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*** ERROR *** Cannot convert "ident_min" to number #159

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Raffihisyam opened this issue Dec 19, 2024 · 1 comment
Open

*** ERROR *** Cannot convert "ident_min" to number #159

Raffihisyam opened this issue Dec 19, 2024 · 1 comment
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usage The answer has to do with knowing how to run or interpret output

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@Raffihisyam
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i run on stomics DCS cloud with this command
/opt/conda/bin/amrfinder -i myfasta/AM10.bin.16.fa -o /data/output -d /data/input/Files/mydb/AMRFinder2023_db

but i got error like this

*** ERROR ***
Cannot convert "ident_min" to number

anyone can understand about this issue? my amrfinder is 3.11.2 version i install it via conda

@vbrover
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vbrover commented Dec 19, 2024

$ amrfinder --help
...
-i MIN_IDENT, --ident_min MIN_IDENT
    Minimum proportion of identical amino acids in alignment for hit (0..1). -1 means use a curated threshold if it exists and 0.9 otherwise
    Default: -1
...

Probably -i should be replaced by -p or -n.

@evolarjun evolarjun added the usage The answer has to do with knowing how to run or interpret output label Feb 3, 2025
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