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Geophysical Computing

Geophysical Computing

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Published by: Isay H. Lucas Hernández on Sep 12, 2012
Copyright:Attribution Non-commercial


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Geophysical Computing
L01_Intruduction to the Unix OS------------------------------------------------------------------L01-1L02_Awk, Cut, Paste and Join ---------------------------------------------------------------------L02-1L03_C shell Scripting – Part 1---------------------------------------------------------------------L03-1L04_C shell Scripting – Part 2---------------------------------------------------------------------L04-1L05_Generic Mapping Tools (GMT) – Part 1---------------------------------------------------L05-1L06_Generic Mapping Tools (GMT) – Part 2---------------------------------------------------L06-1L07_Generic Mapping Tools (GMT) – Part 3---------------------------------------------------L07-1L08_Generic Mapping Tools (GMT) – Part 4---------------------------------------------------L08-1L09_Fortran Programming – Part 1---------------------------------------------------------------L09-1L10_Fortran Programming – Part 2---------------------------------------------------------------L10-1L11_Fortran Programming – Part 3---------------------------------------------------------------L11-1L12_Fortran Programming – Part 4---------------------------------------------------------------L12-1L13_Supercomputing – Part 1---------------------------------------------------------------------L13-1L14_Supercomputing – Part 2---------------------------------------------------------------------L14-1L15_POV-Ray – Part 1-----------------------------------------------------------------------------L15-1L16_POV-Ray – Part 2-----------------------------------------------------------------------------L16-1L17_POV-Ray – Part 3-----------------------------------------------------------------------------L17-1L18_Finalizing Ilustrations for publication------------------------------------------------------L18-1
Geophysical Computing
L01 – Introduction to the Unix OS1. What is Unix?
Unix is an operating system (OS): it manages the way the computer works by driving theprocessor, memory, disk drives, keyboards, video monitors, etc. and by performing useful tasksfor the users. Unix was created in the late 1960s as a multiuser, multitasking system for use byprogrammers. The philosophy behind the design of Unix was to provide simple, yet powerfulutilities that could be pieced together in a flexible manner to perform a wide variety of tasks.A key difference between the Unix OS and others you are familiar with (e.g., PC) is that Unix isdesigned for multiple users. That is multiple users may have multiple tasks runningsimultaneously. Its original purpose was to facilitate software development. It is the primary OSused by physical scientists everywhere, and all supercomputing facilities use it. To put it bluntly,if you are at all on the numerical side of physical sciences, then you need to learn how to operateon a Unix OS.In this class we are actually using a Linux OS. What is Linux? Basically the same thing as Unix.Only, Linux is developed by user contributions. Several flavors have arisen (Red Hat, Suse,Fedora, etc.) but they are all basically the same thing. What you can do in Unix you can do inLinux (the corollary of which isn’t necessarily true). In this class I refer to Unix and Linuxinterchangeably. If I say Unix I mean Linux, and most of what I say is applicable to both.The main difference between the two is that: (1) Unix development has corporate support. Thismeans it tends to be a more stable OS and is the choice of those for whom stability is the toppriority, (2) Linux is developed by a community of users and is free. Thus, you get what you payfor? Well, it has some stability issues and bugs creep up. But, the bugs are also quickly squashedand new content, programs, and functionality has quickly outpaced that of Unix.I’m not going to go into detail into what the Unix/Linux OS is comprised of, but there are 3 basicentities:1)
The Kernel
– The core of the UNIX system. Loaded at system start up (boot); managesthe entire resources of the system. Examples of what it does are: interpreting andexecuting instructions from the shell, managing the machine’s memory and allocating itto processes, scheduling the work done by the cpu’s.2)
The Shell
– Whenever you login to a Unix system you are placed in a shell program.The shell is a command interpreter; it takes each command and passes it to the operatingsystem kernel to be acted upon. It then displays the results of this operation on yourscreen. Several shells are usually available on any Unix system, each with its ownstrengths and weaknesses. Examples are the Bourne Shell (
), C Shell (
), andBourne Again Shell (
-- UNIX provides several hundred utility programs, often referred to ascommands. The commands accomplish universal functions such as printing, editing files,etc.

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