I am trying to download a list of sra files from SRA sever. I stored all SRA accession codes in a file named
accList.txt so that each line is one accession code.
I want to use
nohup to download all of the files automatically . I rub the code below but it seems that it does not work properly.
nohup bash -c "while read -r line; do prefetch --ngc prj_26719_D29472.ngc $line ; done < accList.txt " 2>error.out
and in the out put file
nohup.out I get the follwing message.
Usage: prefetch [options] <SRA accession> [...] Download SRA files and their dependencies prefetch [options] --cart <kart file> Download cart file prefetch [options] <URL> --output-file <FILE> Download URL to FILE prefetch [options] <URL> [...] --output-directory <DIRECTORY> Download URL or URL-s to DIRECTORY prefetch [options] <SRA file> [...] Check SRA file for missed dependencies and download them
can anyone please help me with this issue? thank you