UNIX for Dummies Questions & Answers

First try to avoid calling a file "test". Sooner or later it will give you trouble because it is the name of a unix command.

Hope this script helps:

Code:

(
#!/bin/ksh
cat file_2|while read TAG
do
        grep \^"${TAG} " file_1
done
) > test_file

cat test_file
TAG_1 Boston
TAG_2 New York
TAG_4 London
TAG_6 Madrid

Note the use of a space after ${TAG} in the grep to avoid mismatches. You need to distinguish TAG_1 from TAG_12 .

Thanks Methyl,
as you know it works on my example files. What do I have to do if my tags are different e.g.
NY5876_1 ... NY5876_9999
If tried myself but failed.

Thank you very much for your help.

The script does not need changing.
In my little script, "TAG" is the just name of a variable.

But it doesn't seem to work for me with any other TAG, I end up with an empty test_file, and if I don't leave a space after the expression it kind of works but it puts the whole file_1 into test
Here is your script (amended hopefully correctly for my 2nd example) that I used
(
#!/bin/ksh
cat list|while read NY5876
do
grep \^"${NY5876} " NY5876_cds.csv
done
) > test_file

Please post sample data from the file called "list" and the file called "NY5876_cds.csv".

Hi Methyl,
here are some sample data
Thanks again for going to so much trouble.
Bruno
list looks like this
NY5876_104
NY5876_5
NY5876_899
NY5876_9999
NY5876_1899
NY5876_10

file NY5876_cds.csv looks like this
>NY5876_1 chromosomal replication initiation protein
>NY5876_2 DNA polymerase III subunit beta
>NY5876_3 recombination protein F
>NY5876_4 DNA gyrase subunit B
>NY5876_5 type I restriction-modification system, M subunit, putative
>NY5876_6 type I restriction-modification system S subunit
>NY5876_7 hypothetical protein PSPTO_0007
>NY5876_8 HsdR family type I site-specific deoxyribonuclease
>NY5876_9 ISPsy3, transposase
>NY5876_10 hypothetical protein PSPTO_0011
...
...
...
>NY5876_9999 hypothetical protein