[10:41:27] Command: --force --outdir /home/yquentin/work/wolbachia/prokka/wNo --addgenes --prefix wNo --locustag wNo --species Wolbachia endosymbiont --strain wNo --compliant --quiet /home/yquentin/work/wolbachia/prokka/wNo.fna
[10:41:27] Looking for 'aragorn' - found /usr/local/bioinfo/bin/aragorn
[10:41:27] Determined aragorn version is 1.2
[10:41:27] Looking for 'barrnap' - found /usr/local/bioinfo/bin/barrnap
[10:41:27] Determined barrnap version is 0.5
[10:41:27] Looking for 'blastp' - found /usr/local/bioinfo/src/NCBI_Blast+/ncbi-blast-2.6.0+/bin/blastp
[10:41:27] Determined blastp version is 2.6
[10:41:27] Looking for 'cmpress' - found /usr/local/bioinfo/src/PROKKA/prokka-1.10/bin/../binaries/linux/cmpress
[10:41:27] Determined cmpress version is 1.1
[10:41:27] Looking for 'cmscan' - found /usr/local/bioinfo/src/PROKKA/prokka-1.10/bin/../binaries/linux/cmscan
[10:41:27] Determined cmscan version is 1.1
[10:41:27] Looking for 'egrep' - found /bin/egrep
[10:41:27] Looking for 'find' - found /bin/find
[10:41:27] Looking for 'grep' - found /bin/grep
[10:41:27] Looking for 'hmmpress' - found /usr/local/bioinfo/bin/hmmpress
[10:41:27] Determined hmmpress version is 3.1
[10:41:27] Looking for 'hmmscan' - found /usr/local/bioinfo/bin/hmmscan
[10:41:27] Determined hmmscan version is 3.1
[10:41:27] Looking for 'less' - found /usr/bin/less
[10:41:27] Looking for 'makeblastdb' - found /usr/local/bioinfo/src/NCBI_Blast+/ncbi-blast-2.6.0+/bin/makeblastdb
[10:41:28] Determined makeblastdb version is 2.6
[10:41:28] Looking for 'minced' - found /usr/local/bioinfo/bin/minced
[10:41:28] Determined minced version is 1.6
[10:41:28] Looking for 'parallel' - found /usr/local/bioinfo/bin/parallel
[10:41:28] Determined parallel version is 20141022
[10:41:28] Looking for 'prodigal' - found /usr/local/bioinfo/bin/prodigal
[10:41:28] Determined prodigal version is 2.6
[10:41:28] Looking for 'rnammer' - found /usr/local/bioinfo/bin/rnammer
[10:41:28] Determined rnammer version is 1.2
[10:41:28] Looking for 'sed' - found /bin/sed
[10:41:28] Looking for 'signalp' - found /usr/local/bioinfo/bin/signalp
[10:41:28] Determined signalp version is 4.1
[10:41:28] Looking for 'tbl2asn' - found /home/yquentin/save/scripts/tbl2asn
[10:41:28] Determined tbl2asn version is 25.3
[10:41:28] Using genetic code table 11.
[10:41:28] Loading and checking input file: /home/yquentin/work/wolbachia/prokka/wNo.fna
[10:41:28] Wrote 1 contigs
[10:41:28] Predicting tRNAs and tmRNAs
[10:41:28] Running: aragorn -gc11  -w \/home\/yquentin\/work\/wolbachia\/prokka\/wNo\/wNo\.fna
[10:41:29] 1 tRNA-Arg [51165,51239] 35 (cct)
[10:41:29] 2 tRNA-Phe [108676,108749] 34 (gaa)
[10:41:29] 3 tRNA-Thr [216804,216877] 34 (tgt)
[10:41:29] 4 tRNA-Asn c[275837,275909] 33 (gtt)
[10:41:29] 5 tRNA-Trp c[306534,306607] 34 (cca)
[10:41:29] 6 tRNA-Leu [313586,313668] 35 (tag)
[10:41:29] 7 tRNA-His c[404671,404746] 34 (gtg)
[10:41:29] 8 tRNA-Met [421867,421939] 33 (cat)
[10:41:29] 9 tRNA-Gln c[426385,426457] 33 (ttg)
[10:41:29] 10 tRNA-Met c[431997,432073] 35 (cat)
[10:41:29] 11 tRNA-Gly [433291,433364] 34 (gcc)
[10:41:29] 12 tRNA-Ser [440870,440957] 35 (gga)
[10:41:29] 13 tRNA-Ser [545019,545111] 36 (gct)
[10:41:29] 14 tRNA-Arg [554666,554741] 36 (ccg)
[10:41:29] 15 tRNA-Met [597362,597438] 35 (cat)
[10:41:29] 16 tRNA-Thr c[615425,615498] 34 (ggt)
[10:41:29] 17 tRNA-Glu [645342,645414] 34 (ttc)
[10:41:29] 18 tRNA-Pro [646263,646338] 36 (tgg)
[10:41:29] 19 tRNA-Val [653398,653470] 34 (tac)
[10:41:29] 20 tRNA-Ser [660445,660530] 35 (cag)
[10:41:29] 21 tRNA-Cys [720807,720879] 34 (gca)
[10:41:29] 22 tRNA-Ala c[784299,784374] 34 (tgc)
[10:41:29] 23 tRNA-Lys [784674,784747] 34 (ttt)
[10:41:29] 24 tRNA-Ser [790715,790803] 35 (tga)
[10:41:29] 25 tRNA-Arg c[828332,828407] 36 (tct)
[10:41:29] 26 tRNA-Val [854785,854858] 34 (gac)
[10:41:29] 27 tRNA-Ile [889590,889666] 35 (gat)
[10:41:29] 28 tRNA-Tyr [911936,912019] 36 (gta)
[10:41:29] 29 tRNA-Gly [912023,912094] 33 (tcc)
[10:41:29] 30 tRNA-Asp c[971460,971536] 35 (gtc)
[10:41:29] 31 tRNA-Leu [1030237,1030320] 34 (caa)
[10:41:29] 32 tmRNA* [1042329,1042663] 194,244 ANDNNFAAEDNVELAA*
[10:41:29] 33 tRNA-Leu [1203451,1203538] 35 (gag)
[10:41:29] 34 tRNA-Leu c[1247702,1247788] 35 (taa)
[10:41:29] 35 tRNA-Arg c[1256663,1256740] 36 (acg)
[10:41:29] Found 35 tRNAs
[10:41:29] Predicting Ribosomal RNAs
[10:41:29] Running Barrnap with 8 threads
[10:41:30] 1 gnl|Prokka|wNo_contig000001 703863 16S ribosomal RNA
[10:41:30] 2 gnl|Prokka|wNo_contig000001 897509 23S ribosomal RNA
[10:41:30] 3 gnl|Prokka|wNo_contig000001 900339 5S ribosomal RNA
[10:41:30] Found 3 rRNAs
[10:41:30] Skipping ncRNA search, enable with --rfam if desired.
[10:41:30] Total of 37 tRNA + rRNA features
[10:41:30] Searching for CRISPR repeats
[10:41:30] Found 0 CRISPRs
[10:41:30] Predicting coding sequences
[10:41:30] Contigs total 1301823 bp, so using single mode
[10:41:30] Running: prodigal -i \/home\/yquentin\/work\/wolbachia\/prokka\/wNo\/wNo\.fna -c -m -g 11 -p single -f sco -q
[10:41:32] Excluding CDS which overlaps existing RNA (tRNA) at gnl|Prokka|wNo_contig000001:420575..421876 on + strand
[10:41:32] Excluding CDS which overlaps existing RNA (tRNA) at gnl|Prokka|wNo_contig000001:421863..421991 on + strand
[10:41:32] Excluding CDS which overlaps existing RNA (tRNA) at gnl|Prokka|wNo_contig000001:426448..426783 on - strand
[10:41:32] Excluding CDS which overlaps existing RNA (rRNA) at gnl|Prokka|wNo_contig000001:705009..705260 on + strand
[10:41:33] Excluding CDS which overlaps existing RNA (rRNA) at gnl|Prokka|wNo_contig000001:898339..898611 on + strand
[10:41:33] Found 1220 CDS
[10:41:33] Connecting features back to sequences
[10:41:33] Option --gram not specified, will NOT check for signal peptides.
[10:41:33] Not using genus-specific database. Try --usegenus to enable it.
[10:41:33] Annotating CDS, please be patient.
[10:41:33] Will use 8 CPUs for similarity searching.
[10:41:33] There are still 1220 unannotated CDS left (started with 1220)
[10:41:33] Will use blast to search against /usr/local/bioinfo/src/PROKKA/prokka-1.10/bin/../db/kingdom/Bacteria/sprot with 8 CPUs
[10:41:33] Running: cat \/home\/yquentin\/work\/wolbachia\/prokka\/wNo\/proteins\.faa | parallel --gnu -j 8 --block 24059 --recstart '>' --pipe blastp -query - -db /usr/local/bioinfo/src/PROKKA/prokka-1.10/bin/../db/kingdom/Bacteria/sprot -evalue 1e-06 -num_threads 1 -num_descriptions 1 -num_alignments 1 -seg no > \/home\/yquentin\/work\/wolbachia\/prokka\/wNo\/proteins\.bls 2> /dev/null
[10:41:46] Modify product: Probable phospholipid ABC transporter-binding protein MlaD => putative phospholipid ABC transporter-binding protein MlaD
[10:41:46] Modify product: Probable chromosome-partitioning protein ParB => putative chromosome-partitioning protein ParB
[10:41:46] Modify product: Probable tRNA-dihydrouridine synthase => putative tRNA-dihydrouridine synthase
[10:41:46] Modify product: Transcription termination/antitermination protein NusG => hypothetical protein
[10:41:46] Modify product: Uncharacterized zinc protease Rv2782c => putative zinc protease
[10:41:46] Modify product: Uncharacterized zinc protease Rv2782c => putative zinc protease
[10:41:46] Modify product: Actin-binding protein Smlt3054 => Actin-binding protein
[10:41:46] Modify product: Transcription termination factor Rho => hypothetical protein
[10:41:46] Modify product: Putative multidrug export ATP-binding/permease protein SAV1866 => Putative multidrug export ATP-binding/permease protein
[10:41:47] Modify product: Probable murein peptide carboxypeptidase => putative murein peptide carboxypeptidase
[10:41:47] Modify product: Bifunctional protein FolD => Bifunctional protein FolD protein
[10:41:47] Modify product: Uncharacterized zinc protease Rv2782c => putative zinc protease
[10:41:47] Modify product: Cytochrome b561 homolog 2 => hypothetical protein
[10:41:47] Modify product: N utilization substance protein B homolog => hypothetical protein
[10:41:47] Modify product: Probable acyltransferase YihG => putative acyltransferase YihG
[10:41:47] Modify product: Uncharacterized oxidoreductase YciK => putative oxidoreductase YciK
[10:41:47] Modify product: Actin-binding protein Smlt3054 => Actin-binding protein
[10:41:47] Modify product: Probable GTP-binding protein EngB => putative GTP-binding protein EngB
[10:41:47] Modify product: Probable protein kinase UbiB => putative protein kinase UbiB
[10:41:47] Modify product: Putative O-methyltransferase MSMEG_5073/MSMEI_4947 => Putative O-methyltransferase/MSMEI_4947
[10:41:47] Modify product: Stringent starvation protein A homolog => hypothetical protein
[10:41:47] Modify product: SCO1 protein homolog => hypothetical protein
[10:41:47] Modify product: Probable peroxiredoxin => putative peroxiredoxin
[10:41:47] Modify product: Riboflavin biosynthesis protein VVA0006 => Riboflavin biosynthesis protein
[10:41:47] Modify product: Actin-binding protein Smlt3054 => Actin-binding protein
[10:41:47] Modify product: Uncharacterized metal-dependent hydrolase YcfH => putative metal-dependent hydrolase YcfH
[10:41:47] Modify product: Probable phospholipid ABC transporter permease protein MlaE => putative phospholipid ABC transporter permease protein MlaE
[10:41:47] Modify product: Probable ribonucleotide transport ATP-binding protein mkl => putative ribonucleotide transport ATP-binding protein mkl
[10:41:47] Modify product: Probable glycerol-3-phosphate acyltransferase => putative glycerol-3-phosphate acyltransferase
[10:41:47] Modify product: Co-chaperone protein HscB homolog => hypothetical protein
[10:41:47] Modify product: Transcription termination/antitermination protein NusA => hypothetical protein
[10:41:47] Modify product: Probable transcriptional regulatory protein aq_1575 => putative transcriptional regulatory protein
[10:41:47] Modify product: Putative multidrug export ATP-binding/permease protein SAV1866 => Putative multidrug export ATP-binding/permease protein
[10:41:47] Cleaned 33 /product names
[10:41:47] Deleting unwanted file: /home/yquentin/work/wolbachia/prokka/wNo/proteins.faa
[10:41:47] Deleting unwanted file: /home/yquentin/work/wolbachia/prokka/wNo/proteins.bls
[10:41:48] There are still 599 unannotated CDS left (started with 1220)
[10:41:48] Will use hmmer3 to search against /usr/local/bioinfo/src/PROKKA/prokka-1.10/bin/../db/hmm/HAMAP.hmm with 8 CPUs
[10:41:48] Running: cat \/home\/yquentin\/work\/wolbachia\/prokka\/wNo\/proteins\.faa | parallel --gnu -j 8 --block 9655 --recstart '>' --pipe hmmscan --noali --notextw --acc -E 1e-06 --cpu 1 /usr/local/bioinfo/src/PROKKA/prokka-1.10/bin/../db/hmm/HAMAP.hmm /dev/stdin > \/home\/yquentin\/work\/wolbachia\/prokka\/wNo\/proteins\.bls 2> /dev/null
[10:41:55] Deleting unwanted file: /home/yquentin/work/wolbachia/prokka/wNo/proteins.faa
[10:41:55] Deleting unwanted file: /home/yquentin/work/wolbachia/prokka/wNo/proteins.bls
[10:41:56] There are still 563 unannotated CDS left (started with 1220)
[10:41:56] Will use hmmer3 to search against /usr/local/bioinfo/src/PROKKA/prokka-1.10/bin/../db/hmm/CLUSTERS.hmm with 8 CPUs
[10:41:56] Running: cat \/home\/yquentin\/work\/wolbachia\/prokka\/wNo\/proteins\.faa | parallel --gnu -j 8 --block 8830 --recstart '>' --pipe hmmscan --noali --notextw --acc -E 1e-06 --cpu 1 /usr/local/bioinfo/src/PROKKA/prokka-1.10/bin/../db/hmm/CLUSTERS.hmm /dev/stdin > \/home\/yquentin\/work\/wolbachia\/prokka\/wNo\/proteins\.bls 2> /dev/null
[10:42:17] Deleting unwanted file: /home/yquentin/work/wolbachia/prokka/wNo/proteins.faa
[10:42:17] Deleting unwanted file: /home/yquentin/work/wolbachia/prokka/wNo/proteins.bls
[10:42:17] There are still 529 unannotated CDS left (started with 1220)
[10:42:17] Will use hmmer3 to search against /usr/local/bioinfo/src/PROKKA/prokka-1.10/bin/../db/hmm/Pfam.hmm with 8 CPUs
[10:42:17] Running: cat \/home\/yquentin\/work\/wolbachia\/prokka\/wNo\/proteins\.faa | parallel --gnu -j 8 --block 8363 --recstart '>' --pipe hmmscan --noali --notextw --acc -E 1e-06 --cpu 1 /usr/local/bioinfo/src/PROKKA/prokka-1.10/bin/../db/hmm/Pfam.hmm /dev/stdin > \/home\/yquentin\/work\/wolbachia\/prokka\/wNo\/proteins\.bls 2> /dev/null
[10:42:40] Modify product: PAS domain => PAS domain protein
[10:42:40] Modify product: DnaJ domain => DnaJ domain protein
[10:42:40] Modify product: RDD family => RDD family protein
[10:42:40] Modify product: Ulp1 protease family, C-terminal catalytic domain => hypothetical protein
[10:42:40] Modify product: EVE domain => EVE domain protein
[10:42:40] Modify product: Transposase DDE domain => Transposase DDE domain protein
[10:42:40] Modify product: Transposase IS116/IS110/IS902 family => Transposase IS116/IS110/IS902 family protein
[10:42:40] Modify product: COQ9 => hypothetical protein
[10:42:40] Modify product: Transposase IS116/IS110/IS902 family => Transposase IS116/IS110/IS902 family protein
[10:42:40] Modify product: Terminase-like family => Terminase-like family protein
[10:42:40] Modify product: Transposase IS116/IS110/IS902 family => Transposase IS116/IS110/IS902 family protein
[10:42:40] Modify product: Ankyrin repeat => Ankyrin repeat protein
[10:42:40] Modify product: Major Facilitator Superfamily => Major Facilitator Superfamily protein
[10:42:40] Modify product: Transposase IS116/IS110/IS902 family => Transposase IS116/IS110/IS902 family protein
[10:42:40] Modify product: KAP family P-loop domain => KAP family P-loop domain protein
[10:42:40] Modify product: Alpha/beta hydrolase family => Alpha/beta hydrolase family protein
[10:42:40] Modify product: Ankyrin repeat => Ankyrin repeat protein
[10:42:40] Modify product: RmlD substrate binding domain => RmlD substrate binding domain protein
[10:42:40] Modify product: Ankyrin repeat => Ankyrin repeat protein
[10:42:40] Modify product: Ankyrin repeat => Ankyrin repeat protein
[10:42:40] Modify product: Ankyrin repeat => Ankyrin repeat protein
[10:42:40] Modify product: Phage capsid family => Phage capsid family protein
[10:42:40] Modify product: Ankyrin repeat => Ankyrin repeat protein
[10:42:40] Modify product: PAAR motif => PAAR motif protein
[10:42:40] Modify product: Transposase IS116/IS110/IS902 family => Transposase IS116/IS110/IS902 family protein
[10:42:40] Modify product: Integral membrane protein TerC family => Integral membrane protein TerC family protein
[10:42:40] Modify product: Na+/H+ antiporter family => Na+/H+ antiporter family protein
[10:42:40] Modify product: Transposase IS116/IS110/IS902 family => Transposase IS116/IS110/IS902 family protein
[10:42:40] Modify product: SPFH domain / Band 7 family => SPFH domain / Band 7 family protein
[10:42:40] Modify product: Ankyrin repeat => Ankyrin repeat protein
[10:42:40] Modify product: Transposase IS116/IS110/IS902 family => Transposase IS116/IS110/IS902 family protein
[10:42:40] Modify product: Terminase-like family => Terminase-like family protein
[10:42:40] Modify product: Transposase IS116/IS110/IS902 family => Transposase IS116/IS110/IS902 family protein
[10:42:40] Modify product: TrbC/VIRB2 family => TrbC/VIRB2 family protein
[10:42:40] Modify product: Transposase IS116/IS110/IS902 family => Transposase IS116/IS110/IS902 family protein
[10:42:40] Modify product: AhpC/TSA family => AhpC/TSA family protein
[10:42:40] Modify product: Transposase IS116/IS110/IS902 family => Transposase IS116/IS110/IS902 family protein
[10:42:40] Modify product: Piwi/Argonaute/Zwille siRNA-binding domain => Piwi/Argonaute/Zwille siRNA-binding domain protein
[10:42:40] Modify product: Alpha/beta hydrolase family => Alpha/beta hydrolase family protein
[10:42:40] Modify product: ETC complex I subunit conserved region => hypothetical protein
[10:42:40] Modify product: Uracil DNA glycosylase superfamily => Uracil DNA glycosylase superfamily protein
[10:42:40] Modify product: Transposase IS116/IS110/IS902 family => Transposase IS116/IS110/IS902 family protein
[10:42:40] Modify product: Tetratricopeptide repeat => Tetratricopeptide repeat protein
[10:42:40] Modify product: Tim44-like domain => Tim44-like domain protein
[10:42:40] Modify product: Transposase IS116/IS110/IS902 family => Transposase IS116/IS110/IS902 family protein
[10:42:40] Modify product: Piwi/Argonaute/Zwille siRNA-binding domain => Piwi/Argonaute/Zwille siRNA-binding domain protein
[10:42:40] Modify product: MgtE intracellular N domain => MgtE intracellular N domain protein
[10:42:40] Modify product: Transposase IS116/IS110/IS902 family => Transposase IS116/IS110/IS902 family protein
[10:42:40] Modify product: TrbC/VIRB2 family => TrbC/VIRB2 family protein
[10:42:40] Modify product: Transposase IS116/IS110/IS902 family => Transposase IS116/IS110/IS902 family protein
[10:42:40] Modify product: PAAR motif => PAAR motif protein
[10:42:40] Modify product: Ankyrin repeat => Ankyrin repeat protein
[10:42:40] Modify product: Integrase core domain => Integrase core domain protein
[10:42:40] Modify product: Kelch motif => Kelch motif protein
[10:42:40] Modify product: Ankyrin repeat => Ankyrin repeat protein
[10:42:40] Modify product: Ankyrin repeat => Ankyrin repeat protein
[10:42:40] Modify product: TrbC/VIRB2 family => TrbC/VIRB2 family protein
[10:42:40] Modify product: RDD family => RDD family protein
[10:42:40] Modify product: RDD family => RDD family protein
[10:42:40] Modify product: SURF1 family => SURF1 family protein
[10:42:40] Modify product: YGGT family => YGGT family protein
[10:42:40] Modify product: Transposase IS116/IS110/IS902 family => Transposase IS116/IS110/IS902 family protein
[10:42:40] Modify product: Sodium:dicarboxylate symporter family => Sodium:dicarboxylate symporter family protein
[10:42:40] Modify product: Na+/H+ antiporter family => Na+/H+ antiporter family protein
[10:42:40] Cleaned 64 /product names
[10:42:40] Deleting unwanted file: /home/yquentin/work/wolbachia/prokka/wNo/proteins.faa
[10:42:40] Deleting unwanted file: /home/yquentin/work/wolbachia/prokka/wNo/proteins.bls
[10:42:40] Labelling remaining 366 proteins as 'hypothetical protein'
[10:42:40] Possible /pseudo 'Transposase, Mutator family' at gnl|Prokka|wNo_contig000001 position 122366
[10:42:40] Possible /pseudo 'Ankyrin repeat protein' at gnl|Prokka|wNo_contig000001 position 125511
[10:42:40] Possible /pseudo 'putative zinc protease' at gnl|Prokka|wNo_contig000001 position 183793
[10:42:40] Possible /pseudo 'L-allo-threonine aldolase' at gnl|Prokka|wNo_contig000001 position 226774
[10:42:40] Possible /pseudo 'Group II intron-encoded protein LtrA' at gnl|Prokka|wNo_contig000001 position 241888
[10:42:40] Possible /pseudo 'TrbL/VirB6 plasmid conjugal transfer protein' at gnl|Prokka|wNo_contig000001 position 344677
[10:42:40] Possible /pseudo 'TrbL/VirB6 plasmid conjugal transfer protein' at gnl|Prokka|wNo_contig000001 position 347568
[10:42:40] Possible /pseudo 'TrbL/VirB6 plasmid conjugal transfer protein' at gnl|Prokka|wNo_contig000001 position 350006
[10:42:40] Possible /pseudo 'Ankyrin repeat protein' at gnl|Prokka|wNo_contig000001 position 409990
[10:42:40] Possible /pseudo 'Arginine/agmatine antiporter' at gnl|Prokka|wNo_contig000001 position 450011
[10:42:40] Possible /pseudo 'Ankyrin repeats (3 copies)' at gnl|Prokka|wNo_contig000001 position 457477
[10:42:40] Possible /pseudo 'Ankyrin repeats (3 copies)' at gnl|Prokka|wNo_contig000001 position 458875
[10:42:40] Possible /pseudo 'anaerobic benzoate catabolism transcriptional regulator' at gnl|Prokka|wNo_contig000001 position 589929
[10:42:40] Possible /pseudo 'anaerobic benzoate catabolism transcriptional regulator' at gnl|Prokka|wNo_contig000001 position 593063
[10:42:40] Possible /pseudo 'Formamidopyrimidine-DNA glycosylase' at gnl|Prokka|wNo_contig000001 position 616107
[10:42:40] Possible /pseudo 'Amino-acid carrier protein AlsT' at gnl|Prokka|wNo_contig000001 position 859757
[10:42:40] Possible /pseudo 'Aminopyrimidine aminohydrolase' at gnl|Prokka|wNo_contig000001 position 891687
[10:42:40] Possible /pseudo 'DNA mismatch repair protein MutL' at gnl|Prokka|wNo_contig000001 position 1003228
[10:42:40] Possible /pseudo 'anaerobic benzoate catabolism transcriptional regulator' at gnl|Prokka|wNo_contig000001 position 1148689
[10:42:40] Found 550 unique /gene codes.
[10:42:40] Fixed 32 colliding /gene names.
[10:42:40] Adding /locus_tag identifiers
[10:42:41] Assigned 1258 locus_tags to CDS and RNA features.
[10:42:41] Writing outputs to /home/yquentin/work/wolbachia/prokka/wNo/
[10:42:42] Generating annotation statistics file
[10:42:42] Generating Genbank and Sequin files
[10:42:42] Running: tbl2asn -V b -a r10k -l paired-ends -M n -N 1 -y 'Annotated using prokka 1.10 from http://www.vicbioinformatics.com' -Z \/home\/yquentin\/work\/wolbachia\/prokka\/wNo\/wNo\.err -i \/home\/yquentin\/work\/wolbachia\/prokka\/wNo\/wNo\.fsa 2> /dev/null
[10:42:45] Deleting unwanted file: /home/yquentin/work/wolbachia/prokka/wNo/errorsummary.val
[10:42:45] Deleting unwanted file: /home/yquentin/work/wolbachia/prokka/wNo/wNo.dr
[10:42:45] Deleting unwanted file: /home/yquentin/work/wolbachia/prokka/wNo/wNo.fixedproducts
[10:42:45] Deleting unwanted file: /home/yquentin/work/wolbachia/prokka/wNo/wNo.ecn
[10:42:45] Deleting unwanted file: /home/yquentin/work/wolbachia/prokka/wNo/wNo.val
[10:42:45] Output files:
[10:42:45] /home/yquentin/work/wolbachia/prokka/wNo/wNo.ffn
[10:42:45] /home/yquentin/work/wolbachia/prokka/wNo/wNo.txt
[10:42:45] /home/yquentin/work/wolbachia/prokka/wNo/wNo.tbl
[10:42:45] /home/yquentin/work/wolbachia/prokka/wNo/wNo.err
[10:42:45] /home/yquentin/work/wolbachia/prokka/wNo/wNo.fna
[10:42:45] /home/yquentin/work/wolbachia/prokka/wNo/wNo.gff
[10:42:45] /home/yquentin/work/wolbachia/prokka/wNo/wNo.sqn
[10:42:45] /home/yquentin/work/wolbachia/prokka/wNo/wNo.log
[10:42:45] /home/yquentin/work/wolbachia/prokka/wNo/wNo.fsa
[10:42:45] /home/yquentin/work/wolbachia/prokka/wNo/wNo.gbk
[10:42:45] /home/yquentin/work/wolbachia/prokka/wNo/wNo.faa
[10:42:45] Walltime used: 1.30 minutes
[10:42:45] If you use this result please cite the Prokka paper:
[10:42:45] Seemann T (2014) Prokka: rapid prokaryotic genome annotation. Bioinformatics. 30(14):2068-9.
[10:42:45] Type 'prokka --citation' for more details.
[10:42:45] Thank you, come again.