Mercurial > repos > pimarin > plasmidfinder
diff test-data/test_1/logfile_test1.log @ 0:7c8c8a816114 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
| author | pimarin |
|---|---|
| date | Tue, 14 Feb 2023 16:03:07 +0000 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/test_1/logfile_test1.log Tue Feb 14 16:03:07 2023 +0000 @@ -0,0 +1,57 @@ +Found: rep2_2_repR(pEF1)_DQ198088 +Saving: contig00014 len=836 cov=2.5 corr=0 origname=NODE_172_length_836_cov_2.489422_pilon sw=shovill-spades/1.1.0 date=20220302:2..836:rep2_2_repR(pEF1)_DQ198088:55.890228 +Found: rep11a_1_repA(pB82)_AB178871 +Saving: contig00003 len=3227 cov=2.2 corr=0 origname=NODE_3_length_3227_cov_2.232903_pilon sw=shovill-spades/1.1.0 date=20220302:308..1252:rep11a_1_repA(pB82)_AB178871:99.894180 +Found: rep14a_2_ORF1(pKQ10)_EFU01917 +Saving: contig00008 len=2292 cov=2.6 corr=0 origname=NODE_11_length_2292_cov_2.631409_pilon sw=shovill-spades/1.1.0 date=20220302:1703..2104:rep14a_2_ORF1(pKQ10)_EFU01917:99.502488 +{'plasmidfinder': {'results': {'Gram Positive': {'Inc18': 'No hit found', + 'Rep3': {'contig00003 len=3227 cov=2.2 corr=0 origname=NODE_3_length_3227_cov_2.232903_pilon sw=shovill-spades/1.1.0 date=20220302:308..1252:rep11a_1_repA(pB82)_AB178871:99.894180': {'HSP_length': 945, + 'accession': 'AB178871', + 'contig_name': 'contig00003 ' + 'len=3227 ' + 'cov=2.2 ' + 'corr=0 ' + 'origname=NODE_3_length_3227_cov_2.232903_pilon ' + 'sw=shovill-spades/1.1.0 ' + 'date=20220302', + 'coverage': 100.0, + 'hit_id': 'contig00003 ' + 'len=3227 ' + 'cov=2.2 ' + 'corr=0 ' + 'origname=NODE_3_length_3227_cov_2.232903_pilon ' + 'sw=shovill-spades/1.1.0 ' + 'date=20220302:308..1252:rep11a_1_repA(pB82)_AB178871:99.894180', + 'identity': 99.89, + 'note': 'repA(pB82)', + 'plasmid': 'rep11a', + 'position_in_ref': '1..945', + 'positions_in_contig': '308..1252', + 'template_length': 945}}, + 'Rep_trans': {'contig00008 len=2292 cov=2.6 corr=0 origname=NODE_11_length_2292_cov_2.631409_pilon sw=shovill-spades/1.1.0 date=20220302:1703..2104:rep14a_2_ORF1(pKQ10)_EFU01917:99.502488': {'HSP_length': 402, + 'accession': 'EFU01917', + 'contig_name': 'contig00008 ' + 'len=2292 ' + 'cov=2.6 ' + 'corr=0 ' + 'origname=NODE_11_length_2292_cov_2.631409_pilon ' + 'sw=shovill-spades/1.1.0 ' + 'date=20220302', + 'coverage': 100.0, + 'hit_id': 'contig00008 ' + 'len=2292 ' + 'cov=2.6 ' + 'corr=0 ' + 'origname=NODE_11_length_2292_cov_2.631409_pilon ' + 'sw=shovill-spades/1.1.0 ' + 'date=20220302:1703..2104:rep14a_2_ORF1(pKQ10)_EFU01917:99.502488', + 'identity': 99.5, + 'note': 'ORF1(pKQ10)', + 'plasmid': 'rep14a', + 'position_in_ref': '1..402', + 'positions_in_contig': '1703..2104', + 'template_length': 402}}}}, + 'run_info': {'date': '09.09.2022', 'time': '08:52:55'}, + 'user_input': {'file_format': 'fasta', + 'filename(s)': ['/tmp/tmpj3aqa6lu/files/9/6/4/dataset_9649367d-27ab-42b3-8f51-56f81f942d9c.dat'], + 'method': 'blast'}}}