/usr/local/bioinformatics/quast-4.5/quast.py -t 24 /home/owl/halfshell/working-directory/17-09-10/ol-canu-170623.fa /home/owl/Athaliana/20171018_oly_pacbio_canu/20171018_oly_pacbio.contigs.fasta Version: 4.5, 15ca3b9 System information: OS: Linux-4.4.0-97-generic-x86_64-with-debian-8.9 (linux_64) Python version: 2.7.11 CPUs number: 24 Started: 2017-10-23 18:01:25 Logging to /home/data/quast_results/results_2017_10_23_18_01_25/quast.log CWD: /home/data Main parameters: Threads: 24, minimum contig length: 500, ambiguity: one, threshold for extensive misassembly size: 1000 Contigs: Pre-processing... 1 /home/owl/halfshell/working-directory/17-09-10/ol-canu-170623.fa ==> ol-canu-170623 2 /home/owl/Athaliana/20171018_oly_pacbio_canu/20171018_oly_pacbio.contigs.fasta ==> 20171018_oly_pacbio.contigs 2017-10-23 18:01:38 Running Basic statistics processor... Contig files: 1 ol-canu-170623 2 20171018_oly_pacbio.contigs Calculating N50 and L50... 1 ol-canu-170623, N50 = 14126, L50 = 1230, Total length = 46364927, GC % = 36.53, # N's per 100 kbp = 0.00 2 20171018_oly_pacbio.contigs, N50 = 13157, L50 = 3329, Total length = 132146852, GC % = 36.40, # N's per 100 kbp = 0.00 Drawing Nx plot... saved to /home/data/quast_results/results_2017_10_23_18_01_25/basic_stats/Nx_plot.pdf Drawing cumulative plot... saved to /home/data/quast_results/results_2017_10_23_18_01_25/basic_stats/cumulative_plot.pdf Drawing GC content plot... saved to /home/data/quast_results/results_2017_10_23_18_01_25/basic_stats/GC_content_plot.pdf Drawing ol-canu-170623 GC content plot... saved to /home/data/quast_results/results_2017_10_23_18_01_25/basic_stats/ol-canu-170623_GC_content_plot.pdf Drawing 20171018_oly_pacbio.contigs GC content plot... saved to /home/data/quast_results/results_2017_10_23_18_01_25/basic_stats/20171018_oly_pacbio.contigs_GC_content_plot.pdf Done. NOTICE: Genes are not predicted by default. Use --gene-finding option to enable it. 2017-10-23 18:01:51 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 2017-10-23 18:01:56 RESULTS: Text versions of total report are saved to /home/data/quast_results/results_2017_10_23_18_01_25/report.txt, report.tsv, and report.tex Text versions of transposed total report are saved to /home/data/quast_results/results_2017_10_23_18_01_25/transposed_report.txt, transposed_report.tsv, and transposed_report.tex HTML version (interactive tables and plots) saved to /home/data/quast_results/results_2017_10_23_18_01_25/report.html PDF version (tables and plots) is saved to /home/data/quast_results/results_2017_10_23_18_01_25/report.pdf Icarus (contig browser) is saved to /home/data/quast_results/results_2017_10_23_18_01_25/icarus.html Log saved to /home/data/quast_results/results_2017_10_23_18_01_25/quast.log Finished: 2017-10-23 18:01:56 Elapsed time: 0:00:30.500645 NOTICEs: 1; WARNINGs: 0; non-fatal ERRORs: 0 Thank you for using QUAST!