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Changes between Version 34 and Version 35 of WikiStart
- Timestamp:
- Jun 3, 2019, 4:36:21 PM (5 years ago)
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WikiStart
v34 v35 1 == W elcome to the Mykopat Grid Wiki==2 [Old Wiki page]https://my-mgrid.mykopat.slu.se/trac/grid/wiki/oldwiki 1 == What is the Mykopat Computing Grid? == 2 The computing grid has been setup for users to be able to analyse large genetic data sets, and other analysis requiring long computing times on Linux systems. A grid of computers is essentially a number of computers linked together by a common grid management software. The management software manages how job requests should be spread across the computer resources and most importantly makes sure the resources are shared in a fair manner. 3 3 4 == What is the Mykopat Computing Grid? == 5 The computing grid has been setup for users to be able to analyse very large genetic data sets, and other analysis requiring long computing times on Linux systems. A grid of computers is essentially a number of computers linked together by a common grid management software. The management software delegates how the job requests should be handled by the computer resources and most importantly makes sure the resources are shared in a fair manner. 6 7 Currently our grid consists of five computers available around the clock for long running high-resource jobs. These provide 40 cpu cores and 296GB ram. In addition to this we are also adding normal desktop computers as a part of the grid during non-office hours. Currently this adds somewhat more than 33 extra cores for short-running low-memory tasks. 4 Before you can use the system, you need to ask for grid access from Les. 8 5 9 6 == [wiki:Software Available Software] == 7 Here we have a list of installed [wiki:Software]. Please check the list before asking to have software installed. If you miss anything specific. Create an issue here where you specify what you need or drop a mail to the department IT staff (help att mykopat.slu.se). 10 8 11 Here we have a list of installed [wiki:Software]. Please check the list before asking to have software installed. If you miss anything specific. Create an issue here where you specify what you need. 12 13 14 15 == How to log in: There are several ways to access the grid:== 16 9 == How to log in: There are several ways to access the grid: == 17 10 1. From Macs and other unix-like computers you can login using the ssh-command in the terminal. You will then interact with the grid though commands in the terminal. 18 11 1. From Windows computers, you can login using Putty to login to a terminal session. You will then interact with the grid though commands in the terminal. 19 1. There is also an option to start a Remote Desktop on the grid login node.20 12 21 Don't forget to run your jobs through the [GridEngine grid engine], otherwise they might just be stopped by the system when the default resource limits are exceeded. 13 The hostname to connect to is: `my-grid.mykopat.slu.se` 14 15 Don't forget to run your jobs through the [wiki:GridEngine grid engine], otherwise they might just be stopped by the system when the default resource limits are exceeded. 22 16 23 17 == Running commands == 24 Once you have logged in to my-mgrid you will encounter a Linux system. (It is a Debian GNU/Linux system, quite similar to Ubuntu, but with some customisations to make it more suitable to act in a grid environment. If you are unfamiliar with work in a unix shell, you should consult som unix shell tutorial. We have a small Unix CheatSheet or quick reference that might be useful. You should also check the GridEngine pages for information on how to run long-running analysis. 25 18 Once you have logged in you will encounter a Linux system. It is a Debian GNU/Linux system, quite similar to Ubuntu, but with some customisations to make it more suitable to act in a grid environment. If you are unfamiliar with work in a unix shell, you should consult som unix shell tutorial. We have a small Unix CheatSheet or quick reference that might be useful. You should also check the GridEngine pages for information on how to run long-running jobs. 26 19 27 20 == Projects == … … 39 32 For each project a number of WebServices are available to use. These include: 40 33 41 * [ ProjectWebFolder Project web folder]42 * [ ProjectSubversion Subversion for version control of project files]43 * [ ProjectTrac Trac for project documentation (includes a wiki like this, issue handling and a nice browser for subversion)]34 * [wiki:ProjectWebFolder Project web folder] 35 * [wiki:ProjectSubversion Subversion for version control of project files] 36 * [wiki:ProjectTrac Trac for project documentation (includes a wiki like this, issue handling and a nice browser for subversion)] 44 37 45 38 == '''[wiki:FrequentlyAskedQuestions Frequently Asked Questions]''' == 46 39 Go here to find out information about common problems (for example: installing software in your local folder) 47 40 48 49 50 41 Technical documentation for Administrators is found in the [[Admin]] section of the wiki.
