htslib-software
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Table of Contents
htslib
htslib is an implementation of a unified C library for accessing common file formats, such as SAM, CRAM and VCF, used for high-throughput sequencing data, and is the core library used by samtools and bcftools
Information
- Latest Version: 1.9
- Added: March, 2015
- Updated: September, 2019
Usage
See versions of htslib which are available:
$ module avail htslib
Load one version into your environment and run some common commands:
$ module load htslib/1.9 $ tabix $ bgzip
Installation
Notes from the sysadmin during installation:
$ cd /tmp $ wget https://github.com/samtools/htslib/releases/download/1.9/htslib-1.9.tar.bz2 $ tar xf htslib-1.9.tar.bz2 $ cd htslib-1.9 # install a newer compiler from Red Hat software collections $ sudo yum install devtoolset-7-gcc devtoolset-7-gcc-gfortran devtoolset-7-libquadmath-devel devtoolset-7-gcc-c++ $ scl enable devtoolset-7 bash $ ./configure --enable-plugins --enable-libcurl --prefix=/export/apps/htslib/1.9 $ make $ sudo mkdir -p /export/apps/htslib/1.9 $ sudo chown aorth /export/apps/htslib/1.9 $ make install $ sudo chown -R root:root /export/apps/htslib/1.9
htslib-software.1567547234.txt.gz · Last modified: 2019/09/03 21:47 by aorth