svn commit: r315466 - in head/science: . pyteomics

[Max Brazhnikov]

Author: makc
Date: Thu Mar 28 13:05:42 2013
New Revision: 315466
URL: http://svnweb.freebsd.org/changeset/ports/315466

Log:
  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

Added:
  head/science/pyteomics/
  head/science/pyteomics/Makefile   (contents, props changed)
  head/science/pyteomics/distinfo   (contents, props changed)
  head/science/pyteomics/pkg-descr   (contents, props changed)
  head/science/pyteomics/pkg-plist   (contents, props changed)
Modified:
  head/science/Makefile

Modified: head/science/Makefile
==============================================================================
--- head/science/Makefile	Thu Mar 28 13:03:40 2013	(r315465)
+++ head/science/Makefile	Thu Mar 28 13:05:42 2013	(r315466)
@@ -177,6 +177,7 @@
     SUBDIR += pybrain
     SUBDIR += pycdf
     SUBDIR += pynn
+    SUBDIR += pyteomics
     SUBDIR += qcl
     SUBDIR += qtresistors
     SUBDIR += ruby-dcl

Added: head/science/pyteomics/Makefile
==============================================================================
--- /dev/null	00:00:00 1970	(empty, because file is newly added)
+++ head/science/pyteomics/Makefile	Thu Mar 28 13:05:42 2013	(r315466)
@@ -0,0 +1,19 @@
+# $FreeBSD$
+
+PORTNAME=	pyteomics
+PORTVERSION=	2.1.3
+CATEGORIES=	science python
+MASTER_SITES=	CHEESESHOP/source/p/${PORTNAME}/
+PKGNAMEPREFIX=	${PYTHON_PKGNAMEPREFIX}
+
+MAINTAINER=	makc at FreeBSD.org
+COMMENT=	Python modules for proteomics data analysis
+
+RUN_DEPENDS=	${PYTHON_PKGNAMEPREFIX}lxml>=0:${PORTSDIR}/devel/py-lxml \
+		${PYTHON_PKGNAMEPREFIX}matplotlib>=0:${PORTSDIR}/math/py-matplotlib \
+		${PYNUMPY}
+
+USE_PYTHON=	2.6+
+USE_PYDISTUTILS=	yes
+
+.include <bsd.port.mk>

Added: head/science/pyteomics/distinfo
==============================================================================
--- /dev/null	00:00:00 1970	(empty, because file is newly added)
+++ head/science/pyteomics/distinfo	Thu Mar 28 13:05:42 2013	(r315466)
@@ -0,0 +1,2 @@
+SHA256 (pyteomics-2.1.3.tar.gz) = 1986f5e7e090b7c8872293166219a50f60f475bd2802ad98c399160241f1fd52
+SIZE (pyteomics-2.1.3.tar.gz) = 69609

Added: head/science/pyteomics/pkg-descr
==============================================================================
--- /dev/null	00:00:00 1970	(empty, because file is newly added)
+++ head/science/pyteomics/pkg-descr	Thu Mar 28 13:05:42 2013	(r315466)
@@ -0,0 +1,16 @@
+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

Added: head/science/pyteomics/pkg-plist
==============================================================================
--- /dev/null	00:00:00 1970	(empty, because file is newly added)
+++ head/science/pyteomics/pkg-plist	Thu Mar 28 13:05:42 2013	(r315466)
@@ -0,0 +1,39 @@
+%%PYTHON_SITELIBDIR%%/pyteomics/__init__.py
+%%PYTHON_SITELIBDIR%%/pyteomics/__init__.pyc
+%%PYTHON_SITELIBDIR%%/pyteomics/__init__.pyo
+%%PYTHON_SITELIBDIR%%/pyteomics/achrom.py
+%%PYTHON_SITELIBDIR%%/pyteomics/achrom.pyc
+%%PYTHON_SITELIBDIR%%/pyteomics/achrom.pyo
+%%PYTHON_SITELIBDIR%%/pyteomics/auxiliary.py
+%%PYTHON_SITELIBDIR%%/pyteomics/auxiliary.pyc
+%%PYTHON_SITELIBDIR%%/pyteomics/auxiliary.pyo
+%%PYTHON_SITELIBDIR%%/pyteomics/electrochem.py
+%%PYTHON_SITELIBDIR%%/pyteomics/electrochem.pyc
+%%PYTHON_SITELIBDIR%%/pyteomics/electrochem.pyo
+%%PYTHON_SITELIBDIR%%/pyteomics/fasta.py
+%%PYTHON_SITELIBDIR%%/pyteomics/fasta.pyc
+%%PYTHON_SITELIBDIR%%/pyteomics/fasta.pyo
+%%PYTHON_SITELIBDIR%%/pyteomics/mass.py
+%%PYTHON_SITELIBDIR%%/pyteomics/mass.pyc
+%%PYTHON_SITELIBDIR%%/pyteomics/mass.pyo
+%%PYTHON_SITELIBDIR%%/pyteomics/mgf.py
+%%PYTHON_SITELIBDIR%%/pyteomics/mgf.pyc
+%%PYTHON_SITELIBDIR%%/pyteomics/mgf.pyo
+%%PYTHON_SITELIBDIR%%/pyteomics/mzid.py
+%%PYTHON_SITELIBDIR%%/pyteomics/mzid.pyc
+%%PYTHON_SITELIBDIR%%/pyteomics/mzid.pyo
+%%PYTHON_SITELIBDIR%%/pyteomics/mzml.py
+%%PYTHON_SITELIBDIR%%/pyteomics/mzml.pyc
+%%PYTHON_SITELIBDIR%%/pyteomics/mzml.pyo
+%%PYTHON_SITELIBDIR%%/pyteomics/parser.py
+%%PYTHON_SITELIBDIR%%/pyteomics/parser.pyc
+%%PYTHON_SITELIBDIR%%/pyteomics/parser.pyo
+%%PYTHON_SITELIBDIR%%/pyteomics/pepxml.py
+%%PYTHON_SITELIBDIR%%/pyteomics/pepxml.pyc
+%%PYTHON_SITELIBDIR%%/pyteomics/pepxml.pyo
+%%PYTHON_SITELIBDIR%%/pyteomics/pylab_aux.py
+%%PYTHON_SITELIBDIR%%/pyteomics/pylab_aux.pyc
+%%PYTHON_SITELIBDIR%%/pyteomics/pylab_aux.pyo
+ at dirrmtry %%PYTHON_SITELIBDIR%%/pyteomics
+ at dirrmtry %%PYTHON_SITELIBDIR%%
+ at dirrmtry %%PYTHON_LIBDIR%%