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Top Forums Shell Programming and Scripting How can I calculate the total of nucleotide in Unix?What command line I should type? Post 302279080 by KevinADC on Thursday 22nd of January 2009 12:49:33 AM
Old 01-22-2009
If thats all you need to do then maybe a shell script is the way to go, but if you want a single interface to all your DNA needs you might want to look into BioPerl.

Main Page - BioPerl
 

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size(1) 							   User Commands							   size(1)

NAME
size - print section sizes in bytes of object files SYNOPSIS
size [-f] [-F] [-n] [-o] [-V] [-x] filename... DESCRIPTION
The size command produces segment or section size information in bytes for each loaded section in ELF object files. size prints out the size of the text, data, and bss (uninitialized data) segments (or sections) and their total. size processes ELF object files entered on the command line. If an archive file is input to the size command, the information for each object file in the archive is displayed. When calculating segment information, the size command prints out the total file size of the non-writable segments, the total file size of the writable segments, and the total memory size of the writable segments minus the total file size of the writable segments. If it cannot calculate segment information, size calculates section information. When calculating section information, it prints out the total size of sections that are allocatable, non-writable, and not NOBITS, the total size of the sections that are allocatable, writable, and not NOBITS, and the total size of the writable sections of type NOBITS. NOBITS sections do not actually take up space in the filename. If size cannot calculate either segment or section information, it prints an error message and stops processing the file. OPTIONS
The following options are supported: -f Prints out the size of each allocatable section, the name of the section, and the total of the section sizes. If there is no section data, size prints out an error message and stops processing the file. -F Prints out the size of each loadable segment, the permission flags of the segment, then the total of the loadable segment sizes. If there is no segment data, size prints an error message and stops processing the file. -n Prints out non-loadable segment or non-allocatable section sizes. If segment data exists, size prints out the memory size of each loadable segment or file size of each non-loadable segment, the permission flags, and the total size of the segments. If there is no segment data, size prints out, for each allocatable and non-allocatable section, the memory size, the section name, and the total size of the sections. If there is no segment or section data, size prints an error message and stops processing. -o Prints numbers in octal, not decimal. -V Prints the version information for the size command on the standard error output. -x Prints numbers in hexadecimal, not decimal. EXAMPLES
The examples below are typical size output. Example 1 Producing size information example% size filename 2724 + 88 + 0 = 2812 Example 2 Producing allocatable section size information example% size -f filename 26(.text) + 5(.init) + 5(.fini) = 36 Example 3 Producing loadable segment size information example% size -F filename 2724(r-x) + 88(rwx) + 0(rwx) = 2812 ... (If statically linked) ATTRIBUTES
See attributes(5) for descriptions of the following attributes: +-----------------------------+-----------------------------+ | ATTRIBUTE TYPE | ATTRIBUTE VALUE | +-----------------------------+-----------------------------+ |Availability |SUNWbtool | +-----------------------------+-----------------------------+ SEE ALSO
as(1), cc(1B), ld(1), ar.h(3HEAD), a.out(4), attributes(5) NOTES
Since the size of bss sections is not known until link-edit time, the size command will not give the true total size of pre-linked objects. SunOS 5.11 16 Oct 1996 size(1)
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