/home/sam/software/quast-4.5/quast.py -t 24 --labels 20180405_sparse_kmer101,supernova_pseudohap_duck4-p,20180421_Hi-C /mnt/owl/Athaliana/20180405_sparseassembler_kmer101_geoduck/Contigs.txt /mnt/owl//halfshell/bu-mox/analyses/0305b/duck4-p.fasta.gz /mnt/owl/Athaliana/20180419_geoduck_hi-c/Results/geoduck_roberts results 2018-04-21 18:09:04.514704/PGA_assembly.fasta Version: 4.5, 15ca3b9 System information: OS: Linux-4.4.0-121-generic-x86_64-with-Ubuntu-16.04-xenial (linux_64) Python version: 2.7.12 CPUs number: 24 Started: 2018-04-30 08:00:43 Logging to /home/sam/quast_results/results_2018_04_30_08_00_42/quast.log CWD: /home/sam Main parameters: Threads: 24, minimum contig length: 500, ambiguity: one, threshold for extensive misassembly size: 1000 Contigs: Pre-processing... 1 /mnt/owl/Athaliana/20180405_sparseassembler_kmer101_geoduck/Contigs.txt ==> 20180405_sparse_kmer101 2 /mnt/owl//halfshell/bu-mox/analyses/0305b/duck4-p.fasta.gz ==> supernova_pseudohap_duck4-p 3 /mnt/owl/Athaliana/20180419_geoduck_hi-c/Results/geoduck_roberts results 2018-04-21 18:09:04.514704/PGA_assembly.fasta ==> 20180421_Hi-C 2018-04-30 08:05:31 Running Basic statistics processor... Contig files: 1 20180405_sparse_kmer101 2 supernova_pseudohap_duck4-p 3 20180421_Hi-C Calculating N50 and L50... 1 20180405_sparse_kmer101, N50 = 1241, L50 = 265572, Total length = 1315630106, GC % = 33.99, # N's per 100 kbp = 0.00 2 supernova_pseudohap_duck4-p, N50 = 177022, L50 = 834, Total length = 2205550088, GC % = 33.92, # N's per 100 kbp = 9137.01 3 20180421_Hi-C, N50 = 43382739, L50 = 18, Total length = 2205690788, GC % = 33.92, # N's per 100 kbp = 9142.81 Drawing Nx plot... saved to /home/sam/quast_results/results_2018_04_30_08_00_42/basic_stats/Nx_plot.pdf Drawing cumulative plot... saved to /home/sam/quast_results/results_2018_04_30_08_00_42/basic_stats/cumulative_plot.pdf Drawing GC content plot... saved to /home/sam/quast_results/results_2018_04_30_08_00_42/basic_stats/GC_content_plot.pdf Drawing 20180405_sparse_kmer101 GC content plot... saved to /home/sam/quast_results/results_2018_04_30_08_00_42/basic_stats/20180405_sparse_kmer101_GC_content_plot.pdf Drawing supernova_pseudohap_duck4-p GC content plot... saved to /home/sam/quast_results/results_2018_04_30_08_00_42/basic_stats/supernova_pseudohap_duck4-p_GC_content_plot.pdf Drawing 20180421_Hi-C GC content plot... saved to /home/sam/quast_results/results_2018_04_30_08_00_42/basic_stats/20180421_Hi-C_GC_content_plot.pdf Done. NOTICE: Genes are not predicted by default. Use --gene-finding option to enable it. 2018-04-30 08:10:21 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 2018-04-30 08:11:51 RESULTS: Text versions of total report are saved to /home/sam/quast_results/results_2018_04_30_08_00_42/report.txt, report.tsv, and report.tex Text versions of transposed total report are saved to /home/sam/quast_results/results_2018_04_30_08_00_42/transposed_report.txt, transposed_report.tsv, and transposed_report.tex HTML version (interactive tables and plots) saved to /home/sam/quast_results/results_2018_04_30_08_00_42/report.html PDF version (tables and plots) is saved to /home/sam/quast_results/results_2018_04_30_08_00_42/report.pdf Icarus (contig browser) is saved to /home/sam/quast_results/results_2018_04_30_08_00_42/icarus.html Log saved to /home/sam/quast_results/results_2018_04_30_08_00_42/quast.log Finished: 2018-04-30 08:11:52 Elapsed time: 0:11:09.108305 NOTICEs: 1; WARNINGs: 0; non-fatal ERRORs: 0 Thank you for using QUAST!