/home/sam/programs/quast-5.0.2/quast.py -t 24 Pgenerosa_v071.fasta Version: 5.0.2 System information: OS: Linux-4.4.0-141-generic-x86_64-with-debian-stretch-sid (linux_64) Python version: 3.7.2 CPUs number: 24 Started: 2019-02-19 15:48:01 Logging to /home/sam/data/P_generosa/genomes/quast_results/results_2019_02_19_15_48_01/quast.log CWD: /home/sam/data/P_generosa/genomes Main parameters: MODE: default, threads: 24, minimum contig length: 500, minimum alignment length: 65, \ ambiguity: one, threshold for extensive misassembly size: 1000 Contigs: Pre-processing... Pgenerosa_v071.fasta ==> Pgenerosa_v071 2019-02-19 15:48:57 Running Basic statistics processor... Contig files: Pgenerosa_v071 Calculating N50 and L50... Pgenerosa_v071, N50 = 45393038, L50 = 12, Total length = 1397628576, GC % = 33.75, # N's per 100 kbp = 14282.86 Drawing Nx plot... saved to /home/sam/data/P_generosa/genomes/quast_results/results_2019_02_19_15_48_01/basic_stats/Nx_plot.pdf Drawing cumulative plot... saved to /home/sam/data/P_generosa/genomes/quast_results/results_2019_02_19_15_48_01/basic_stats/cumulative_plot.pdf Drawing GC content plot... saved to /home/sam/data/P_generosa/genomes/quast_results/results_2019_02_19_15_48_01/basic_stats/GC_content_plot.pdf Drawing Pgenerosa_v071 GC content plot... saved to /home/sam/data/P_generosa/genomes/quast_results/results_2019_02_19_15_48_01/basic_stats/Pgenerosa_v071_GC_content_plot.pdf Done. NOTICE: Genes are not predicted by default. Use --gene-finding or --glimmer option to enable it. 2019-02-19 15:50:15 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 2019-02-19 15:50:33 RESULTS: Text versions of total report are saved to /home/sam/data/P_generosa/genomes/quast_results/results_2019_02_19_15_48_01/report.txt, report.tsv, and report.tex Text versions of transposed total report are saved to /home/sam/data/P_generosa/genomes/quast_results/results_2019_02_19_15_48_01/transposed_report.txt, transposed_report.tsv, and transposed_report.tex HTML version (interactive tables and plots) is saved to /home/sam/data/P_generosa/genomes/quast_results/results_2019_02_19_15_48_01/report.html PDF version (tables and plots) is saved to /home/sam/data/P_generosa/genomes/quast_results/results_2019_02_19_15_48_01/report.pdf Icarus (contig browser) is saved to /home/sam/data/P_generosa/genomes/quast_results/results_2019_02_19_15_48_01/icarus.html Log is saved to /home/sam/data/P_generosa/genomes/quast_results/results_2019_02_19_15_48_01/quast.log Finished: 2019-02-19 15:50:33 Elapsed time: 0:02:32.387282 NOTICEs: 1; WARNINGs: 0; non-fatal ERRORs: 0 Thank you for using QUAST!