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CBCB Private Wiki

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• CBCB private wiki

In addition to this wiki there is also the CBCB private wiki. It contains information internal to CBCB, such as information about how to use the cluster.

IMPORTANT (Read First)

NEW! Read about the CBCB Software Modules

The CBCB computational infrastructure is a shared resource and we all need to pitch in in order to make sure it works well for all of us. Most importantly, we need to ensure that our disk space and computational resources are used responsibly. The disk space, in particular, is a valuable commodity and thus it is important to pay attention to the following:

• There are two types of disk space available (a full list of volumes is available at CBCB Storage) :
  • Local hard drives (usually mounted as /scratch on the machines that have this resource). These are not backed up, are quite fast (they live physically close to the processor), but can only be 'seen' by the machine where they are mounted and, thus, require data staging in/out (which can take a while)
  • Isilon storage (/fs/cbcb-lab, /fs/cbcb-scratch/*, etc.). This is very fast and very expensive disk and thus a limited resource.
• You should remove any temporary results you don't need in the long term as soon as you've generated them, and compress all of the large files. Bzip2 works better than gzip but either should dramatically improve the space requirements, especially for text files such as fasta or fastq.

For more information on the CBCB resources see Getting Started in CBCB.

Seminars

• Regular CBCB seminars (during academic year)
  
• <a href="https://cbcb.umd.edu/research-in-progress">CBCB:Research In Progress (RIPS) - Research in Progress seminar schedule</a>
  
• Short read sequencing Meeting (Fridays at 3pm)

Projects

• Pop-Lab
• HCBravo Lab
• Cloud Computing
• Summer Internship Projects
• Metagenomics Reading Group (Wed 2pm)

People

• Daniel Ayres
• Adam Bazinet
• Irina Astrovskaya
• Joseph Paulson
• Mihai Pop
• Najib El-Sayed

Getting started

If you have just received a new umiacs account through CBCB, follow the instructions on this page to get the basic information you'll need to start working:

• Getting Started in CBCB
• CBCB Software Modules
• Slurm
• CBCB Storage
• CBCB Computers
• Communal Software