|
0
|
1 /home/laptop/miniconda3/envs/mulled-v1-92b15e9954bc988dbc8d54298d41c8a76a5ff384441fcf564162dec5c1c0faf0/bin/quast --labels contigs1_fna,contigs2_fna -o outputdir --eukaryote --min-identity 95.0 --min-contig 500 --min-alignment 65 --ambiguity-usage one --ambiguity-score 0.99 --local-mis-size 200 --contig-thresholds 0,1000,500 --extensive-mis-size 1000 --scaffold-gap-max-size 1000 --unaligned-part-size 500 --skip-unaligned-mis-contigs --x-for-Nx 90 /tmp/tmphjbhe4x0/files/0/2/b/dataset_02bce539-33f0-4693-bfe9-a92ebf1615f8.dat /tmp/tmphjbhe4x0/files/6/0/2/dataset_60253425-26a2-4019-bae6-07285864be68.dat --threads 1
|
|
|
2
|
|
|
3 Version: 5.2.0
|
|
|
4
|
|
|
5 System information:
|
|
|
6 OS: Linux-5.13.0-51-generic-x86_64-with-glibc2.31 (linux_64)
|
|
|
7 Python version: 3.9.13
|
|
|
8 CPUs number: 8
|
|
|
9
|
|
|
10 Started: 2022-07-07 16:55:02
|
|
|
11
|
|
|
12 Logging to /tmp/tmphjbhe4x0/job_working_directory/000/15/working/outputdir/quast.log
|
|
|
13 WARNING: --ambiguity-usage was set to 'all' because not default --ambiguity-score was specified
|
|
|
14
|
|
|
15 CWD: /tmp/tmphjbhe4x0/job_working_directory/000/15/working
|
|
|
16 Main parameters:
|
|
|
17 MODE: default, threads: 1, eukaryotic: true, min contig length: 500, min alignment length: 65, \
|
|
|
18 min alignment IDY: 95.0, ambiguity: all, min local misassembly length: 200, min extensive misassembly length: 1000
|
|
|
19
|
|
|
20 Contigs:
|
|
|
21 Pre-processing...
|
|
|
22 1 /tmp/tmphjbhe4x0/files/0/2/b/dataset_02bce539-33f0-4693-bfe9-a92ebf1615f8.dat ==> contigs1_fna
|
|
|
23 2 /tmp/tmphjbhe4x0/files/6/0/2/dataset_60253425-26a2-4019-bae6-07285864be68.dat ==> contigs2_fna
|
|
|
24
|
|
|
25 2022-07-07 16:55:11
|
|
|
26 Running Basic statistics processor...
|
|
|
27 Contig files:
|
|
|
28 1 contigs1_fna
|
|
|
29 2 contigs2_fna
|
|
|
30 Calculating N50 and L50...
|
|
|
31 1 contigs1_fna, N50 = 3980, L50 = 1, auN = 2934.0, Total length = 6710, GC % = 51.28, # N's per 100 kbp = 0.00
|
|
|
32 2 contigs2_fna, N50 = 6650, L50 = 1, auN = 6650.0, Total length = 6650, GC % = 52.00, # N's per 100 kbp = 0.00
|
|
|
33 Drawing Nx plot...
|
|
|
34 saved to /tmp/tmphjbhe4x0/job_working_directory/000/15/working/outputdir/basic_stats/Nx_plot.pdf
|
|
|
35 Drawing cumulative plot...
|
|
|
36 saved to /tmp/tmphjbhe4x0/job_working_directory/000/15/working/outputdir/basic_stats/cumulative_plot.pdf
|
|
|
37 Drawing GC content plot...
|
|
|
38 saved to /tmp/tmphjbhe4x0/job_working_directory/000/15/working/outputdir/basic_stats/GC_content_plot.pdf
|
|
|
39 Drawing contigs1_fna GC content plot...
|
|
|
40 saved to /tmp/tmphjbhe4x0/job_working_directory/000/15/working/outputdir/basic_stats/contigs1_fna_GC_content_plot.pdf
|
|
|
41 Drawing contigs2_fna GC content plot...
|
|
|
42 saved to /tmp/tmphjbhe4x0/job_working_directory/000/15/working/outputdir/basic_stats/contigs2_fna_GC_content_plot.pdf
|
|
|
43 Done.
|
|
|
44
|
|
|
45 NOTICE: Genes are not predicted by default. Use --gene-finding or --glimmer option to enable it.
|
|
|
46
|
|
|
47 2022-07-07 16:55:13
|
|
|
48 Creating large visual summaries...
|
|
|
49 This may take a while: press Ctrl-C to skip this step..
|
|
|
50 1 of 2: Creating PDF with all tables and plots...
|
|
|
51 2 of 2: Creating Icarus viewers...
|
|
|
52 Done
|
|
|
53
|
|
|
54 2022-07-07 16:55:14
|
|
|
55 RESULTS:
|
|
|
56 Text versions of total report are saved to /tmp/tmphjbhe4x0/job_working_directory/000/15/working/outputdir/report.txt, report.tsv, and report.tex
|
|
|
57 Text versions of transposed total report are saved to /tmp/tmphjbhe4x0/job_working_directory/000/15/working/outputdir/transposed_report.txt, transposed_report.tsv, and transposed_report.tex
|
|
|
58 HTML version (interactive tables and plots) is saved to /tmp/tmphjbhe4x0/job_working_directory/000/15/working/outputdir/report.html
|
|
|
59 PDF version (tables and plots) is saved to /tmp/tmphjbhe4x0/job_working_directory/000/15/working/outputdir/report.pdf
|
|
|
60 Icarus (contig browser) is saved to /tmp/tmphjbhe4x0/job_working_directory/000/15/working/outputdir/icarus.html
|
|
|
61 Log is saved to /tmp/tmphjbhe4x0/job_working_directory/000/15/working/outputdir/quast.log
|
|
|
62
|
|
|
63 Finished: 2022-07-07 16:55:14
|
|
|
64 Elapsed time: 0:00:11.737584
|
|
|
65 NOTICEs: 1; WARNINGs: 1; non-fatal ERRORs: 0
|
|
|
66
|
|
|
67 Thank you for using QUAST!
|
