Welcome group members: Difference between revisions

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* [[Cluster 0]] - Legacy UCSF cluster - Therese can set you up.
{| class="wikitable"
* [[Cluster 1]] - Toronto Cluster - Therese can set you up.
|-
* [[Apply for SciNet Account]] - if you need it
! Cluster ID !! Description !! How to get started
* [[Cluster 2]] - new UCSF cluster - not ready yet.
|-
* [https://salilab.org/qb3cluster UCSF Shared Cluster] - if you need it. Teague can help you get set up.
| [[Cluster 0]] ||  Legacy UCSF cluster || Therese
|-
| [[Cluster 1]] || Toronto Cluster || Therese
|-
| [[Apply for SciNet Account]] || ExampleR3C2 || ExampleR3C3
|-
| [[Cluster 2]] ||  new UCSF cluster || not ready yet.
|-
| [https://salilab.org/qb3cluster UCSF Shared Cluster] ||if you need it || Teague
|}


= Access from home =  
= Access from home =  

Revision as of 23:56, 10 March 2014

Welcome to the lab. This page is designed for new group members, our collaborators and anyone else who wishes to access our cluster via ssh.

Guides

Cluster access

Group members have access to several cluster. Each one is separate.

Cluster ID Description How to get started
Cluster 0 Legacy UCSF cluster Therese
Cluster 1 Toronto Cluster Therese
Apply for SciNet Account ExampleR3C2 ExampleR3C3
Cluster 2 new UCSF cluster not ready yet.
UCSF Shared Cluster if you need it Teague

Access from home

Good habits

Set aside a quiet hour once a month to review your disk usage, and compress, delete or move excessive usage. There are disk quotas and we do monitor them. We will make additional space available for needed lab work, but we need your cooperation to keep the signal to noise ratio high.

Synchrotron trips

We can help arrange to store your data in a safe place. Ask before you leave.

Third party software and databases

Some of the third party software that we maintain includes:

  • CSD
  • ppilot
  • openeye
  • cactvs
  • chemaxon
  • molinspiration
  • AMSOL

Updates

Some software must be updated or at least attended to annually due to license expiry. Otherwise, we generally update software on an as-needed basis. If you want something updated, ask us and give us some time. Even better, if you can take the lead, it will get done faster almost for sure.

When you leave the lab

Please discuss with John one month before you leave the lab to agree on which of your files will remain, and where they will live. We can provide you with portable disks so you can take software and data with you, if you like. If you want to take the lab software with you, we can help with that too.

Miscellaneous

Brenda is at /raid5/backonce/joha/DB3/5_BRENDA2SDF/ORG_BRENDA_MOL_FILES_PREP/brenda_031306.ism
mysql is at mysql -u joha -p*secret* -h (brenda-machine-name-ask-jji) brenda
wombat is at ~jerome/sets/wombat/wombat_20062/wombat.20062.sdf.gz