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Old 04-03-2012, 08:45 PM   #1
pierceogden
LQ Newbie
 
Registered: Apr 2012
Posts: 10

Rep: Reputation: Disabled
why is my awk command printing on a newline??????


I am creating a table as follows

Code:
pdb   uniprot  #ligands   Energy  
---------------------------------------
2h7l  P0A5Y6   500
-32.893
3e37  Q8K2I1   501
-38.5512
1bcd  P00918   505
-26.5727
the negative number is an average of a column of numbers from a separate file. my code is as follows

Code:
#!bin/bash



printf "pdb   uniprot  #ligands   Energy  \n"
echo '---------------------------------------'


while read pdbs
do
	cd rn$pdbs
	while read uni
	do
		printf $pdbs
		printf "  "
		cd run.$uni
		printf $uni
		printf "   "
		cd 1.A
		for a in *.gz 
		do
			gzip -d $a
		done
	
			grep -i 'remark c' test.eel1 > 	out.txt
			wc -l out.txt > a
			awk '{print $1}' a
			 awk '{ total +=$5; count++ } END { printf total/count }' out.txt # creating new line??? 
		
		printf "\n"
		cd ../..
	done < uni_codes.txt
	
	

cd ..



done < $1
I have tried print & printf statements. I have also tried saving the output of the awk command and cat the awk output file. I also tried adding a <| tr -d '\n'> after the awk command, which didn't work Any ideas? my table doesn't really make sense with the numbers down there. Thanks!!!

Last edited by pierceogden; 04-03-2012 at 08:46 PM. Reason: make it more readable
 
Old 04-03-2012, 09:00 PM   #2
pierceogden
LQ Newbie
 
Registered: Apr 2012
Posts: 10

Original Poster
Rep: Reputation: Disabled
figured it out, I needed a printf in the 1st awk command!
 
Old 04-05-2012, 12:33 PM   #3
David the H.
Bash Guru
 
Registered: Jun 2004
Location: Osaka, Japan
Distribution: Debian sid + kde 3.5 & 4.4
Posts: 6,823

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I just made a post in your other thread about the use of printf. Please learn how to use it correctly.

Also note that the printf in awk has a slightly different syntax from bash's version (arguments are separated by commas), and is capable of doing more (particularly when working with numbers, due to the full floating-point arithmetic engine). awk's print command is pretty much equal to bash's echo.


Speaking of which, I should've mentioned before, you can also use echo -n in bash to print a simple string without a newline (equivalent to "printf '%s'").

Edit: see here for details on gawk's version of printf.
http://www.gnu.org/software/gawk/man...tf.html#Printf

Last edited by David the H.; 04-05-2012 at 12:38 PM.
 
  


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