Hi,
I got the bellow error from diamond while reaching annotation section for demo.fna file:
###########
[Fri Dec 24 18:50:50 2021] Running: /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/bin/perl /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/annotCDs.pl --dbdir /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db --cpus 8 --evalue 1e-05 --identity 20 --coverage 70 --hmmcutoff --cut_ga --hmmevalue 1e-5 --outdir metaergtest/tmp metaergtest/tmp/cds.faa
[Fri Dec 24 18:50:51 2021] Running: diamond blastp --quiet --masking 1 -p 8 -q metaergtest/tmp/cds.faa -d /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/diamond/uniprot_sprot -e 1e-05 --tmpdir /dev/shm -f 6 qseqid sseqid qlen qstart qend sstart send qframe pident bitscore evalue qcovhsp > metaergtest/tmp/uniprot_sprot.blasttable 2> /dev/null
sh: line 1: 30069 Illegal instruction diamond blastp --quiet --masking 1 -p 8 -q metaergtest/tmp/cds.faa -d /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/diamond/uniprot_sprot -e 1e-05 --tmpdir /dev/shm -f 6 qseqid sseqid qlen qstart qend sstart send qframe pident bitscore evalue qcovhsp > metaergtest/tmp/uniprot_sprot.blasttable 2> /dev/null
[Fri Dec 24 18:50:51 2021] Could not run command:diamond blastp --quiet --masking 1 -p 8 -q metaergtest/tmp/cds.faa -d /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/diamond/uniprot_sprot -e 1e-05 --tmpdir /dev/shm -f 6 qseqid sseqid qlen qstart qend sstart send qframe pident bitscore evalue qcovhsp > metaergtest/tmp/uniprot_sprot.blasttable 2> /dev/null, No such file or directory
[Fri Dec 24 18:50:51 2021] Running: diamond blastp --quiet --masking 0 -p 8 -q metaergtest/tmp/cds.faa -d /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/diamond/genomedb -e 1e-05 --tmpdir /dev/shm -f 6 qseqid sseqid qlen qstart qend sstart send qframe pident bitscore evalue qcovhsp > metaergtest/tmp/genomedb.blasttable 2> /dev/null
sh: line 1: 30072 Illegal instruction diamond blastp --quiet --masking 0 -p 8 -q metaergtest/tmp/cds.faa -d /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/diamond/genomedb -e 1e-05 --tmpdir /dev/shm -f 6 qseqid sseqid qlen qstart qend sstart send qframe pident bitscore evalue qcovhsp > metaergtest/tmp/genomedb.blasttable 2> /dev/null
[Fri Dec 24 18:50:51 2021] Could not run command:diamond blastp --quiet --masking 0 -p 8 -q metaergtest/tmp/cds.faa -d /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/diamond/genomedb -e 1e-05 --tmpdir /dev/shm -f 6 qseqid sseqid qlen qstart qend sstart send qframe pident bitscore evalue qcovhsp > metaergtest/tmp/genomedb.blasttable 2> /dev/null, No such file or directory
[Fri Dec 24 18:50:51 2021] Running: hmmsearch --notextw --acc --cut_ga --cpu 8 --tblout metaergtest/tmp/Pfam-A.hmm.tblout /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/hmm/Pfam-A.hmm metaergtest/tmp/cds.faa > /dev/null 2>&1
[Fri Dec 24 18:50:51 2021] Running: hmmsearch --notextw --acc --cut_ga --cpu 8 --tblout metaergtest/tmp/TIGRFAMs.hmm.tblout /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/hmm/TIGRFAMs.hmm metaergtest/tmp/cds.faa > /dev/null 2>&1
[Fri Dec 24 18:50:51 2021] Running: hmmsearch --notextw --acc -E 1e-5 --domE 1e-5 --incE 1e-5 --incdomE 1e-5 --cpu 8 --tblout metaergtest/tmp/metabolic.hmm.tblout /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/hmm/metabolic.hmm metaergtest/tmp/cds.faa > /dev/null 2>&1
Perl exited with active threads:
6 running and unjoined
0 finished and unjoined
0 running and detached
[Fri Dec 24 18:50:51 2021] Could not run command:/gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/bin/perl /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/annotCDs.pl --dbdir /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db --cpus 8 --evalue 1e-05 --identity 20 --coverage 70 --hmmcutoff --cut_ga --hmmevalue 1e-5 --outdir metaergtest/tmp metaergtest/tmp/cds.faa,
#######
Command used in terminal
metaerg.pl --depth /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/example/demo.depth.txt /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/example/demo.fna --sp --tm --outdir "metaergtest" --cpus 8
Hi,
I got the bellow error from diamond while reaching annotation section for demo.fna file:
###########
[Fri Dec 24 18:50:50 2021] Running: /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/bin/perl /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/annotCDs.pl --dbdir /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db --cpus 8 --evalue 1e-05 --identity 20 --coverage 70 --hmmcutoff --cut_ga --hmmevalue 1e-5 --outdir metaergtest/tmp metaergtest/tmp/cds.faa
[Fri Dec 24 18:50:51 2021] Running: diamond blastp --quiet --masking 1 -p 8 -q metaergtest/tmp/cds.faa -d /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/diamond/uniprot_sprot -e 1e-05 --tmpdir /dev/shm -f 6 qseqid sseqid qlen qstart qend sstart send qframe pident bitscore evalue qcovhsp > metaergtest/tmp/uniprot_sprot.blasttable 2> /dev/null
sh: line 1: 30069 Illegal instruction diamond blastp --quiet --masking 1 -p 8 -q metaergtest/tmp/cds.faa -d /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/diamond/uniprot_sprot -e 1e-05 --tmpdir /dev/shm -f 6 qseqid sseqid qlen qstart qend sstart send qframe pident bitscore evalue qcovhsp > metaergtest/tmp/uniprot_sprot.blasttable 2> /dev/null
[Fri Dec 24 18:50:51 2021] Could not run command:diamond blastp --quiet --masking 1 -p 8 -q metaergtest/tmp/cds.faa -d /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/diamond/uniprot_sprot -e 1e-05 --tmpdir /dev/shm -f 6 qseqid sseqid qlen qstart qend sstart send qframe pident bitscore evalue qcovhsp > metaergtest/tmp/uniprot_sprot.blasttable 2> /dev/null, No such file or directory
[Fri Dec 24 18:50:51 2021] Running: diamond blastp --quiet --masking 0 -p 8 -q metaergtest/tmp/cds.faa -d /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/diamond/genomedb -e 1e-05 --tmpdir /dev/shm -f 6 qseqid sseqid qlen qstart qend sstart send qframe pident bitscore evalue qcovhsp > metaergtest/tmp/genomedb.blasttable 2> /dev/null
sh: line 1: 30072 Illegal instruction diamond blastp --quiet --masking 0 -p 8 -q metaergtest/tmp/cds.faa -d /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/diamond/genomedb -e 1e-05 --tmpdir /dev/shm -f 6 qseqid sseqid qlen qstart qend sstart send qframe pident bitscore evalue qcovhsp > metaergtest/tmp/genomedb.blasttable 2> /dev/null
[Fri Dec 24 18:50:51 2021] Could not run command:diamond blastp --quiet --masking 0 -p 8 -q metaergtest/tmp/cds.faa -d /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/diamond/genomedb -e 1e-05 --tmpdir /dev/shm -f 6 qseqid sseqid qlen qstart qend sstart send qframe pident bitscore evalue qcovhsp > metaergtest/tmp/genomedb.blasttable 2> /dev/null, No such file or directory
[Fri Dec 24 18:50:51 2021] Running: hmmsearch --notextw --acc --cut_ga --cpu 8 --tblout metaergtest/tmp/Pfam-A.hmm.tblout /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/hmm/Pfam-A.hmm metaergtest/tmp/cds.faa > /dev/null 2>&1
[Fri Dec 24 18:50:51 2021] Running: hmmsearch --notextw --acc --cut_ga --cpu 8 --tblout metaergtest/tmp/TIGRFAMs.hmm.tblout /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/hmm/TIGRFAMs.hmm metaergtest/tmp/cds.faa > /dev/null 2>&1
[Fri Dec 24 18:50:51 2021] Running: hmmsearch --notextw --acc -E 1e-5 --domE 1e-5 --incE 1e-5 --incdomE 1e-5 --cpu 8 --tblout metaergtest/tmp/metabolic.hmm.tblout /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db/hmm/metabolic.hmm metaergtest/tmp/cds.faa > /dev/null 2>&1
Perl exited with active threads:
6 running and unjoined
0 finished and unjoined
0 running and detached
[Fri Dec 24 18:50:51 2021] Could not run command:/gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/bin/perl /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/annotCDs.pl --dbdir /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/bin/../db --cpus 8 --evalue 1e-05 --identity 20 --coverage 70 --hmmcutoff --cut_ga --hmmevalue 1e-5 --outdir metaergtest/tmp metaergtest/tmp/cds.faa,
#######
Command used in terminal
metaerg.pl --depth /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/example/demo.depth.txt /gpfs0/biores/users/tarun/miniconda3/envs/metaerginstall/metaerg/example/demo.fna --sp --tm --outdir "metaergtest" --cpus 8