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keylabivdc / VIP

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Problems with database installation #4

Closed IgorFobia closed 8 years ago

IgorFobia commented 8 years ago

I am facing many errors in the installer/db_installer.sh script. The first one I get is due to these lines:

sudo gzip -d -k "$HG38_DNA"
sudo sh -c 'cat hs_ref_GRCh38.*.fa > human.dna.fa'

I get the errors:

gzip: hs_ref_GRCh38.*.fa.gz: No such file or directory
cat: hs_ref_GRCh38.*.fa: No such file or directory

Single quotes are probably wrong, and wildcard expansion does not work here.

keylabivdc commented 8 years ago

I have quick fixed this issue. You can see. https://github.com/keylabivdc/VIP/commit/1b10b9979809e990989804ac80ce19e98e5a3ec4

or you can use sudo gzip -d -k $HG38_DNA