Start: Tue Jun 15 15:07:56 CDT 2021 /home/psgendb/BIRCHDEV/pkg/quast-4.6.3/quast.py --eukaryote --scaffolds --threads 32 -o /local/genbank/workspace/reads.trimmed.corrected.SOAPdenovo2/quast_results /local/genbank/workspace/reads.trimmed.corrected.SOAPdenovo2/SOAPdenovo2.scafSeq 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: 2021-06-15 15:07:57 Logging to /local/genbank/workspace/reads.trimmed.corrected.SOAPdenovo2/quast_results/quast.log CWD: /local/genbank/workspace/reads.all3 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.trimmed.corrected.SOAPdenovo2/SOAPdenovo2.scafSeq ==> SOAPdenovo2.scafSeq breaking scaffolds into contigs: 115414 scaffolds (SOAPdenovo2.scafSeq) were broken into 125347 contigs (SOAPdenovo2.scafSeq_broken) 2021-06-15 15:09:41 Running Basic statistics processor... Contig files: 1 SOAPdenovo2.scafSeq 2 SOAPdenovo2.scafSeq_broken Calculating N50 and L50... 1 SOAPdenovo2.scafSeq, N50 = 1943, L50 = 21223, Total length = 178519097, GC % = 54.96, # N's per 100 kbp = 1439.01 2 SOAPdenovo2.scafSeq_broken, N50 = 1404, L50 = 25916, Total length = 157944652, GC % = 55.14, # N's per 100 kbp = 67.38 Drawing Nx plot... saved to /local/genbank/workspace/reads.trimmed.corrected.SOAPdenovo2/quast_results/basic_stats/Nx_plot.pdf Drawing cumulative plot... saved to /local/genbank/workspace/reads.trimmed.corrected.SOAPdenovo2/quast_results/basic_stats/cumulative_plot.pdf Drawing GC content plot... saved to /local/genbank/workspace/reads.trimmed.corrected.SOAPdenovo2/quast_results/basic_stats/GC_content_plot.pdf Drawing SOAPdenovo2.scafSeq GC content plot... saved to /local/genbank/workspace/reads.trimmed.corrected.SOAPdenovo2/quast_results/basic_stats/SOAPdenovo2.scafSeq_GC_content_plot.pdf Drawing SOAPdenovo2.scafSeq_broken GC content plot... saved to /local/genbank/workspace/reads.trimmed.corrected.SOAPdenovo2/quast_results/basic_stats/SOAPdenovo2.scafSeq_broken_GC_content_plot.pdf Done. NOTICE: Genes are not predicted by default. Use --gene-finding option to enable it. 2021-06-15 15:10:39 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 2021-06-15 15:11:01 RESULTS: Text versions of total report are saved to /local/genbank/workspace/reads.trimmed.corrected.SOAPdenovo2/quast_results/report.txt, report.tsv, and report.tex Text versions of transposed total report are saved to /local/genbank/workspace/reads.trimmed.corrected.SOAPdenovo2/quast_results/transposed_report.txt, transposed_report.tsv, and transposed_report.tex HTML version (interactive tables and plots) saved to /local/genbank/workspace/reads.trimmed.corrected.SOAPdenovo2/quast_results/report.html PDF version (tables and plots) is saved to /local/genbank/workspace/reads.trimmed.corrected.SOAPdenovo2/quast_results/report.pdf Icarus (contig browser) is saved to /local/genbank/workspace/reads.trimmed.corrected.SOAPdenovo2/quast_results/icarus.html Log saved to /local/genbank/workspace/reads.trimmed.corrected.SOAPdenovo2/quast_results/quast.log Finished: 2021-06-15 15:11:02 Elapsed time: 0:03:04.944949 NOTICEs: 1; WARNINGs: 0; non-fatal ERRORs: 0 Thank you for using QUAST! Finish: Tue Jun 15 15:11:02 CDT 2021