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  2. Upgrading destiny - CUC3

    https://wikis.ch.cam.ac.uk/cuc3/wiki/index.php/Upgrading_destiny
    6 Jan 2021: Upgrading destiny. From CUC3. Destiny is to be upgraded to SuSE and at the same time have a new disk installed to give a bigger /scratch and /usr/local.
  3. Preparing an AMBER topology file for a protein plus ligand system -…

    https://wikis.ch.cam.ac.uk/cuc3/wiki/index.php/Preparing_an_AMBER_topology_file_for_a_protein_plus_ligand_system
    6 Jan 2021: to save the ligand you are editing as a new PDB using File>Save and changing the type to. ... R<CILE 385> Created a new atom named: O2 within residue:. R<CILE 385> Added missing heavy atom:.
  4. Other IT stuff - CUC3

    https://wikis.ch.cam.ac.uk/cuc3/wiki/index.php/Other_IT_stuff
    6 Jan 2021: Other IT stuff. From CUC3. Made this page so I can provide links to older IT pages and not clutter up the 'headlines' on the front page. Retrieved from "". Navigation menu. Personal tools. Namespaces. Variants. Views. More. Search. Navigation.
  5. Relaxing existing transition states with new potential and creating…

    https://wikis.ch.cam.ac.uk/cuc3/wiki/index.php/Relaxing_existing_transition_states_with_new_potential_and_creating_new_database
    6 Jan 2021: 6. next step: creation new binary file points.ts; you will need new pathdata file:. ... Still it is worthy to check where in fact both endpoints are placed in new database.
  6. Perm-prmtop.py - CUC3

    https://wikis.ch.cam.ac.uk/cuc3/wiki/index.php/Perm-prmtop.py
    6 Jan 2021: For the new topology file, the energy is invariant to permutation of the aforementioned atoms or groups :). ... How do I use it? /perm-prmtop.py name-of-topology-file name-of-new-topology-file. Where can I find it?
  7. Visitor policy - CUC3

    https://wikis.ch.cam.ac.uk/cuc3/wiki/index.php/Visitor_policy
    6 Jan 2021: This information is used to set up UCS computer accounts in advance and is needed for any new member of staff.
  8. Maui compilation - CUC3

    https://wikis.ch.cam.ac.uk/cuc3/wiki/index.php/Maui_compilation
    6 Jan 2021: Maui compilation. From CUC3. It's 7/6/06 at time of writing. On new mek-quake torque-2.1 does not work with current Maui because they have chnaged the
  9. Computer Office services - CUC3

    https://wikis.ch.cam.ac.uk/cuc3/wiki/index.php/Computer_Office_services
    6 Jan 2021: Computer Office services. From CUC3. This has moved to the COs' wiki. COs only! And even more recently, this has gone public on (Raven password needed, but if you got here then you already have one). Retrieved from "". Navigation menu. Personal tools
  10. General queueing problems - CUC3

    https://wikis.ch.cam.ac.uk/cuc3/wiki/index.php/General_queueing_problems
    6 Jan 2021: General queueing problems. From CUC3. This page is for general queueing discussion. There are specific pages for discussing mek-quake and tardis. I have moved the paragraph from the page for me-quake as it is more appropriate here. --Catherine 09:55,
  11. GPU processing - CUC3

    https://wikis.ch.cam.ac.uk/cuc3/wiki/index.php/GPU_processing
    6 Jan 2021: I need a new version of the image without those SuSE libs to use on these machines. ... The auto-patching script doesn't do kernels on 10.2 so it will always need a computer officer's intervention to do a new kernel anyway.

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