2+fbsdports@fsfe.org search for ports maintained by this maintainer
Port Added: 06 Jun 2012 17:52:27
License: BSD3CLAUSE GPLv3
SeqAn is an open source C++ library of efficient algorithms
and data structures for the analysis of sequences with the
focus on biological data. The library is licensed under the
3-clause BSD license except the applications which are GPL.

WWW: http://www.seqan.de/
SVNWeb : Homepage : Distfiles Availability : PortsMon

NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.

Build dependencies:
  1. cmake : devel/cmake
  2. python2.7 : lang/python27
  3. gcc48 : lang/gcc
  4. as : devel/binutils
Runtime dependencies:
  1. gcc48 : lang/gcc
There are no ports dependent upon this port

To install the port: cd /usr/ports/biology/seqan/ && make install clean
To add the package: pkg install biology/seqan


Configuration Options
     No options to configure

USES:
cmake:outsource python:build zip

Master Sites:
  1. http://distcache.FreeBSD.org/ports-distfiles/
  2. http://ftp.seqan.de/releases/

Number of commits found: 15

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
21 Mar 2015 11:53:28
Original commit files touched by this commit  1.3.1_3
Revision:381791
marino search for other commits by this committer
biology/segan: Limit GCC to 4.8 while waiting for update

Due to questionable c++, GCC 4.9 and newer cannot build seqan.  An update
has been in the works that will enable clang compilers and all versions
of GCC to build seqan, but it is not quite ready yet.  While waiting for
it, limit the version of GCC used to 4.8.

PR:	196851
20 Oct 2014 07:10:48
Original commit files touched by this commit  1.3.1_3
Revision:371237
bapt search for other commits by this committer
Cleanup plist
19 Oct 2014 07:38:12
Original commit files touched by this commit  1.3.1_3
Revision:371171
mva search for other commits by this committer
- Convert ports from benchmarks/ and biology/ to new USES=python

Approved by:	portmgr (implicit)
10 Sep 2014 20:50:37
Original commit files touched by this commit  1.3.1_3
Revision:367888
gerald search for other commits by this committer
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)
10 Jul 2014 22:29:52
Original commit files touched by this commit  1.3.1_2
Revision:361497
adamw search for other commits by this committer
Use gcc on all platforms.

PR:		191692
Submitted by:	maintainer
01 Jun 2014 11:42:17
Original commit files touched by this commit  1.3.1_2
Revision:356100
ohauer search for other commits by this committer
- add stage support
- adjust BSDn license
10 Mar 2014 20:55:22
Original commit files touched by this commit  1.3.1_2
Revision:347809
gerald search for other commits by this committer
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)
07 Mar 2014 15:52:40
Original commit files touched by this commit  1.3.1_1
Revision:347402
bapt search for other commits by this committer
Convert b* to USES=zip
26 Oct 2013 00:52:36
Original commit files touched by this commit  1.3.1_1
Revision:331644
gerald search for other commits by this committer
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)
20 Sep 2013 15:55:44
Original commit files touched by this commit  1.3.1
Revision:327709
bapt search for other commits by this committer
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology)
17 Aug 2013 16:27:24
Original commit files touched by this commit  1.3.1
Revision:324851
gerald search for other commits by this committer
Replace USE_GCC=4.6+ and USE_GCC=4.4+ by USE_GCC=yes.

Right now this is a noop in the former case and a noop in the latter
case unless lang/gcc44 has been installed explicitly.

This puts a bit more emphasis on standardizing on a canonical version
"current" GCC and makes it easier to update that canonical version
by changing the default in Mk/bsd.gcc.mk and updating the lang/gcc port.

That is, USE_GCC=yes means "use a decent/modern version of GCC" without
having to worry about details.

Approved by:	portmgr (bdrewery)
22 Mar 2013 20:06:15
Original commit files touched by this commit  1.3.1
Revision:314960
makc search for other commits by this committer
- convert USE_CMAKE to USES
- while here clean up some ports from CMAKE_VERBOSE, which is intended
  for users

Approved by:	portmgr (miwi)
21 Jul 2012 22:20:33
Original commit files touched by this commit  1.3.1
gerald search for other commits by this committer
Replace USE_GCC=4.4+ by USE_GCC=4.6+ since GCC 4.4 is on its way out.

Approved by:	maintainer
07 Jun 2012 13:04:53
Original commit files touched by this commit  1.3.1
amdmi3 search for other commits by this committer
- Fix maintainer email

Submitted by:   maintainer via private email
06 Jun 2012 17:51:33
Original commit files touched by this commit  1.3.1
amdmi3 search for other commits by this committer
SeqAn is an open source C++ library of efficient algorithms
and data structures for the analysis of sequences with the
focus on biological data. The library is licensed under the
3-clause BSD license except the applications which are GPL.

WWW: http://www.seqan.de/

PR:             167571
Submitted by:   Hannes <h2+fbsdports@fsfe.org>

Number of commits found: 15

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