Mercurial > repos > pimarin > plasmidfinder

annotate test-data/test_1/logfile_test1.log @ 2:b90300f38c54 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84-dirty
author pimarin
date Wed, 15 Feb 2023 08:41:37 +0000
parents 7c8c8a816114
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
1 Found: rep2_2_repR(pEF1)_DQ198088
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
2 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
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
3 Found: rep11a_1_repA(pB82)_AB178871
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
4 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
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
5 Found: rep14a_2_ORF1(pKQ10)_EFU01917
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
6 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
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
7 {'plasmidfinder': {'results': {'Gram Positive': {'Inc18': 'No hit found',
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
8 '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,
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
9 'accession': 'AB178871',
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
10 'contig_name': 'contig00003 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
11 'len=3227 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
12 'cov=2.2 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
13 'corr=0 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
14 'origname=NODE_3_length_3227_cov_2.232903_pilon '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
15 'sw=shovill-spades/1.1.0 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
16 'date=20220302',
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
17 'coverage': 100.0,
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
18 'hit_id': 'contig00003 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
19 'len=3227 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
20 'cov=2.2 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
21 'corr=0 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
22 'origname=NODE_3_length_3227_cov_2.232903_pilon '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
23 'sw=shovill-spades/1.1.0 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
24 'date=20220302:308..1252:rep11a_1_repA(pB82)_AB178871:99.894180',
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
25 'identity': 99.89,
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
26 'note': 'repA(pB82)',
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
27 'plasmid': 'rep11a',
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
28 'position_in_ref': '1..945',
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
29 'positions_in_contig': '308..1252',
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
30 'template_length': 945}},
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
31 '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,
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
32 'accession': 'EFU01917',
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
33 'contig_name': 'contig00008 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
34 'len=2292 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
35 'cov=2.6 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
36 'corr=0 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
37 'origname=NODE_11_length_2292_cov_2.631409_pilon '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
38 'sw=shovill-spades/1.1.0 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
39 'date=20220302',
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
40 'coverage': 100.0,
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
41 'hit_id': 'contig00008 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
42 'len=2292 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
43 'cov=2.6 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
44 'corr=0 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
45 'origname=NODE_11_length_2292_cov_2.631409_pilon '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
46 'sw=shovill-spades/1.1.0 '
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
47 'date=20220302:1703..2104:rep14a_2_ORF1(pKQ10)_EFU01917:99.502488',
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
48 'identity': 99.5,
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
49 'note': 'ORF1(pKQ10)',
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
50 'plasmid': 'rep14a',
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
51 'position_in_ref': '1..402',
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
52 'positions_in_contig': '1703..2104',
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
53 'template_length': 402}}}},
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
54 'run_info': {'date': '09.09.2022', 'time': '08:52:55'},
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
55 'user_input': {'file_format': 'fasta',
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
56 'filename(s)': ['/tmp/tmpj3aqa6lu/files/9/6/4/dataset_9649367d-27ab-42b3-8f51-56f81f942d9c.dat'],
7c8c8a816114 planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/plasmidfinder commit 2cb90e0f01974c35c0ea84789a3d19c704b91c84
pimarin
parents:
diff changeset
57 'method': 'blast'}}}