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Error on the docker run #52

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vebaev opened this issue Jan 11, 2024 · 0 comments
Open

Error on the docker run #52

vebaev opened this issue Jan 11, 2024 · 0 comments

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@vebaev
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vebaev commented Jan 11, 2024

I got error on running docker with default options showed in the main page:

`[15:52:56] Command: /usr/bin/perl /NGStools/metaerg/bin/rna2taxon.pl --dbdir /data/db/blast --cpus 8 --dbtype ssu --evalue 1e-05 --identities 70,80,85,90,95,97,99 --coverage 80 /data/h_bact_metaerg_output2/tmp/16SrRNA.ffn > /data/h_bact_metaerg_output2/tmp/16SrRNA.tax.txt
[15:52:56] blastn -query /data/h_bact_metaerg_output2/tmp/16SrRNA.ffn -db /data/db/blast/silva_SSURef_Nr99.fasta -dust no -num_threads 8 -evalue 1e-05 -out /data/h_bact_metaerg_output2/tmp/16SrRNA.ffn.blastn.outfmt7.txt -outfmt "7 qseqid qlen slen qstart qend sstart send length qcovhsp pident evalue bitscore stitle" -max_target_seqs 5

[15:52:56] Running: blastn -query /data/h_bact_metaerg_output2/tmp/16SrRNA.ffn -db /data/db/blast/silva_SSURef_Nr99.fasta -dust no -num_threads 8 -evalue 1e-05 -out /data/h_bact_metaerg_output2/tmp/16SrRNA.ffn.blastn.outfmt7.txt -outfmt "7 qseqid qlen slen qstart qend sstart send length qcovhsp pident evalue bitscore stitle" -max_target_seqs 5
BLAST Database error: No alias or index file found for nucleotide database [/data/db/blast/silva_SSURef_Nr99.fasta] in search path [/NGStools::]
[15:52:56] Could not run command: blastn -query /data/h_bact_metaerg_output2/tmp/16SrRNA.ffn -db /data/db/blast/silva_SSURef_Nr99.fasta -dust no -num_threads 8 -evalue 1e-05 -out /data/h_bact_metaerg_output2/tmp/16SrRNA.ffn.blastn.outfmt7.txt -outfmt "7 qseqid qlen slen qstart qend sstart send length qcovhsp pident evalue bitscore stitle" -max_target_seqs 5
Could not execute cmd=/usr/bin/perl /NGStools/metaerg/bin/rna2taxon.pl --dbdir /data/db/blast --cpus 8 --dbtype ssu --evalue 1e-05 --identities 70,80,85,90,95,97,99 --coverage 80 /data/h_bact_metaerg_output2/tmp/16SrRNA.ffn > /data/h_bact_metaerg_output2/tmp/16SrRNA.tax.txt, No such file or directory
[Thu Jan 11 15:52:56 2024] Could not run command:/NGStools/metaerg/bin/rRNAFinder.pl --dbdir /data/db --threads 8 --evalue 1e-05 --domain meta --outdir /data/h_bact_metaerg_output2/tmp /data/h_bact_metaerg_output2/tmp/metaerg.pl_01112024.tRNA.masked.fna, No such file or directory

[Thu Jan 11 15:52:57 2024] Could not run command:/usr/bin/perl /NGStools/metaerg/bin/predictFeatures.pl --dbdir /data/db --evalue 1e-05 --gtype meta --gc 11 --minorflen 180 --prefix metaerg.pl_01112024 --cpus 8 --outdir /data/h_bact_metaerg_output2/tmp --force /data/h_bact_metaerg_output2/metaerg.pl_01112024.fna, No such file or directory`

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