Spades output help

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

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updated 6.6 years ago by GenoMax

• written 6.6 years ago by niyomiw88 •

1 answer

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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updated 6.6 years ago by h.mon

• written 6.6 years ago by JC

Thank you so much! It actually worked :D

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written 6.6 years ago by niyomiw88 •

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