By Röbbe Wünschiers
-Teaches the reader find out how to use Unix, that is the foremost to uncomplicated computing and permits the main flexibility for bioinformatics applications
-Written particularly with the desires of molecular biologists in mind
-Easy to stick with, written for newcomers with out computational knowledge
-Includes examples from organic information analysis
-Can be use both for self-teaching or in courses
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Additional resources for Computational Biology —: Unix/Linux, Data Processing and Programming
Some commands have options made from complete words or phrases. They start with two dashes, like --confirm-delete. Options are given before ﬁlenames. Command, option and ﬁlename must be separated by spaces. In a few cases, an option has another argument associated with it. The sort command is one example (see Sect. 1 on page 65). This command does sort the lines of one or more text ﬁles according to the alphabet. You can tell sort to write the sorted text to a ﬁle, which name is given after the option -o (output).
Depending on your system settings ﬁles and directories, as well as hidden ﬁles and hidden directories, might appear in diﬀerent colours. 38 4 Working with Files Thus you can directly see what are ﬁles and what are directories. ”. These are special directories. ” stands for the working directory. This is useful in commands like cp (copy). ” directory is the relative pathname to the parent directory. This relative pathname is helpful when you change to the parent directory with the command cd (change directory).
Date which we created in directory /home/Freddy into the currently active directory /home/Freddy/temp (where we are right now). Therefore, we apply the command cp (copy). ”. The syntax of the copy command is “cp source destination”. date which is one directory up. With the single dot we specify the directory we are in. This is the destination. 4 Protecting Files and Directories 41 /home/Freddy/temp. Note that you have duplicated the ﬁle. In order to move the ﬁle you have to substitute the command cp for the command mv (move).