replacing the string of the file name and using it in the same shell script

Question

I have one set of files with naming convention bond_7.LEU.CA.1.dat bond_10.VAL.CB.1.dat..... and have other set of files starting with the string distance rather than bond with the same extension i.e.,distance_7.LEU.CA.1.dat .... and i am trying to merge corresponding or subsequent lines of files using paste command in shell scripting

I am intending to do paste bond_7.LEU.CA.1.dat distance_7.LEU.CA.1.dat > ../raj/angle_dist_7.LEU.CA.dat

I have tried to use for loop and stuck with replacing the string of the file name to access the appropriate file.

Thanks in advance,

Any help will be appreciated.

rush · Accepted Answer · 2012-07-10 11:50:46Z

1

#!/bin/bash
for FILE in bond* 
do
    paste "$FILE" "${FILE/bond/distance}" > "../raj/${FILE/bond/angle_dist}"
done

Is that it?

ps. Such substitutions don't work in pure sh. You should to use bash or ksh or zsh or smth like that.

pps. To use it with sh replace "${FILE/bond/distance}" with

`echo $FILE | sed 's/bond/distance/'`

answered Jul 10, 2012 at 11:50

rush

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3 Comments

William Pursell Over a year ago

+1: note that although ${FILE/bond/distance} is non standard, you can use the standard distance${FILE#bond} to achieve the same thing.

Rody Oldenhuis Over a year ago

@WilliamPursell: it is standard in bash, see the BASG, search for ${string/substring/replacement}.

William Pursell Over a year ago

standard in bash is an oxymoron. It works in bash, and some other shells, but it is not standard bourne shell syntax.

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