Pitzer

LAMMPS 5Jun19 is available

Date: 
Monday, August 5, 2019 - 3:00pm
System(s): 
Owens
Pitzer

LAMMPS stable version 5Jun19 has been installed with MVAPICH2, OpenMPI, and IntelMPI on Owens and Pitzer.  These are GPU enabled installations.  Usage is via the module lammps/5Jun19.  For installation details, such as, available packages and example batch scripts, use command:  "module help lammps/5Jun19".  For help loading an installation, use command:  "module spider lammps/5Jun19".

Bismark

Bismark is a program to map bisulfite treated sequencing reads to a genome of interest and perform methylation calls in a single step.

Availability and Restrictions

Versions

The following versions of bedtools are available on OSC clusters:

Clustal W

Clustal W is a multiple sequence alignment program written in C++.

Availability and Restrictions

Versions

The following versions of bedtools are available on OSC clusters:

MUSCLE

MUSCLE is a program for creating multiple alignments of protein sequences.

Availability and Restrictions

Versions

The following versions of bedtools are available on OSC clusters:

BWA Software Vulnerability

Due to a recent software vulnerability discovered in bwa versions 0.7.17 and 0.7.13, it is highly recommended that you immediately stop using these versions and instead use bwa/0.7.17-r1198 which contains a patch to mitigate this vulnerability. Details on the vulnerability can be found in the following webpages: https://nvd.nist.gov/vuln/detail/CVE-2019-10269#vulnCurrentDescriptionTitle https://coreymhudson.github.io/bwa_vulnerabilties/ Please contact OSC Help if you have any questions or concerns. Toll Free: (800) 686-6472 Local: (614) 292-1800 Email: oschelp@osc.ed

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