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Full Discussion: Use while loop to read file and use ${file} for both filename input into awk and as string to print
Top Forums Shell Programming and Scripting Use while loop to read file and use ${file} for both filename input into awk and as string to print Post 302997573 by pathunkathunk on Tuesday 16th of May 2017 05:17:56 PM
Old 05-16-2017
Use while loop to read file and use ${file} for both filename input into awk and as string to print
I have files named with different prefixes. From each I want to extract the first line containing a specific string, and then print that line along with the prefix.

I've tried to do this with a while loop, but instead of printing the prefix I print the first line of the file twice.

Files:
Code:
cat prefixes.txt 
N2_A
N2_O

cat N2_A_ko.txt 
K02234  6.24
K02588  14.971
K02588|unclassified     14.971

cat N2_O_ko.txt 
K02588  2.647
K02588|unclassified     2.647
K02233 3.45

Here's what I've tried:
Code:
while read file
do 
var=${file}
awk -OFS'\t' '/K02588/ {print $var,$1,$2; exit}' ${file}_ko.txt > ${file}_nifh.txt
done < prefixes.txt

But, again, instead of printing the prefix as the first column, it prints the first line of the file.
Code:
cat N2_A_nifh.txt 
K02588  14.971 K02588   14.971 

cat N2_O_nifh.txt 
K02588  2.647 K02588    2.647

 

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LEARN ABOUT CENTOS

rhino

RHINO(1)						      General Commands Manual							  RHINO(1)

NAME

       rhino - invokes the JavaScript shell for running scripts in batch mode or interactive

SYNOPSIS

       rhino [options] script_filename_or_url [script_arguments]

DESCRIPTION

       This manual page documents briefly the rhino command.

       rhino  is a start script for the rhino JavaScript shell which provides a simple way to run scripts in batch mode or an interactive environ-
       ment for exploratory programming.

OPTIONS

       -e script_source
	      Executes script_source as a JavaScript script.

       -f script_filename_or_url
	      Reads script_filename_or_url content and execute it as a JavaScript script.

       -opt, -O optLevel
	      Optimizes at level optLevel, which must be an integer between 0 and 9.

       -version versionNumber
	      Specifies the language version to compile with. The string versionNumber must be one of 100, 110, 120, 130, or 140.  See	JavaScript
	      Language Versions for more information on language versions.

PREDEFINED PROPERTIES

       Scripts executing in the shell have access to some additional properties of the top-level object.

       arguments
	      The arguments object is an array containing the strings of all the arguments given at the command line when the shell was invoked.

       help() Executing the help function will print usage and help messages.

       defineClass(className)
	      Define an extension using the Java class named with the string argument className. Uses ScriptableObject.defineClass() to define the
	      extension.

       deserialize(filename)
	      Restore from the specified file an object previously written by a call to serialize.

       load([filename,...])
	      Load JavaScript source files named by string arguments. If multiple arguments are given, each file is read in and executed in turn.

       loadClass(className)
	      Load and execute the class named by the string argument className. The class must be a class that implements the	Script	interface,
	      as will any script compiled by jsc.

       print([expr...])
	      Evaluate and print expressions. Evaluates each expression, converts the result to a string, and prints it.

       readFile(path[,characterCoding])
	      Read  given file and convert its bytes to a string using the specified character coding or default character coding if explicit cod-
	      ing argument is not given.

       readUrl(url[,characterCoding])
	      Open an input connection to the given string url, read all its bytes and convert them to a string using the specified character cod-
	      ing or default character coding if explicit coding argument is not given.

       runCommand(commandName,[arg,...][options])
	      Execute  the  specified command with the given argument and options as a separate process and return the exit status of the process.
	      For details, see JavaDoc for org.mozilla.javascript.tools.shell.Global#runCommand.

       serialize(object,filename)
	      Serialize the given object to the specified file.

       spawn(functionOrScript)
	      Run the given function or script in a different thread.

       sync(function)
	      creates a synchronized function (in the sense of a Java synchronized method) from an existing function. The  new	function  synchro-
	      nizes on the this object of its invocation.

       quit() Quit shell. The shell will also quit in interactive mode if an end-of-file character is typed at the prompt.

       version([number])
	      Get  or  set  JavaScript	version number. If no argument is supplied, the current version number is returned. If an argument is sup-
	      plied, it is expected to be one of 100, 110, 120, 130, or 140 to indicate JavaScript version 1.0, 1.1,  1.2,  1.3,  or  1.4  respec-
	      tively.

SEE ALSO

       The online documentation under http://www.mozilla.org/rhino/shell.html <http://www.mozilla.org/rhino/shell.html>

AUTHOR

       This manual page was written by Wolfgang Baer <WBaer@gmx.de>.

								February  12, 2005							  RHINO(1)
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