February 16, 2020
- Welcome to the UNC Computational Genetics Wiki!
This Wiki is offered as a community resource for the discussion of all topics related to computational genetics. It is hosted and monitored by the University of North Carolina Computational Genetics Working Group. We invite anyone interested to contribute to this effort.
December 17 2012: Most csbio services are now back. Remember to use your cs login/password to login now. If you are connecting to a network drive from a Windows system, your login name is now <whatever>@cs.unc.edu
I am aware of issues with the following services:
git server signal database gbrowse system datasheets databases ccstatus web systems/database connecting to network drives from Macs running Mac OS 10.6.8 grid engine
December 14-16 2012: There will be a major system down-time for an OS upgrade and account migration, starting at noon on Friday, December 14. Csbio Linux systems (including fpmv-store) will be down for most of the weekend.
There will be 2 major components of this upgrade for Linux systems:
- An OS upgrade to Ubuntu 12.04
- Current test systems include csbio-desktop001, 007, and 008.
- Many software packages will get versions updates as part of this process, including Python and MySQL. You are encouraged to test your code on test systems to verify that the updated software doesn't cause problems with your code.
- Per csbio policy, the local hard drives on all Linux systems will be erased. /csbio* filesystems on the fileservers will not be erased, but most other partitions including /playpen will be erased. Please make sure all critical files are copied elsewhere.
- Account migrations from Onyens to cs logins
- When systems come back up after this migration, you will need to login with your cs login and password.
- Some accounts for people who are no longer affiliated with csbio will be removed.
- Ownership of all files will be updated. In order to reduce the amount of time this takes, please delete files that are no longer needed from the various network partitions (e.g. /csbiodata, /csbiohome)
- The standard login shell for csbio systems has been bash. The standard login shell for cs systems has been tcsh. If you have customized your bash environment (with .bashrc, .bash_login, .bash_profile, etc.), you will either need to port your changes over to their tcsh equivalents or request that your cs login shell be changed to bash. Note that changing your cs login shell to bash will change your login shell on all cs machines, not just csbio systems. (If you have customized your cs login environment, you may need to port your .cshrc, .login, etc. files to their bash equivalents).
For Windows and Mac systems, minor OS patches will be applied. Some systems may be rebooted after 5PM to apply patches. Login procedures for Windows and Mac systems will not change.
July 17, 2009: The wiki and the main website are now using a unified password database. Therefore, you must register with the main website to create new user accounts or modify them. This includes password changes.
- FPMVLab Journal Club - Tuesdays 9:00am-11:00am
- CSBio Lab Meetings - Fridays 10:00-10:30am
- CSBio Journal Club - Fridays 9:30-10:30am
- Compgen Meetings - Thursdays 5:00pm-6:30pm
- Basic Bioinformatics Tools Workshop
- Sanger Data And Tools - Monday's 12:00pm-2:00pm
- Software Packages
- Array Projects
- Collaborative Cross Experiments
- Collaborative Cross Analysis Tools
- Version Control for CCDB
- MouseTrack Database
- Eightway Breeding Database Schema
- Scheme for UNC Collaborative Cross
- CGD Dataset Info
- Ideas for Daniel Pomp's Dataset
- Ancestry Inference HMM
- PreCC Analysis Pipeline
- Mouse Breeding DB Schema
- CSBio Cluster Large Job Log - log of large jobs submitted to Grid Engine or run on csbio cluster hosts
- System Documentation
- CSBio System Policies
- Linux Web servers
- Ubuntu Lucid Lynx (10.04)
- Using git on git.csbio.unc.edu
- Running Windows using VirtualBox
- Using Samba to access csbio disk space from Windows and MacOS
- Using Samba to access fpmv-store from Windows and MacOS (members of fpmvlab group only)
- Using shared /csbiosw application directory
- Tech Manual
- Proposal for Universal Mouse Identifier
- Collaborative Cross Databases
- Infrastructure and Admin Projects
- Python Web Service Tutorial
- Computer Addresses
- Configuration changes on compgen machine
- How to backup your home directory
- Obsolete Technical Documents
- Past tutorials and resources
- How To: Setup Apache Webserver in Ubuntu Linux
- How To: Building Websites With Markup.py
- How To: Use easy_install to install python packages in your home directory
Mouse Data and Info
- CC Strains and Color Assignments
- Accessing Mouse Data
- Mouse Data Descriptions
- Mouselab Information
- Final Positions on Mouse Chromosomes for Build 36 and 37
Current Lab Notebooks
- Andrew's Notebook
- Katy's Notebook
- Fernando's Notebook
- Katy's Notebook
- Leonard's Notebook
- Matt's Notebook
- Mia's Notebook
- Peter's Notebook
- Sebastian's Notebook
- Seth's Notebook
Old Archived Lab Notebooks