BamTools: Command line toolkit for dealing with BAM files

Contents

1. Overview of package
   1. General usage
2. Availability of package by cluster

Overview of package

General information about package

Package:	BamTools
Description:	Command line toolkit for dealing with BAM files
For more information:	https://github.com/pezmaster31/bamtools
Categories:	Genomics DataFormat
License:	OpenSource (MIT)

General usage information

BamTools is a toolkit of command-line utilities for reading, writing, or otherwise manipulating BAM (genome alignment) files.

In case you need to link against this library in your code, the following environmental variables have been defined:

• \$BAMTOOLS_ROOT has been set to the root of the bamtools installation
• \$BAMTOOLS_LIBDIR points to the directory containing the libraries
• \$BAMTOOLS_INCDIR points to the directory containing the header files

You will probably wish to use these by adding the following flags to your compilation command (e.g. to CFLAGS in your Makefile):

• -I\$BAMTOOLS_INCDIR

and the following flags to your link command (e.g. LDFLAGS in your Makefile):

• -L\$BAMTOOLS_LIBDIR -Wl,-rpath,\$BAMTOOLS_LIBDIR

Available versions of the package BamTools, by cluster

This section lists the available versions of the package BamToolson the different clusters.

Available versions of BamTools on the Zaratab cluster

Available versions of BamTools on the Zaratab cluster

Version	Module tags	CPU(s) optimized for	GPU ready?
2.5.2	bamtools/2.5.2	icelake, x86_64, zen2	Y
2.5.1	bamtools/2.5.1	zen, zen2	Y

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