BEAR Applications: Pysam 0.18.0-GCC-11.2.0 (for BlueBEAR, BEARCloud VMs, and CaStLeS VMs)

Pysam 0.18.0-GCC-11.2.0

Unsupported: Use of this version of Pysam is not supported. More information on our Applications Support and Retention Policy.

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 0.18.0-GCC-11.2.0

To load the module for Pysam 0.18.0-GCC-11.2.0 please use this command on the BEAR systems (BlueBEAR, BEAR Cloud VMs, and CaStLeS VMs):

module load bear-apps-unsupported/handbuilt/2019 module load Pysam/0.18.0-GCC-11.2.0

BEAR Apps Version

2019h

More Information

For more information visit the Pysam website.

Dependencies

This version of Pysam has a direct dependency on: cURL/7.78.0-GCCcore-11.2.0 GCC/11.2.0 ncurses/6.2-GCCcore-11.2.0 Python/3.9.6-GCCcore-11.2.0 XZ/5.2.5-GCCcore-11.2.0

Required By

This version of Pysam is a direct dependent of: CIRI-long/1.1.0-foss-2021b CMSeq/1.0.4-foss-2021b MetaPhlAn/3.0.14-foss-2021b methylartist/1.2.6-foss-2021b nanopolish/0.14.0-foss-2021b SplAdder/3.0.3-foss-2021b

Other Versions

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

Version	BEAR Apps Version
0.20.0-GCC-11.3.0	2022a
0.19.1-GCC-11.3.0	2022a
0.17.0-GCC-11.2.0	2021b
0.16.0.1-GCC-10.3.0	2021a
0.16.0.1-GCC-9.3.0	2020a
0.15.3-GCC-8.3.0	2019b
0.15.2-fosscuda-2019a	2019a
0.15.2-foss-2019a	2019a
0.15.1-foss-2018b-Python-3.6.6	2018b
0.15.1-foss-2018b-Python-2.7.15	2018b
0.13-foss-2018b-Python-3.6.6	2018b

Last modified on 14th July 2022