samtools0119-pysam27_075-0.7.5-2.1.sdl6.i686.rpm


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Description

samtools0119-pysam27_075 - Python interface for the SAM/BAM sequence alignment and mapping format

Property Value
Distribution CentOS 6
Repository PUIAS Computational i386
Package name samtools0119-pysam27_075
Package version 0.7.5
Package release 2.1.sdl6
Package architecture i686
Package type rpm
Installed size 2.01 MB
Download size 640.00 KB
Official Mirror springdale.math.ias.edu
Pysam is a python module for reading and manipulating Samfiles. It's a
lightweight wrapper of the samtools C-API. Pysam also includes an interface
for tabix.

Alternatives

Package Version Architecture Repository
samtools0119-pysam27_075-0.7.5-2.1.sdl6.x86_64.rpm 0.7.5 x86_64 PUIAS Computational
samtools0119-pysam27_075 - - -

Requires

Name Value
environment-modules -
libc.so.6(GLIBC_2.7) -
libpthread.so.0 -
libpthread.so.0(GLIBC_2.0) -
libpthread.so.0(GLIBC_2.1) -
libpthread.so.0(GLIBC_2.2) -
libpthread.so.0(GLIBC_2.3.2) -
libpython2.7.so.1.0 -
libz.so.1 -
libz.so.1(ZLIB_1.2.2) -
rtld(GNU_HASH) -
samtools0119-libs -

Provides

Name Value
TabProxies.so -
csamtools.so -
ctabix.so -
cvcf.so -
samtools0119-pysam27_075 = 0.7.5-2.1.sdl6
samtools0119-pysam27_075(x86-32) = 0.7.5-2.1.sdl6

Download

Type URL
Binary Package samtools0119-pysam27_075-0.7.5-2.1.sdl6.i686.rpm
Source Package samtools0119-pysam27_075-0.7.5-2.1.sdl6.src.rpm

Install Howto

  1. Download the latest puias-computational rpm from
    http://springdale.math.ias.edu/data/puias/computational/6/i386/
  2. Install puias-computational rpm:
    # rpm -Uvh puias-computational*rpm
  3. Install samtools0119-pysam27_075 rpm package:
    # yum install samtools0119-pysam27_075

Files

Path
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/Pileup.py
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/Pileup.pyc
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/Pileup.pyo
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/TabProxies.pxd
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/TabProxies.so
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/__init__.py
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/__init__.pyc
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/__init__.pyo
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/csamtools.pxd
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/csamtools.so
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/ctabix.pxd
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/ctabix.so
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/cvcf.pxd
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/cvcf.so
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/namedtuple.py
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/namedtuple.pyc
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/namedtuple.pyo
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/pysam_util.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/tabix_util.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/version.py
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/version.pyc
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/version.pyo
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam-0.7.5-py2.7.egg-info/PKG-INFO
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam-0.7.5-py2.7.egg-info/SOURCES.txt
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam-0.7.5-py2.7.egg-info/dependency_links.txt
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam-0.7.5-py2.7.egg-info/not-zip-safe
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam-0.7.5-py2.7.egg-info/requires.txt
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam-0.7.5-py2.7.egg-info/top_level.txt
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/__init__.py
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/__init__.pyc
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/__init__.pyo
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/__init__.py
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/__init__.pyc
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/__init__.pyo
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/bam.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/bam2bcf.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/bam_endian.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/bam_tview.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/bgzf.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/errmod.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/faidx.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/kaln.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/khash.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/klist.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/knetfile.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/kprobaln.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/kseq.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/ksort.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/kstring.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/pysam.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/razf.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/sam.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/sam_header.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/sample.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/bcftools/__init__.py
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/bcftools/__init__.pyc
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/bcftools/__init__.pyo
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/bcftools/bcf.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/bcftools/kmin.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/bcftools/prob1.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/win32/__init__.py
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/win32/__init__.pyc
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/win32/__init__.pyo
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/win32/xcurses.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/win32/zconf.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/samtools/win32/zlib.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/tabix/__init__.py
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/tabix/__init__.pyc
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/tabix/__init__.pyo
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/tabix/bam_endian.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/tabix/bgzf.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/tabix/khash.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/tabix/knetfile.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/tabix/kseq.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/tabix/ksort.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/tabix/kstring.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/tabix/pysam.h
/usr/local/samtools/0.1.19/pysam27/0.7.5/pysam/include/tabix/tabix.h
/usr/local/share/Modules/modulefiles/samtools/0.1.19/pysam27/0.7.5
/usr/share/doc/samtools0119-pysam27_075-0.7.5/COPYING
/usr/share/doc/samtools0119-pysam27_075-0.7.5/INSTALL
/usr/share/doc/samtools0119-pysam27_075-0.7.5/KNOWN_BUGS
/usr/share/doc/samtools0119-pysam27_075-0.7.5/MANIFEST.in
/usr/share/doc/samtools0119-pysam27_075-0.7.5/PKG-INFO
/usr/share/doc/samtools0119-pysam27_075-0.7.5/THANKS

Changelog

2013-07-11 - Josko Plazonic <plazonic@math.princeton.edu> 0.1.2-1
- account for bwa 0.5.9 differences
2013-05-31 - Josko Plazonic <plazonic@math.princeton.edu> 0.1.2-1
- initial build

See Also

Package Description
scalapack-common-1.7.5-18.sdl6.i686.rpm Common files for scalapack
scalapack-mpich-1.7.5-18.sdl6.i686.rpm ScaLAPACK libraries compiled against mpich
scalapack-mpich-devel-1.7.5-18.sdl6.i686.rpm Development libraries for ScaLAPACK (mpich)
scalapack-mpich-static-1.7.5-18.sdl6.i686.rpm Static libraries for ScaLAPACK (mpich)
scalapack-mpich2-1.7.5-10.puias6.i686.rpm ScaLAPACK libraries compiled against mpich2
scalapack-mpich2-devel-1.7.5-10.puias6.i686.rpm Development libraries for ScaLAPACK (mpich2)
scalapack-mpich2-static-1.7.5-10.puias6.i686.rpm Static libraries for ScaLAPACK (mpich2)
scalapack-openmpi-1.7.5-18.sdl6.i686.rpm ScaLAPACK libraries compiled against openmpi
scalapack-openmpi-devel-1.7.5-18.sdl6.i686.rpm Development libraries for ScaLAPACK (openmpi)
scalapack-openmpi-static-1.7.5-18.sdl6.i686.rpm Static libraries for ScaLAPACK (openmpi)
scipy-0.10.1-2.puias6.i686.rpm Scipy: Scientific Tools for Python
scipy27-0.14.1-1.sdl6.i686.rpm Scientific Tools for Python
scons23-2.3.3-1.sdl6.noarch.rpm An Open Source software construction tool
scons27-2.5.0-1.sdl6.noarch.rpm An Open Source software construction tool
scotch604-doc-6.0.4-13.sdl6.noarch.rpm Documentations and example for scotch and ptscotch
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