BEAR Applications

ncbi-vdb 2.9.6-foss-2019a

There is a newer version of ncbi-vdb

The SRA Toolkit and SDK from NCBI is a collection of tools and libraries for using data in the INSDC Sequence Read Archives.

Accessing ncbi-vdb 2.9.6-foss-2019a

To load the module for ncbi-vdb 2.9.6-foss-2019a please use this command on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs):

module load ncbi-vdb/2.9.6-foss-2019a

BEAR Apps Version

2019a

Architectures

EL8-cascadelake — EL8-haswell — 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 ncbi-vdb website.

Dependencies

This version of ncbi-vdb has a direct dependency on: bzip2/1.0.6-GCCcore-8.2.0 file/5.37-GCCcore-8.2.0 foss/2019a HDF5/1.10.5-gompi-2019a libxml2/2.9.8-GCCcore-8.2.0 NGS/2.9.6-foss-2019a-Java-11

Required By

This version of ncbi-vdb is a direct dependent of: HISAT2/2.1.0-foss-2019a

Other Versions

These versions of ncbi-vdb 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 1st August 2019