A little bash script to download our juicy ONT PION data

October 29, 2018 · View on GitHub

If this doesn't work for you, express your disappointment to @samstudio8.

Use "EVEN" or "LOG" for $1, eg: bash get_pion_signal.sh EVEN

MODE=$1

echo "Fetching signal blocks. Don't be afraid to CRTL+C and resume if needed..." for i in {00..25} do echo i;wget−chttps://nanopore.s3.climb.ac.uk/Zymo−PromethION−i; wget -c https://nanopore.s3.climb.ac.uk/Zymo-PromethION-MODE-BB-SN_signal.tar.i;donewget−chttps://nanopore.s3.climb.ac.uk/Zymo−PromethION−i; done wget -c https://nanopore.s3.climb.ac.uk/Zymo-PromethION-MODE-BB-SN_signal.md5sums.remote;

echo "Calculating md5sums, this will definitely take a little while..." echo "If you're feeling adventurous, you could go and comment these lines out." md5sum Zymo-PromethION-MODE−BB−SNsignal.tar.∗>Zymo−PromethION−MODE-BB-SN_signal.tar.* > Zymo-PromethION-MODE-BB-SN_signal.md5sums.local

echo "Comparing md5sums, if all is well, you shouldn't see any hashy looking output..." comm -3 Zymo-PromethION-MODE−BB−SNsignal.md5sums.localZymo−PromethION−MODE-BB-SN_signal.md5sums.local Zymo-PromethION-MODE-BB-SN_signal.md5sums.remote

echo "---" echo "Sticking your signal tar back together..." echo "FYI, I'm doing this regardless of the above md5sum checks." echo "The onus is on you to prevent any hash-based calamity." cat Zymo-PromethION-MODE−BB−SNsignal.tar.∗>Zymo−PromethION−MODE-BB-SN_signal.tar.* > Zymo-PromethION-MODE-BB-SN_signal.tar