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3 hours ago by

Hello, I have encountered a "uniprot database" problem for diamond blast . I have question about these commands on the tutorial [,], but those don't seem to be working for me:

# extract and concatenate protein FASTA files
touch reference_proteomes.fasta.gz
find . -mindepth 2 | grep "fasta.gz" | grep -v 'DNA' | grep -v 'additional' | xargs cat >> reference_proteomes.fasta.gz

I did not receive any error message,but it just creates a "reference_proteomes.fasta.gz" with 0B, so reference_proteomes.fasta.gz created by this command is pretty much empty (see the screencap)
enter image description here

Here are all the list of " _.fasta.gz" looks like in the "uniprot" folder:
enter image description here

Any suggestion for how to revise this command based upon the file names 😕

find . -mindepth 2 | grep "fasta.gz" | grep -v 'DNA' | grep -v 'additional' | xargs cat >> reference_proteomes.fasta.gz"

Please let me know, thank you!

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modified 3 hours ago


3 hours ago

slin023 • 0

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