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Error: Invalid parameter count for option '--tmpdir' #803

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lhxaurora opened this issue May 4, 2024 · 1 comment
Open

Error: Invalid parameter count for option '--tmpdir' #803

lhxaurora opened this issue May 4, 2024 · 1 comment

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@lhxaurora
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Greeting!

I am trying to run Diamond (version=2.1.9) via the cluster, I smoothly created the database, but cannot avoid "Error: Invalid parameter count for option '--tmpdir'" problem no matter how did I set this parameter. here is the command I have tried:

diamond blastp -threads 20 -q C0_6_aa.fasta -d nr.dmnd -o C0_6_aa_vs_nr_blt.txt --max-target-seqs 10 -evalue 1e-5 --outfmt 6 qseqid qlen sseqid stitle slen pident length mismatch gapopen qstart qend sstart send evalue bitscore -t ./tmp
diamond blastp -threads 20 -q C0_6_aa.fasta -d nr.dmnd -o C0_6_aa_vs_nr_blt.txt --max-target-seqs 10 -evalue 1e-5 --outfmt 6 qseqid qlen sseqid stitle slen pident length mismatch gapopen qstart qend sstart send evalue bitscore
diamond blastp -threads 20 -q C0_6_aa.fasta -d nr.dmnd -o C0_6_aa_vs_nr_blt.txt --max-target-seqs 10 -evalue 1e-5 --outfmt 6 qseqid qlen sseqid stitle slen pident length mismatch gapopen qstart qend sstart send evalue bitscore -t /dev/shm

I have already checked that for each of the dictionary, there are enough space (>100G), could anyone kindly help me with solving this problem, thanks so much!

@bbuchfink
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The problem is -evalue should be --evalue

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