samtools0118-pysam26_074-0.7.4-2.el5.x86_64.rpm


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Description

samtools0118-pysam26_074 - Python interface for the SAM/BAM sequence alignment and mapping format

Property Value
Distribution CentOS 5
Repository PUIAS Computational x86_64
Package name samtools0118-pysam26_074
Package version 0.7.4
Package release 2.el5
Package architecture x86_64
Package type rpm
Installed size 2.08 MB
Download size 757.22 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
samtools0118-pysam26_074-0.7.4-2.el5.i386.rpm 0.7.4 i386 PUIAS Computational
samtools0118-pysam26_074 - - -

Requires

Name Value
environment-modules -
libc.so.6()(64bit) -
libc.so.6(GLIBC_2.2.5)(64bit) -
libc.so.6(GLIBC_2.3)(64bit) -
libc.so.6(GLIBC_2.3.4)(64bit) -
libc.so.6(GLIBC_2.4)(64bit) -
libpthread.so.0()(64bit) -
libpthread.so.0(GLIBC_2.2.5)(64bit) -
libpython2.6.so.1.0()(64bit) -
libz.so.1()(64bit) -
rtld(GNU_HASH) -
samtools0118-libs -

Provides

Name Value
TabProxies.so()(64bit) -
csamtools.so()(64bit) -
ctabix.so()(64bit) -
cvcf.so()(64bit) -
samtools0118-pysam26_074 = 0.7.4-2.el5

Download

Type URL
Binary Package samtools0118-pysam26_074-0.7.4-2.el5.x86_64.rpm
Source Package samtools0118-pysam26_074-0.7.4-2.el5.src.rpm

Install Howto

  1. Create the repository config file /etc/yum.repos.d/puias-computational.repo:
    [puias-computational]
    name=PUIAS Computational
    baseurl=http://springdale.math.ias.edu/data/puias/computational/5/x86_64/
    enabled=1
    gpgcheck=0
    
  2. Install samtools0118-pysam26_074 rpm package:
    # yum install samtools0118-pysam26_074

Files

Path
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/Pileup.py
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/Pileup.pyc
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/Pileup.pyo
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/TabProxies.pxd
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/TabProxies.so
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/__init__.py
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/__init__.pyc
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/__init__.pyo
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/csamtools.pxd
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/csamtools.so
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/ctabix.pxd
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/ctabix.so
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/cvcf.pxd
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/cvcf.so
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/namedtuple.py
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/namedtuple.pyc
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/namedtuple.pyo
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/pysam_util.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/version.py
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/version.pyc
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/version.pyo
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam-0.7.4-py2.6.egg-info/PKG-INFO
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam-0.7.4-py2.6.egg-info/SOURCES.txt
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam-0.7.4-py2.6.egg-info/dependency_links.txt
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam-0.7.4-py2.6.egg-info/not-zip-safe
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam-0.7.4-py2.6.egg-info/requires.txt
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam-0.7.4-py2.6.egg-info/top_level.txt
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/__init__.py
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/__init__.pyc
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/__init__.pyo
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/__init__.py
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/__init__.pyc
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/__init__.pyo
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/bam.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/bam2bcf.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/bam_endian.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/bgzf.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/errmod.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/faidx.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/kaln.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/khash.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/klist.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/knetfile.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/kprobaln.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/kseq.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/ksort.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/kstring.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/pysam.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/razf.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/sam.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/sam_header.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/sample.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/bcftools/__init__.py
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/bcftools/__init__.pyc
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/bcftools/__init__.pyo
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/bcftools/bcf.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/bcftools/kmin.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/bcftools/prob1.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/win32/__init__.py
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/win32/__init__.pyc
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/win32/__init__.pyo
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/win32/xcurses.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/win32/zconf.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/samtools/win32/zlib.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/tabix/__init__.py
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/tabix/__init__.pyc
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/tabix/__init__.pyo
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/tabix/bam_endian.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/tabix/bgzf.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/tabix/khash.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/tabix/knetfile.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/tabix/kseq.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/tabix/ksort.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/tabix/kstring.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/tabix/pysam.h
/usr/local/samtools/0.1.18/pysam26/0.7.4/pysam/include/tabix/tabix.h
/usr/local/share/Modules/modulefiles/samtools/0.1.18/pysam26/0.7.4
/usr/share/doc/samtools0118-pysam26_074-0.7.4/COPYING
/usr/share/doc/samtools0118-pysam26_074-0.7.4/INSTALL
/usr/share/doc/samtools0118-pysam26_074-0.7.4/KNOWN_BUGS
/usr/share/doc/samtools0118-pysam26_074-0.7.4/MANIFEST.in
/usr/share/doc/samtools0118-pysam26_074-0.7.4/PKG-INFO
/usr/share/doc/samtools0118-pysam26_074-0.7.4/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
samtools0118bv-0.1.18bv-2.2.el5.x86_64.rpm Tools for nucleotide sequence alignments in the SAM format
samtools0118bv-devel-0.1.18bv-2.2.el5.x86_64.rpm Header files and libraries for compiling against samtools0118bv
samtools0118bv-libs-0.1.18bv-2.2.el5.x86_64.rpm Libraries for applications using samtools0118bv
samtools0118bv-pysam26_06-0.6-2.el5.x86_64.rpm Python interface for the SAM/BAM sequence alignment and mapping format
samtools0119-0.1.19-2.2.el5.x86_64.rpm Tools for nucleotide sequence alignments in the SAM format
samtools0119-devel-0.1.19-2.2.el5.x86_64.rpm Header files and libraries for compiling against samtools0119
samtools0119-libs-0.1.19-2.2.el5.x86_64.rpm Libraries for applications using samtools0119
samtools0119-pysam26_075-0.7.5-2.el5.x86_64.rpm Python interface for the SAM/BAM sequence alignment and mapping format
scipy26-0.8.0-4.sdl5.x86_64.rpm Scipy: Scientific Tools for Python
sge-6.1-5.9.PU_IAS.5.x86_64.rpm Sun Grid Engine
sge-common-6.1-5.9.PU_IAS.5.x86_64.rpm Sun Grid Engine common files
sge-docs-6.1-5.9.PU_IAS.5.x86_64.rpm Sun Grid Engine documentation
sge-gui-6.1-5.9.PU_IAS.5.x86_64.rpm Sun Grid Engine graphical management tools
sge-sshdevel-6.1-5.9.PU_IAS.5.x86_64.rpm Sun Grid Engine development files for building custom ssh
sge-suid-6.1-5.9.PU_IAS.5.x86_64.rpm Sun Grid Engine suid executables
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