Start: Sat Jun 12 17:15:00 CDT 2021
/home/psgendb/BIRCHDEV/pkg/quast-4.6.3/quast.py --eukaryote --scaffolds --threads 32 -o /local/genbank/workspace/reads.all3.spades1/quast_results /local/genbank/workspace/reads.all3.spades1/contigs.fasta

Version: 4.6.3

System information:
  OS: Linux-3.10.0-1160.25.1.el7.x86_64-x86_64-with-redhat-7.9-Maipo (linux_64)
  Python version: 2.7.5
  CPUs number: 64

Started: 2021-06-12 17:15:01

Logging to /local/genbank/workspace/reads.all3.spades1/quast_results/quast.log

CWD: /local/genbank/workspace/reads.all3.spades1
Main parameters: 
  Threads: 32, eukaryotic: true, scaffolds: true, minimum contig length: 500, ambiguity: one, \
  threshold for extensive misassembly size: 1000

Contigs:
  Pre-processing...
  /local/genbank/workspace/reads.all3.spades1/contigs.fasta ==> contigs
    breaking scaffolds into contigs:
      WARNING: nothing was broken, skipping 'contigs broken' from further analysis

2021-06-12 17:15:58
Running Basic statistics processor...
  Contig files: 
    contigs
  Calculating N50 and L50...
    contigs, N50 = 3489, L50 = 14029, Total length = 248136525, GC % = 56.48, # N's per 100 kbp =  0.00
  Drawing Nx plot...
    saved to /local/genbank/workspace/reads.all3.spades1/quast_results/basic_stats/Nx_plot.pdf
  Drawing cumulative plot...
    saved to /local/genbank/workspace/reads.all3.spades1/quast_results/basic_stats/cumulative_plot.pdf
  Drawing GC content plot...
    saved to /local/genbank/workspace/reads.all3.spades1/quast_results/basic_stats/GC_content_plot.pdf
  Drawing contigs GC content plot...
    saved to /local/genbank/workspace/reads.all3.spades1/quast_results/basic_stats/contigs_GC_content_plot.pdf
  Drawing Coverage histogram (bin size: 1x)...
    saved to /local/genbank/workspace/reads.all3.spades1/quast_results/basic_stats/coverage_histogram.pdf
  Drawing contigs coverage histogram (bin size: 1x)...
    saved to /local/genbank/workspace/reads.all3.spades1/quast_results/basic_stats/contigs_coverage_histogram.pdf
Done.

NOTICE: Genes are not predicted by default. Use --gene-finding option to enable it.

2021-06-12 17:16:49
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

2021-06-12 17:17:01
RESULTS:
  Text versions of total report are saved to /local/genbank/workspace/reads.all3.spades1/quast_results/report.txt, report.tsv, and report.tex
  Text versions of transposed total report are saved to /local/genbank/workspace/reads.all3.spades1/quast_results/transposed_report.txt, transposed_report.tsv, and transposed_report.tex
  HTML version (interactive tables and plots) saved to /local/genbank/workspace/reads.all3.spades1/quast_results/report.html
  PDF version (tables and plots) is saved to /local/genbank/workspace/reads.all3.spades1/quast_results/report.pdf
  Icarus (contig browser) is saved to /local/genbank/workspace/reads.all3.spades1/quast_results/icarus.html
  Log saved to /local/genbank/workspace/reads.all3.spades1/quast_results/quast.log

Finished: 2021-06-12 17:17:01
Elapsed time: 0:02:00.217812
NOTICEs: 1; WARNINGs: 0; non-fatal ERRORs: 0

Thank you for using QUAST!
Finish: Sat Jun 12 17:17:01 CDT 2021