why is my awk command printing on a newline??????

pierceogden · 04-03-2012, 08:45 PM

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!!!

pierceogden · 04-03-2012, 09:00 PM

figured it out, I needed a printf in the 1st awk command!

David the H. · 04-05-2012, 12:33 PM

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