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Port details
pyteomics Python modules for proteomics data analysis
2.4.0_1 science 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: makc@FreeBSD.org search for ports maintained by this maintainer
Port Added: 28 Mar 2013 13:05:57
Also Listed In: python
License: not specified in port
Pyteomics is a collection of lightweight and handy tools for Python
that help to handle various sorts of proteomics data.  Pyteomics
provides a growing set of modules to facilitate the most common
tasks in proteomics data analysis, such as:

 * calculation of basic physico-chemical properties of polypeptides:
   . mass and isotopic distribution
   . charge and pI
   . chromatographic retention time
 * access to common proteomics data:
   . MS or LC-MS data
   . FASTA databases
   . search engines output
 * easy manipulation of sequences of modified peptides and proteins

WWW: https://pypi.python.org/pypi/pyteomics
SVNWeb : Homepage : Distfiles Availability : PortsMon

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

Build dependencies:
  1. py27-setuptools27>0 : devel/py-setuptools27
  2. python2.7 : lang/python27
Runtime dependencies:
  1. py27-lxml>=0 : devel/py-lxml
  2. py27-matplotlib>=0 : math/py-matplotlib
  3. numeric.py : math/py-numpy
  4. py27-setuptools27>0 : devel/py-setuptools27
  5. python2.7 : lang/python27
There are no ports dependent upon this port

To install the port: cd /usr/ports/science/pyteomics/ && make install clean
To add the package: pkg install science/pyteomics


Configuration Options
     No options to configure

USES:
python python

Master Sites:
  1. http://distcache.FreeBSD.org/ports-distfiles/
  2. http://pypi.crate.io/packages/source/p/pyteomics/
  3. http://pypi.python.jp/pyteomics/
  4. http://pypi.python.org/packages/source/p/pyteomics/

Number of commits found: 12

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
24 Oct 2014 16:50:43
Original commit files touched by this commit  2.4.0_1
Revision:371453
mva search for other commits by this committer
- Convert ports of science/ and security to new USES=python

Approved by:	portmgr (implicit)
10 Sep 2014 20:50:37
Original commit files touched by this commit  2.4.0_1
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)
03 Apr 2014 10:10:18
Original commit files touched by this commit  2.4.0
Revision:349988
makc search for other commits by this committer
science/pyteomics:
- update to 2.4.0
31 Mar 2014 10:55:38
Original commit files touched by this commit  2.3.0
Revision:349724
makc search for other commits by this committer
science/pyteomics:
- update to 2.3.0
10 Mar 2014 20:55:22
Original commit files touched by this commit  2.2.1_1
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)
29 Nov 2013 11:57:18
Original commit files touched by this commit  2.2.1
Revision:335169
makc search for other commits by this committer
Update to 2.2.1
18 Nov 2013 14:57:06
Original commit files touched by this commit  2.2.0
Revision:334204
makc search for other commits by this committer
- Update to 2.2.0
- Use autoplist
26 Oct 2013 00:52:36
Original commit files touched by this commit  2.1.5_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)
23 Oct 2013 13:08:42
Original commit files touched by this commit  2.1.5
Revision:331383
makc search for other commits by this committer
- Support staging
- Use new LIB_DEPENDS syntax
- Use options helpers
- Convert to USES
- Minor changes/fixes
20 Sep 2013 22:48:31
Original commit files touched by this commit  2.1.5
Revision:327767
bapt search for other commits by this committer
Add NO_STAGE all over the place in preparation for the staging support (cat:
science)
11 May 2013 07:42:20
Original commit files touched by this commit  2.1.5
Revision:317856
makc search for other commits by this committer
- Update to 2.1.5 and [1]:
- Allow to build with python3
- Simplify MASTER_SITES
- Don't remove python shared directories

Prompted by:	rm [1]
28 Mar 2013 13:05:42
Original commit files touched by this commit  2.1.3
Revision:315466
makc search for other commits by this committer
Add new port science/pyteomics:

Pyteomics is a collection of lightweight and handy tools for Python
that help to handle various sorts of proteomics data.  Pyteomics
provides a growing set of modules to facilitate the most common
tasks in proteomics data analysis, such as:
 * calculation of basic physico-chemical properties of polypeptides:
   . mass and isotopic distribution
   . charge and pI
   . chromatographic retention time
 * access to common proteomics data:
   . MS or LC-MS data
   . FASTA databases
   . search engines output
 * easy manipulation of sequences of modified peptides and proteins

WWW: https://pypi.python.org/pypi/pyteomics

Number of commits found: 12

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