Spades output help
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4.8 years ago
niyomiw88 • 0

Every time I try to run this on command line it gives me an error saying that output directory is not specified. What else should i include to specify the output directory?

spades.py -k 73,75,77 --careful --only-assembler -s <Pediculus-humanus-USDA_CONTIGS_PhumU2.fa> -o test1
assembly genome • 1.2k views
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4.8 years ago
JC 13k

If that is your exact command, the "<" and ">" means something different to the shell (I/O redirection), I think you need:

spades.py -k 73,75,77 --careful --only-assembler -s pediculus-humanus-usda_contigs_phumu2.fa -o test1
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Thank you so much! It actually worked :D

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