Mercurial > repos > thanhlv > bakta
comparison test-data/TEST_4/TEST_4.log @ 0:54ca20519f70 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/bakta commit 6b06711cfba45855d5a992ed1c73c472eaef644f-dirty
author | thanhlv |
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date | Fri, 28 Apr 2023 17:18:48 +0000 |
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-1:000000000000 | 0:54ca20519f70 |
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1 parse genome sequences... | |
2 imported: 1 | |
3 filtered & revised: 1 | |
4 plasmids: 1 | |
5 | |
6 start annotation... | |
7 predict tRNAs... | |
8 found: 0 | |
9 predict tmRNAs... | |
10 found: 0 | |
11 predict rRNAs... | |
12 found: 0 | |
13 predict ncRNAs... | |
14 found: 0 | |
15 predict ncRNA regions... | |
16 found: 0 | |
17 predict CRISPR arrays... | |
18 found: 0 | |
19 predict & annotate CDSs... | |
20 predicted: 2 | |
21 discarded spurious: 0 | |
22 revised translational exceptions: 0 | |
23 detected IPSs: 0 | |
24 found PSCs: 0 | |
25 found PSCCs: 0 | |
26 lookup annotations... | |
27 conduct expert systems... | |
28 amrfinder: 0 | |
29 protein sequences: 0 | |
30 user protein sequences: 0 | |
31 combine annotations and mark hypotheticals... | |
32 detect pseudogenes... | |
33 pseudogene candidates: 0 | |
34 found pseudogenes: 0 | |
35 analyze hypothetical proteins: 2 | |
36 detected Pfam hits: 0 | |
37 calculated proteins statistics | |
38 revise special cases... | |
39 extract sORF... | |
40 potential: 16 | |
41 discarded due to overlaps: 2 | |
42 discarded spurious: 0 | |
43 detected IPSs: 0 | |
44 found PSCs: 0 | |
45 lookup annotations... | |
46 filter and combine annotations... | |
47 filtered sORFs: 0 | |
48 detect gaps... | |
49 found: 0 | |
50 detect oriCs/oriVs... | |
51 found: 0 | |
52 detect oriTs... | |
53 found: 0 | |
54 apply feature overlap filters... | |
55 select features and create locus tags... | |
56 selected: 2 | |
57 | |
58 genome statistics: | |
59 Genome size: 1,330 bp | |
60 Contigs/replicons: 1 | |
61 GC: 45.2 % | |
62 N50: 1,330 | |
63 N ratio: 0.0 % | |
64 coding density: 62.0 % | |
65 | |
66 annotation summary: | |
67 tRNAs: 0 | |
68 tmRNAs: 0 | |
69 rRNAs: 0 | |
70 ncRNAs: 0 | |
71 ncRNA regions: 0 | |
72 CRISPR arrays: 0 | |
73 CDSs: 2 | |
74 hypotheticals: 2 | |
75 pseudogenes: 0 | |
76 signal peptides: 0 | |
77 sORFs: 0 | |
78 gaps: 0 | |
79 oriCs/oriVs: 0 | |
80 oriTs: 0 | |
81 | |
82 export annotation results to: /tmp/tmpmnqj1xog/job_working_directory/000/12/working | |
83 human readable TSV... | |
84 GFF3... | |
85 INSDC GenBank & EMBL... | |
86 genome sequences... | |
87 feature nucleotide sequences... | |
88 translated CDS sequences... | |
89 circular genome plot... | |
90 hypothetical TSV... | |
91 translated hypothetical CDS sequences... | |
92 machine readable JSON... | |
93 genome and annotation summary... | |
94 | |
95 If you use these results please cite Bakta: https://doi.org/10.1099/mgen.0.000685 | |
96 Annotation successfully finished in 0:01 [mm:ss]. |