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# 1  
Old 08-16-2013
Combination awk and rename

Hello,
i wondering if anybody can help me with the following:

doing a search for the words "Sample ID:" in a file called test.txt
and I need to have the string after this (Postmatch)
Then I want that the string is used to rename an other file called test.pdf into .... the string.pdf

I already tried some thing but still with errors
Code:
 
awk '/Sample ID:/ { printf "mv test.pdf $3.pdf\n" ,$3,$3 >>"sampleID.txt

The following is working:
Code:
awk '/Sample ID:/ { print $3 }' sampleID.txt

and is printing the correct string that I need

If you think it is easier to do it in perl or python, I am fine with this as well to learn/adapt.

Many thanks for all your help

Kindly regards
Koen
# 2  
Old 08-16-2013
Show some sample input please.
# 3  
Old 08-16-2013
Hello,
First of all thanks for the very quick reply, here is an extract of the SampleID.txt file:

LIEGE
Name: XXXXXX
ID: 123456789
Gender: F
Sample ID: 123456789A1
Sample Type: Serum
Dilution Factor: 1
Priority: Routine
# 4  
Old 08-16-2013
I think you can do something lke
Code:
awk '/Sample ID/ { print "echo mv test.pdf "$3".pdf"); }' sampleid.txt | sh

Remove the echo once you're sure it does what you want.
# 5  
Old 08-16-2013
Thanks a lot,
We are almost there, the only minor thing is that the script is putting an ? before .pdf
110715516102?.pdf instead of 110715516102.pdf

Thanks,
Koen
# 6  
Old 08-16-2013
Your file is full of carriage returns, probably generated by MS Windows.

Code:
awk '/Sample ID/ { sub(/\r/,""); print "echo mv test.pdf "$3".pdf"); }' sampleid.txt | sh

This User Gave Thanks to Corona688 For This Post:
# 7  
Old 08-16-2013
Thanks a lot
You made my script working..
Last and simple question,
Can I add multiple codes with awk in the same bash ?

Reason for asking is that I will have different lookups ?

THANKS !!!
Koen

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