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if matching strings in file1 and file2, add column from file1 to file2

 
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# 1  
Old 07-19-2012
if matching strings in file1 and file2, add column from file1 to file2
I have very limited coding skills but I'm wondering if someone could help me with this. There are many threads about matching strings in two files, but I have no idea how to add a column from one file to another based on a matching string.

I'm looking to match column1 in file1 to the number following the string "Gene_" in file2. If there's a match, I want to add column 2 from file1 as the first column in file2.

file1
Code:
1    k48_101119
2    k48_103273
3    k48_103895
4    k48_108200
5    k48_11007
[...]

file2
(not all line numbers in file1 are represented in file2)
Code:
"Gene_2" 2.79393133358307e-119
"Gene_5" 3.58660951659928e-42
[...]

Desired output
Code:
k48_103273 "Gene_2" 2.79393133358307e-119
k48_110077 "Gene_5" 3.58660951659928e-42
[...]

Thanks in advance...
# 2  
Old 07-19-2012
Code:
cat file1 | awk '{print $1}' | while read NUM
do
        # echo ${NUM}

        grep "Gene_${NUM}" file2 2>/dev/null  # output to tty or suppress 

        RC=$?

        if [[ ${RC} == 0 ]]
        then
                REP_STR=`grep "${NUM}  " file1 | awk '{print $2}'`

                # echo ${REP_STR}

                cat file2 | sed "s/\"Gene_"${NUM}"\"/${REP_STR} \"Gene_"${NUM}"\"/g" > temp_file
             
                cp temp_file file2
        fi
done

This User Gave Thanks to aster007 For This Post:
pathunkathunk
# 3  
Old 07-19-2012
This will use a bit more memory, but saves heavily on I/O as it requires each file to be read only once. Depending on the size of the files, should run much more quickly.

Code:
awk '
    NR == FNR { f1[$1] = $2; next; }
    {
        split( $1, a, "_" );
        printf( "%s %s\n", f1[a[2]+0], $0 );
    }
'  file1 file2

This User Gave Thanks to agama For This Post:
pathunkathunk
# 4  
Old 07-20-2012
Thanks good people.
 
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