/home/sam/software/quast-4.5/quast.py /mnt/owl/Athaliana/20180512_geoduck_fasta_subsets/PGA_assembly_10k_plus.fasta /mnt/owl/Athaliana/20180512_geoduck_fasta_subsets/PGA_assembly_30k_plus.fasta

Version: 4.5, 15ca3b9

System information:
  OS: Linux-4.4.0-124-generic-x86_64-with-Ubuntu-16.04-xenial (linux_64)
  Python version: 2.7.12
  CPUs number: 24

Started: 2018-05-14 06:26:26

Logging to /home/sam/software/quast-4.5/quast_results/results_2018_05_14_06_26_26/quast.log
NOTICE: Maximum number of threads is set to 6 (use --threads option to set it manually)

CWD: /home/sam/software/quast-4.5
Main parameters: 
  Threads: 6, minimum contig length: 500, ambiguity: one, threshold for extensive misassembly size: 1000

Contigs:
  Pre-processing...
  1  /mnt/owl/Athaliana/20180512_geoduck_fasta_subsets/PGA_assembly_10k_plus.fasta ==> PGA_assembly_10k_plus
  2  /mnt/owl/Athaliana/20180512_geoduck_fasta_subsets/PGA_assembly_30k_plus.fasta ==> PGA_assembly_30k_plus

2018-05-14 06:28:11
Running Basic statistics processor...
  Contig files: 
    1  PGA_assembly_10k_plus
    2  PGA_assembly_30k_plus
  Calculating N50 and L50...
    1  PGA_assembly_10k_plus, N50 = 61394763, L50 = 10, Total length = 1397630676, GC % = 33.75, # N's per 100 kbp =  14282.99
    2  PGA_assembly_30k_plus, N50 = 61730664, L50 = 8, Total length = 1207376365, GC % = 33.76, # N's per 100 kbp =  16373.01
  Drawing Nx plot...
    saved to /home/sam/software/quast-4.5/quast_results/results_2018_05_14_06_26_26/basic_stats/Nx_plot.pdf
  Drawing cumulative plot...
    saved to /home/sam/software/quast-4.5/quast_results/results_2018_05_14_06_26_26/basic_stats/cumulative_plot.pdf
  Drawing GC content plot...
    saved to /home/sam/software/quast-4.5/quast_results/results_2018_05_14_06_26_26/basic_stats/GC_content_plot.pdf
  Drawing PGA_assembly_10k_plus GC content plot...
    saved to /home/sam/software/quast-4.5/quast_results/results_2018_05_14_06_26_26/basic_stats/PGA_assembly_10k_plus_GC_content_plot.pdf
  Drawing PGA_assembly_30k_plus GC content plot...
    saved to /home/sam/software/quast-4.5/quast_results/results_2018_05_14_06_26_26/basic_stats/PGA_assembly_30k_plus_GC_content_plot.pdf
Done.

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

2018-05-14 06:30:19
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

2018-05-14 06:30:53
RESULTS:
  Text versions of total report are saved to /home/sam/software/quast-4.5/quast_results/results_2018_05_14_06_26_26/report.txt, report.tsv, and report.tex
  Text versions of transposed total report are saved to /home/sam/software/quast-4.5/quast_results/results_2018_05_14_06_26_26/transposed_report.txt, transposed_report.tsv, and transposed_report.tex
  HTML version (interactive tables and plots) saved to /home/sam/software/quast-4.5/quast_results/results_2018_05_14_06_26_26/report.html
  PDF version (tables and plots) is saved to /home/sam/software/quast-4.5/quast_results/results_2018_05_14_06_26_26/report.pdf
  Icarus (contig browser) is saved to /home/sam/software/quast-4.5/quast_results/results_2018_05_14_06_26_26/icarus.html
  Log saved to /home/sam/software/quast-4.5/quast_results/results_2018_05_14_06_26_26/quast.log

Finished: 2018-05-14 06:30:53
Elapsed time: 0:04:27.031894
NOTICEs: 2; WARNINGs: 0; non-fatal ERRORs: 0

Thank you for using QUAST!