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Warning if fastq-dump is not installed or on $PATH

Open JohnWSteill opened this issue 6 years ago • 1 comments

Great package, thanks!

I lost a bit of time tracking down fastq-dump error with the download_SRA() function.

Granted,

"09-Apr-2019 12:48:02 ERROR sra_downloader - fastq-dump command not found"

is pretty good, but maybe it would be nice to see a good exception raised before the 15Gb file dowload?

Again, awesome pkg, thanks!

Best,

John

JohnWSteill avatar Apr 09 '19 18:04 JohnWSteill

Hi, that is good point. Could you send a snippet (if it is not confidential)? Anyway, I think this is something that could be fastly done.

guma44 avatar Apr 10 '19 19:04 guma44