Pysam 0.16.0.1-GCC-10.3.0

There is a newer version of Pysam

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.

Accessing Pysam 0.16.0.1-GCC-10.3.0

To load the module for Pysam 0.16.0.1-GCC-10.3.0 please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load Pysam/0.16.0.1-GCC-10.3.0

BEAR Apps Version

2021a

Architectures

EL8-cascadelake — EL8-haswell — EL8-icelake — Ubuntu20.04-haswell

The listed architectures consist of two part: OS-CPU.

  • BlueBEAR: The OS used on BlueBEAR is represented by EL and there are several different processor (CPU) types available on BlueBEAR. More information about the processor types on BlueBEAR is available on the BlueBEAR Job Submission page.
  • BEAR and CaStLeS Cloud VMs: These VMs can have one of two OSes. Those with access to a BEAR Cloud or CaStLeS VM should check that the listed architectures for an application include the OS of VM being used. The VMs, irrespective of OS, will use the haswell CPU type.

More Information

For more information visit the Pysam website.

Dependencies

This version of Pysam has a direct dependency on: cURL/7.76.0-GCCcore-10.3.0 GCC/10.3.0 ncurses/6.2-GCCcore-10.3.0 Python/3.9.5-GCCcore-10.3.0 XZ/5.2.5-GCCcore-10.3.0

Required By

This version of Pysam is a direct dependent of: cgat/0.6.5-foss-2021a CheckM/1.1.3-foss-2021a Megalodon/2.4.2-foss-2021a rmats2sashimiplot/2.0.4-foss-2021a velocyto/0.17.17-foss-2021a

Other Versions

These versions of Pysam are available on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs). These will be retained in accordance with our Applications Support and Retention Policy.

Last modified on 5th January 2022