hello,
This is an error I had when I tried to run my script I wrote for my project.
I run the same script on a different pc and I didn't get this same error
Please how can I fix it.
terminate called after throwing an instance of 'boost::exception_detail::clone_impl<boost::exception_detail::error_info_injectorboost::program_options::invalid_option_value >'
') for option '--input-file' is invalid
THIS IS THE SCRIPT
#!/bin/bash
home=/mnt/c/Users/SAM 2017/Desktop/sena
mkdir variant_calls
ref=k13.fa.gz
tracy index $ref
samtools faidx $ref
Variant Calling and convert bcf to vcf file
for i in ls *.ab1 | sed -e 's/\.ab1//';
do
echo $i
tracy decompose -v -a plasmodium_falciparum -r $ref -o ./variant_calls/${i} ${i}.ab1;
done