Mercurial > repos > pimarin > bakta
comparison test-data/TEST_1/TEST_1.log @ 0:4d315de96666 draft
"planemo upload for repository https://github.com/mesocentre-clermont-auvergne/galaxy-tools/tree/master/tools/bakta commit bf30715c881a622947d3d099d7a22e323e2ceef3-dirty"
| author | pimarin |
|---|---|
| date | Wed, 18 May 2022 11:13:45 +0000 |
| parents | |
| children | ca9e2125c5de |
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| -1:000000000000 | 0:4d315de96666 |
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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: 3 | |
| 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 combine annotations and mark hypotheticals... | |
| 31 analyze hypothetical proteins: 3 | |
| 32 detected Pfam hits: 0 | |
| 33 calculated proteins statistics | |
| 34 revise special cases... | |
| 35 extract sORF... | |
| 36 potential: 52 | |
| 37 discarded due to overlaps: 36 | |
| 38 discarded spurious: 0 | |
| 39 detected IPSs: 0 | |
| 40 found PSCs: 0 | |
| 41 lookup annotations... | |
| 42 filter and combine annotations... | |
| 43 filtered sORFs: 0 | |
| 44 detect gaps... | |
| 45 found: 0 | |
| 46 detect oriCs/oriVs... | |
| 47 found: 0 | |
| 48 detect oriTs... | |
| 49 found: 0 | |
| 50 apply feature overlap filters... | |
| 51 select features and create locus tags... | |
| 52 selected: 3 | |
| 53 | |
| 54 genome statistics: | |
| 55 Genome size: 3,306 bp | |
| 56 Contigs/replicons: 1 | |
| 57 GC: 43.4 % | |
| 58 N50: 3,306 | |
| 59 N ratio: 0.0 % | |
| 60 coding density: 65.2 % | |
| 61 | |
| 62 annotation summary: | |
| 63 tRNAs: 0 | |
| 64 tmRNAs: 0 | |
| 65 rRNAs: 0 | |
| 66 ncRNAs: 0 | |
| 67 ncRNA regions: 0 | |
| 68 CRISPR arrays: 0 | |
| 69 CDSs: 3 | |
| 70 hypotheticals: 3 | |
| 71 signal peptides: 0 | |
| 72 sORFs: 0 | |
| 73 gaps: 0 | |
| 74 oriCs/oriVs: 0 | |
| 75 oriTs: 0 | |
| 76 | |
| 77 export annotation results to: /home/pierre/Seafile/ABROMICS/galaxy-tools/tools/bakta/test-data/TEST_1 | |
| 78 human readable TSV... | |
| 79 GFF3... | |
| 80 INSDC GenBank & EMBL... | |
| 81 genome sequences... | |
| 82 feature nucleotide sequences... | |
| 83 translated CDS sequences... | |
| 84 hypothetical TSV... | |
| 85 translated hypothetical CDS sequences... | |
| 86 machine readable JSON... | |
| 87 genome and annotation summary... | |
| 88 | |
| 89 If you use these results please cite Bakta: https://doi.org/10.1099/mgen.0.000685 | |
| 90 Annotation successfully finished in 0:00 [mm:ss]. |