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--- mkatari-bioinformatics-august-2013-introlinuxnotes [2013/08/13 15:59] – mkatari
+++ mkatari-bioinformatics-august-2013-introlinuxnotes [2015/06/03 17:06] – mkatari
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-[[mkatari-bioinformatics-august-2013|Manny's Bioinformaics Workshop]]
+[[mkatari-bioinformatics-august-2013|Back to Manny's Bioinformatics Workshop Home]]
+====== What is Linux ? ======
+It is a free and open source operating system released in 1991 under the GNU GPL license.GPL allows anyone to use, modify and redistribute with the requirement that they pass it on with the same license.
+It is the leading operating system of choice for servers such as supercomputers.
+More than 90% of the top 500 fastest computers are based on Linux.
+MAC computers are related to Linux because they are also based on UNIX
+Depending on the purpose of the Linux machine, it may or may not have a Desktop environment that we are familiar with on our personal computers. Linux uses X Window System to provide the Desktop environment.
+A popular distribution of Linux operating system is called Ubuntu.
+REF: [[http://en.wikipedia.org/wiki/Linux]]
+====== Why do bioinformaticians use Linux? ======
+  * Many bioinformatics core tools are written in Linux.
+      * BLAST, CLUSTALW, PHRAP, etc
+      * Many web applications are also supported on web servers hosted on linux machines
+  * Linux supports development of software for many different programming languages.
+      * Developers are lazy so creating a software that does not require a window is much faster and easier
+  * Multiple users can log in at the same time.
+      * A user logging in over the network can do just about anything a user sitting in front of the computer can do. Which also means linux handles multitasking very well.
+====== The Linux Shell ======
+The standard user interface for personal computers is a GUI (Graphical User Interface). However for linux it is a command-line interpreter called shell.
+It is simply a prompt the awaits your command. There are several different shells, but the one used often is called “bash”, which is a mixture of a bunch of other shells.
+====== Remote vs. Local ======
+{{:servercomputerrelation.png?200|}}
 ====== Some useful information about linux ======