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Full Discussion: script for multiple files
Top Forums Shell Programming and Scripting script for multiple files Post 302692823 by pamu on Tuesday 28th of August 2012 06:30:13 AM
Old 08-28-2012
Try something like this..

Code:
for i in *.bigWig
do
file_name=$(echo $i | sed 's/.bigWig/.bedGraph/g')
bigWigToBedGraph $i $file_name
done


Last edited by pamu; 08-28-2012 at 07:38 AM..
 

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realpath(3X)															      realpath(3X)

NAME
realpath - resolve pathname SYNOPSIS
DESCRIPTION
The function derives, from the pathname pointed to by file_name, an absolute pathname that names the same file, whose resolution does not involve or symbolic links. The generated pathname is stored, up to a maximum of bytes, in the buffer pointed to by resolved_name. RETURN VALUE
On successful completion, returns a pointer to the resolved name. Otherwise, returns a null pointer and sets errno to indicate the error, and the contents of the buffer pointed to by resolved_name are undefined. ERRORS
The function will fail if: Read or search permission was denied for a component of file_name. Either the file_name or resolved_name argument is a null pointer. An error occurred while reading from the file system. Too many symbolic links were encountered in resolving path. The file_name argument is longer than or a pathname component is longer than A component of file_name does not name an existing file or file_name points to an empty string. A component of the path prefix is not a directory. The function may fail if: Pathname resolution of a symbolic link produced an intermediate result whose length exceeds Insufficient storage space is available. SEE ALSO
sysconf(2), getcwd(3C), thread_safety(5), glossary(9), <stdlib.h>. CHANGE HISTORY
First released in Issue 4, Version 2. realpath(3X)
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