loop a variable outside the file

Question

I will try to explain it. I have a .sh file that do a gwas for each cromosome in bash. This .sh file works but I would like to do a loop to automatize it instead of changing the cromosome (from 1 to 22) each time I do it. I will put a part of a code as its not mine and idk if I can post it:

This is an example with chr 21 if I do:

#!/bin/bash -f 

# Assuming run by chromosome so   

# set to chromosome.
chr=21

# path to program
program=../programs/program

# path to genotype file
geno=../chr{chr}.1001.bin

# path to program phenotype file 
pheno=../data/pheno.csv

Then from bash i do bash gwas.sh and it works for 21 chromosome. This is a part but it works. I tried this:

1. change the file a little bit:

#!/bin/bash -f 

# Assuming run by chromosome so   

# set to chromosome.
chr=$CHR

# path to program
program=../programs/program

# path to genotype file
geno=../chr{chr}.1001.bin

# path to program phenotype file 
pheno=../data/pheno.csv

And then from bash I did

for ((CHR=1; CHR<22; CHR++)); do
echo $CHR

bash gwas.sh

done

Thank you so much in advance

ANSWERD: (Verpous answered it)

1. change the file:

#!/bin/bash -f 

# Assuming run by chromosome so   

# set to chromosome.
export chr=

# path to program
program=../programs/program

# path to genotype file
geno=../chr{chr}.1001.bin

# path to program phenotype file 
pheno=../data/pheno.csv

then do:

for ((CHR=1; CHR<23; CHR++)); do
export chr=$CHR

bash ../scripts/gwas.sh

done

Answer 1

Answered: (Verpous answered it in the comments)

change the file:

#!/bin/bash -f 

# Assuming run by chromosome so   

# set to chromosome.
export chr=

# path to program
program=../programs/program

# path to genotype file
geno=../chr{chr}.1001.bin

# path to program phenotype file 
pheno=../data/pheno.csv

then do:

for ((CHR=1; CHR<23; CHR++)); do
export chr=$CHR

bash ../scripts/gwas.sh

done