Institute of Biotechnology
drupal search
Search
Search the web
Search
BioHPC
Cornell Pages
Cornell People
Cornell University
Institute of Biotechnology
BioHPC Cloud
BioHPC Home
Announcements
Software
Hardware
Workshops
Pricing
Biotechnology Institute
Server Usage Stats
NGS Data
User Guide
Quick Start Guide
Credit Accounts
Access
Storage
Backups
Databases
Software
FAQ
Guides
Contact Us
Contact Us
Office Hours
Staff Directory
Staff Access
Login
BioHPC Cloud Login
BioHPC Cloud Password Reset
BioHPC Cloud Request New User
institute of biotechnology
>>
brc
>>
bioinformatics
>>
internal
>>
workshops
Workshops
Linux for Biologists
Feb 4 and 9 2015
NOTE
: This workshop is full - please sign up for the second edition
Feb 16 and 23
.
This workshop is designed to prepare a biologist to work in an interactive Linux environment of our BioHPC Lab workstations. We will then cover basics of Linux operating system, needed to operate the workstations. In particular the topics will include:
Navigating a Linux workstation: directory structure, basic Linux commands for dealing with files and directories
Dealing with text files: text editors
Basics of running applications on Linux
Using multiple CPUs/cores: parallel applications
Basics of shell scripting
The presented material will be illustrated by hands-on exercises hosted on dedicated workstations of the
BioHPC Lab
. The workstations will be accessed using the Secure SHell (
ssh
) protocol. To participate in the exercises, please bring your own laptop with an
ssh client
installed. MACs and Linux laptops come with native ssh clients and no extra installtion is needed. For windows, the recommended ssh client is
PuTTy
- please install it prior to the workshop. To be able to run Linux programs with graphical inerface displaying on your Windows laptop, you should also install
MobaXterm
(this is not essential for the workshop). To transfer files between your laptop and a Linux machine, you will need an
sftp clinet
, such as
FileZilla
on Windows (MAC and Linux laptops come with native sfpt clients and no extra installation is needed). For links to client software mentioned above, instructions, and more information on access to BioHPC machines, please refer to the following document:
http://cbsu.tc.cornell.edu/lab/doc/Remote_access.pdf
, especially points 1 and 2.2-2.4.
Access to BioHPC Lab workstations requires a Lab account. If you do not yet have an account on BioHPC Lab system, we will create one for you. Also, we will assign a machine for you to work on during and after the workshop.
The machine allocations are posted here.
Workshop Outline
Session 1
Feb 4 2015 3:30PM - 5:00PM 655 Rhodes Hall
Session 2
Feb 9 2015 3:30PM - 5:00PM 655 Rhodes Hall
Website credentials:
login
Web Accessibility Help