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Replace specific words with nothing

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# 1  
Old 12-30-2013
Replace specific words with nothing
Hi
I have a file like that contains infomation about genes exons introns made as a single string. i am just planning to get the gene name alone with out any extra information.
Code:
intergenic_Nedd4_exon_0_F
Gapvd1_intron_24_R
Gapvd1_exon_25_R

my output file should be
Code:
intergenic_Nedd4 
Gapvd1
Gapvd1

so i want to replace
Code:
_intron*

and
Code:
_exon*

with nothing
# 2  
Old 12-30-2013
if you have Ruby
Code:
# ruby -ne 'puts $_.sub(/_(exon|intron).*/,"")' file
intergenic_Nedd4
Gapvd1
Gapvd1

# 3  
Old 12-30-2013
You may try Awk
Code:
$ awk 'gsub(/_(exon|intron).*/,x)' file

Code:
$ sed 's/_intron\|_exon.*//g' file

Last edited by Akshay Hegde; 12-30-2013 at 05:07 AM.. Reason: missed something...
This User Gave Thanks to Akshay Hegde For This Post:
raj_k
# 4  
Old 12-30-2013
that's not the correct output
# 5  
Old 12-30-2013
I have tried
Code:
awk '{sub("_intron_\.[0-9]+\.[A-Z]", "")}1' file |awk '{sub("_exon_\.[0-9]+\.[A-Z]", "")}1'

but unfortunately for intergenic its not doing anythg
# 6  
Old 12-30-2013
I usually use Character classes try following

Code:
$ cat <<test | awk 'sub(/_(intron|exon)_([[:digit:]]+)_([[:upper:]])/, x) + 1' 
intergenic_Nedd4_exon_0_F
Gapvd1_intron_24_R
Gapvd1_exon_25_R
test

intergenic_Nedd4
Gapvd1
Gapvd1

# 7  
Old 12-30-2013
Hello,

May be this will be helpful.

Code:
$ awk -F"_" 'NR==1 {print $1 OFS $2} NR==2 || NR==3 {print $1}' OFS=_ file_name
 
Output will be as follows:
 
intergenic_Nedd4
Gapvd1
Gapvd1


Thanks,
R. Singh
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