Error- sh: fpa: command not found #3
Description
Hello. I am beginner for "vechat".
I have installed vechat to reduce errors for my CLR reads from Pacbio.
Firstly, I installed all following dependencies.
Then, I used installation git clone https://github.com/HaploKit/vechat.git since installation using conda didn't work.
And I got message "make[1]: warning: Clock skew detected. Your build may be incomplete."
After that I run the script below.
I got error "sh: fpa: command not found" and the error run finished around 4 hours later.
My script is here
#!/bin/bash
#SBATCH --job-name=vechat
#SBATCH --partition=largemem
#SBATCH --mem=300G
#SBATCH --cpus-per-task=30
#SBATCH --mail-user=xxxx
#SBATCH --mail-type=BEGIN,FAIL,END
#SBATCH -e err_vechat.%A_%a
vechat ./Sgig_genome.fa -t 8 --platform pb --split -o reads.corrected_sgigorg.fa
The error message I have obtained from vechat output is
sh: fpa: command not found
[racon::Polisher::initialize] loaded target sequences 46.690481 s
[racon::Polisher::initialize] error: empty sequences set!
These same messages continue until the end of the file.
My out file (reads.corrected_sgigorg.fa) was empty.
Is this because of my installation problem for the vechat or something wrong with my environment?
PS: Sorry, I think that it's working now. I installed by cargo for fpa again and I changed the path to ~/bin for vechat command.
However, I worry about make[1]: warning that I got during my installation.