output/quast/Lactococcus/quast.log

Version 1

/home/administrator/conda2/envs/spades/bin/quast.py -t 30 --glimmer --rna-finding --conserved-genes-finding ./shovill/Lactococcus/spades.fasta --min-contig 200 --pe1 ./fq/incl1358_R1.fastq --pe2 ./fq/incl1358_R2.fastq -o ../CPB_rcf_DNAseq/quast/Lactococcus

Version: 5.0.2

System information:
  OS: Linux-4.13.0-41-generic-x86_64-with-debian-stretch-sid (linux_64)
  Python version: 3.6.11
  CPUs number: 32

Started: 2021-01-21 14:00:09

Logging to /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/quast.log

CWD: /DATB/markop/CPB/CPB_rcf_DNAseq
Main parameters: 
  MODE: default, threads: 30, minimum contig length: 200, minimum alignment length: 65, \
  ambiguity: one, threshold for extensive misassembly size: 1000

Contigs:
  Pre-processing...
  ./shovill/Lactococcus/spades.fasta ==> spades

2021-01-21 14:00:09
Running Reads analyzer...

NOTICE: Improper read names in /DATB/markop/CPB/CPB_rcf_DNAseq/fq/incl1358_R1.fastq (forward reads)! Names should end with /1 (for forward reads) or /2 (for reverse reads) but @ST-E00318:496:HHWM5CCXY:2:1101:16995:1713 was found!
QUAST will attempt to fix read names.

NOTICE: Improper read names in /DATB/markop/CPB/CPB_rcf_DNAseq/fq/incl1358_R2.fastq (reverse reads)! Names should end with /1 (for forward reads) or /2 (for reverse reads) but @ST-E00318:496:HHWM5CCXY:2:1101:16995:1713 was found!
QUAST will attempt to fix read names.
  Logging to files /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/reads_stats/reads_stats.log and /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/reads_stats/reads_stats.err...
  Pre-processing reads...
  Running BWA...
/home/administrator/conda2/envs/spades/bin/bwa index -p /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/quast_corrected_input/spades.fasta \
/DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/quast_corrected_input/spades.fasta \
>> /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/reads_stats/reads_stats.err 2>> \
/DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/reads_stats/reads_stats.err
/home/administrator/conda2/envs/spades/bin/bwa mem -t 15 /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/quast_corrected_input/spades.fasta \
/DATB/markop/CPB/CPB_rcf_DNAseq/fq/incl1358_R1.fastq /DATB/markop/CPB/CPB_rcf_DNAseq/fq/incl1358_R2.fastq \
> spades.pe1.sam 2>> /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/reads_stats/reads_stats.err
/home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/sambamba/sambamba_linux \
view -t 15 -h -S -f bam spades.pe1.sam > spades.pe1.bam 2>> /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/reads_stats/reads_stats.err
/home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/sambamba/sambamba_linux \
markdup -r -t 15 --tmpdir /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/reads_stats \
spades.pe1.bam spades.pe1.dedup.bam 2>> /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/reads_stats/reads_stats.err
  Done.
/home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/sambamba/sambamba_linux \
view -H -S quast/Lactococcus/reads_stats/temp_output/spades.sam > quast/Lactococcus/reads_stats/spades.sam.header \
2>> quast/Lactococcus/reads_stats/reads_stats.err
  Sorting SAM-file...
/home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/sambamba/sambamba_linux \
view -t 15 -h -S -f bam quast/Lactococcus/reads_stats/temp_output/spades.all.correct.sam \
> quast/Lactococcus/reads_stats/temp_output/spades.bam 2>> quast/Lactococcus/reads_stats/reads_stats.err
/home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/sambamba/sambamba_linux \
flagstat -t 15 quast/Lactococcus/reads_stats/temp_output/spades.bam > quast/Lactococcus/reads_stats/spades.stat \
2>> quast/Lactococcus/reads_stats/reads_stats.err
/usr/bin/bamToBed -i quast/Lactococcus/reads_stats/temp_output/spades.bam > quast/Lactococcus/reads_stats/temp_output/spades.bed \
2>> quast/Lactococcus/reads_stats/reads_stats.err
sort -k1,1 -k2,2n quast/Lactococcus/reads_stats/temp_output/spades.bed > quast/Lactococcus/reads_stats/temp_output/spades.sorted.bed \
2>> quast/Lactococcus/reads_stats/reads_stats.err
/usr/bin/bedtools genomecov -i quast/Lactococcus/reads_stats/temp_output/spades.sorted.bed \
-g quast/Lactococcus/quast_corrected_input/spades.fasta.fai > quast/Lactococcus/reads_stats/temp_output/spades.genomecov \
2>> quast/Lactococcus/reads_stats/reads_stats.err
  Analysis is finished.
  Creating total report...
    saved to /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/reads_stats/reads_report.txt, reads_report.tsv, and reads_report.tex
Done.

2021-01-21 15:35:53
Running Basic statistics processor...
  Contig files: 
    spades
  Calculating N50 and L50...
    spades, N50 = 69806, L50 = 10, Total length = 2541371, GC % = 34.97, # N's per 100 kbp =  0.00
  Drawing Nx plot...
    saved to /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/basic_stats/Nx_plot.pdf
  Drawing cumulative plot...
    saved to /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/basic_stats/cumulative_plot.pdf
  Drawing GC content plot...
    saved to /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/basic_stats/GC_content_plot.pdf
  Drawing spades GC content plot...
    saved to /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/basic_stats/spades_GC_content_plot.pdf
  Drawing Coverage histogram (bin size: 5x)...
    saved to /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/basic_stats/coverage_histogram.pdf
  Drawing spades coverage histogram (bin size: 5x)...
    saved to /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/basic_stats/spades_coverage_histogram.pdf
Done.

2021-01-21 15:35:54
Running GlimmerHMM...
  spades
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/0.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/0.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/1.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/1.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/2.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/2.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/3.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/3.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/4.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/4.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/5.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/5.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/6.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/6.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/7.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/7.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/8.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/8.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/9.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/9.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/10.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/10.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/11.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/11.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/12.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/12.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/13.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/13.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/14.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/14.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/15.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/15.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/16.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/16.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/17.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/17.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/18.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/18.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/19.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/19.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/20.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/20.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/21.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/21.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/22.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/22.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/23.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/23.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/24.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/24.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/25.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/25.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/26.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/26.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/27.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/27.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/28.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/28.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/29.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/29.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/30.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/30.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/31.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/31.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/32.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/32.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/33.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/33.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/34.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/34.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/35.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/35.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/36.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/36.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/37.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/37.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/38.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/38.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/39.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/39.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/40.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/40.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/41.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/41.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/42.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/42.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/43.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/43.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/44.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/44.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/45.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/45.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/46.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/46.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/47.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/47.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/48.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/48.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/49.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/49.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/50.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/50.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/51.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/51.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/52.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/52.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/53.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/53.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/54.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/54.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/55.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/55.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/56.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/56.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/57.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/57.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/58.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/58.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/59.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/59.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/60.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/60.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/61.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/61.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/62.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/62.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/63.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/63.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/64.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/64.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/65.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/65.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/66.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/66.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/67.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/67.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/68.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/68.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/69.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/69.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/70.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/70.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/71.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/71.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/72.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/72.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/73.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/73.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/74.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/74.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/75.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/75.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/76.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/76.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/77.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/77.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/78.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/78.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/79.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/79.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/80.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/80.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/81.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/81.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/82.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/82.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/83.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/83.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/84.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/84.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/85.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/85.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/86.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/86.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/87.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/87.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/88.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/88.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/89.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/89.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/90.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/90.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/91.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/91.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/92.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/92.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/93.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/93.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/94.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/94.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/95.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/95.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/96.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/96.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/97.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/97.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/98.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/98.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/99.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/99.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/100.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/100.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/101.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/101.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/102.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/102.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/103.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/103.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/104.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/104.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/105.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/105.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/106.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/106.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/107.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/107.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/108.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/108.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/109.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/109.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/110.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/110.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/111.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/111.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/112.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/112.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/113.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/113.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/114.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/114.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/115.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/115.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/116.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/116.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/117.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/117.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/118.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/118.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/119.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/119.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/120.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/120.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/121.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/121.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/122.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/122.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/123.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/123.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/124.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/124.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/125.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/125.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/126.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/126.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/127.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/127.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/128.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/128.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/129.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/129.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/130.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/130.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/131.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/131.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/132.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/132.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/133.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/133.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/134.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/134.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/135.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/135.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/136.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/136.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/137.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/137.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/138.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/138.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/139.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/139.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/140.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/140.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/141.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/141.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/142.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/142.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/143.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/143.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/144.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/144.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/145.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/145.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/146.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/146.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/147.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/147.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/148.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/148.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/149.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/149.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/150.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/150.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/151.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/151.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/152.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/152.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/153.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/153.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/154.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/154.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/155.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/155.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/156.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/156.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/157.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/157.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/158.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/158.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/159.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/159.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/160.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/160.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/161.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/161.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/162.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/162.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/163.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/163.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/164.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/164.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/165.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/165.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/166.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/166.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/167.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/167.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/168.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/168.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/169.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/169.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/170.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/170.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/171.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/171.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/172.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/172.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/173.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/173.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/174.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/174.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/175.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/175.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/176.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/176.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/177.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/177.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/178.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/178.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/179.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/179.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/180.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/180.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/181.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/181.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/182.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/182.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/183.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/183.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/184.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/184.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/185.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/185.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/186.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/186.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/187.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/187.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/188.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/188.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/189.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/189.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/190.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/190.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/191.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/191.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/192.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/192.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/193.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/193.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/194.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/194.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/195.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/195.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/196.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/196.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/197.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/197.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/198.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/198.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/199.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/199.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/200.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/200.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/201.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/201.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/202.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/202.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/203.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/203.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/204.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/204.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/205.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/205.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/206.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/206.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/207.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/207.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/208.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/208.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/209.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/209.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/210.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/210.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/211.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/211.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/212.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/212.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/213.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/213.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/214.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/214.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/215.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/215.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/216.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/216.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/217.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/217.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/218.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/218.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/219.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/219.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/220.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/220.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/221.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/221.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/222.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/222.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/223.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/223.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/224.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/224.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/225.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/225.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/226.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/226.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/227.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/227.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/228.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/228.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/229.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/229.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/230.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/230.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/231.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/231.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/232.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/232.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/233.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/233.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/234.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/234.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/235.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/235.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/236.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/236.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/237.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/237.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/238.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/238.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/239.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/239.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/240.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/240.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    /home/administrator/conda2/envs/spades/bin/glimmerhmm quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/241.fasta \
    -d /home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/glimmer/trained/arabidopsis \
    -g -o quast/Lactococcus/predicted_genes/tmp/tmpkvwpqne6/241.gff >> quast/Lactococcus/predicted_genes/spades_glimmer.stderr \
    2>> quast/Lactococcus/predicted_genes/spades_glimmer.stderr
    Genes = 952 unique, 952 total
    Predicted genes (GFF): /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/predicted_genes/spades_glimmer_genes.gff.gz
Done.

2021-01-21 15:36:16
Running Barrnap...
Logging to /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/predicted_genes/barrnap.log...
/home/administrator/conda2/envs/spades/lib/python3.6/site-packages/quast_libs/barrnap/bin/barrnap \
--quiet -k bac --threads 30 quast/Lactococcus/quast_corrected_input/spades.fasta > \
quast/Lactococcus/predicted_genes/spades.rna.gff 2>> quast/Lactococcus/predicted_genes/barrnap.log
    Ribosomal RNA genes = 7
    Predicted genes (GFF): /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/predicted_genes/spades.rna.gff
Done.

2021-01-21 15:36:17
Running BUSCO...
Logs and results will be saved under /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/busco_stats...
Done.

2021-01-21 15:36:58
Creating large visual summaries...
This may take a while: press Ctrl-C to skip this step..
  1 of 2: Creating Icarus viewers...
  2 of 2: Creating PDF with all tables and plots...
Done

2021-01-21 15:36:59
RESULTS:
  Text versions of total report are saved to /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/report.txt, report.tsv, and report.tex
  Text versions of transposed total report are saved to /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/transposed_report.txt, transposed_report.tsv, and transposed_report.tex
  HTML version (interactive tables and plots) is saved to /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/report.html
  PDF version (tables and plots) is saved to /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/report.pdf
  Icarus (contig browser) is saved to /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/icarus.html
  Log is saved to /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Lactococcus/quast.log

Finished: 2021-01-21 15:36:59
Elapsed time: 1:36:50.306818
NOTICEs: 2; WARNINGs: 0; non-fatal ERRORs: 0

Thank you for using QUAST!