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biac:cluster [2012/06/15 14:52] mm265 [Tutorials] |
biac:cluster [2023/04/06 18:31] cmp12 |
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===== User guides ===== | ===== User guides ===== | ||
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* [[huettel: | * [[huettel: | ||
- | ===== Tutorials ===== | + | === Basic Primer |
- | A [[http:// | + | The BIAC cluster is a Linux-based processor put in place to analyze any type of data. You will work on the cluster though a terminal window by writing commands one line at a time. In order to set up access to the cluster on your computer, you need to be behind the DHE firewall. |
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+ | To connect | ||
+ | * [[biac: | ||
- | === Hugin for dummies === | ||
- | The BIAC cluster, Hugin, is a Linux base processor put in place to analyze any type of data. You will work on Hugin though a terminal window by writing commands one | + | == The Interactive Node == |
- | line at a time. In order to set up access to Hugin on your computer, you need to be behind the firewall. | + | |
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- | here http:// | + | |
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- | You will also need a cluster account. Please send an email to help@biac.duke.edu requesting a cluster account. | + | |
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- | == the Interactive Node == | + | |
qinteract is also known as the ‘interactive node,’ because it allows you to interact directly with your data on Munin (or whatever server). | qinteract is also known as the ‘interactive node,’ because it allows you to interact directly with your data on Munin (or whatever server). | ||
* List of packages: http:// | * List of packages: http:// | ||
- | * Getting on: log onto Hugin, in the command line (username@hugin: ___) type “qinteract” if prompted, type yes, and then enter your cluster password. | + | * Getting on: log onto the cluster, in the command line (username@cluster: ___) type “qinteract” if prompted, type yes, and then enter your cluster password. |
* Congratulations! | * Congratulations! | ||
+ | == Useful Commands == | ||
+ | * ls - "list scripts" | ||
+ | * ls -ltr - ls w/ time and date | ||
+ | * cd - " | ||
+ | * mkdir - "make directory," | ||
+ | * gedit - will open a text editor, to be followed by the name of the text file you'd like to edit | ||
+ | * rm - " | ||
+ | * cp - copy | ||
+ | * qdel - delete job | ||
+ | * qstatall - display active jobs | ||
- | Command lines | + | == EXTRA TIPS == |
- | ls | + | * If you command line is gone in the cluster, as in you don’t have the prompt |
- | ls -ltr | + | * In order to avoid this, follow commands with an & |
- | mkdir | + | * Hit the up arrow in order to go to the previous written command |
- | cd | + | * Hit tab in order to fill in a file, script, or directory name |
- | .. | + | * If there are multiple files with that name it’ll fill in up to where they differ |
- | Tab to complete | + | * If you’d like to work the command on all files with that particular prefix, immediately follow the prefix with * (for example |
- | Gedit . nedit | + | |
- | Commenting | + | * Scripts with tildes (~) are there as a backup service, ignore, don’t use, can be deleted if you make sure the proper script is current (example batch_QA versus batch_QA~) |
- | saving | + | * By typing qstatall (no folloing arguments necessary), you can look at the active jobs on the cluster |
- | & | + | * By typing ls –ltr you’ll have a list of files with a timestamp/ more details |
- | bash | + | * In order to paste from windows into linux (example gedit or the FSL GUI), copy using right click and paste using the center scroll button |
- | rm | + | |
- | Up arrow | + | |
- | cp | + | |
- | qdel | + | |
- | qstatall | + | |
- | Blue “directories” | + | |
- | Getting files from munin onto hugin, and mounting experiments? | + | |
- | Print from terminal window | + | |
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===== Administration guides ===== | ===== Administration guides ===== | ||
- | * [[biac: | + | * <del>[[biac: |
- | * [[biac: | + | |
* [[biac: | * [[biac: | ||
* [[biac: | * [[biac: |