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diff test-data/TEST_1/TEST_1.json @ 0:4d315de96666 draft

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"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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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/TEST_1/TEST_1.json	Wed May 18 11:13:45 2022 +0000
@@ -0,0 +1,113 @@
+{
+    "genome": {
+        "genus": null,
+        "species": null,
+        "strain": null,
+        "complete": true,
+        "gram": "?",
+        "translation_table": 11
+    },
+    "stats": {
+        "no_sequences": 1,
+        "size": 3306,
+        "gc": 0.4340592861464005,
+        "n_ratio": 0.0,
+        "n50": 3306,
+        "coding_ratio": 0.6524500907441017
+    },
+    "features": [
+        {
+            "type": "cds",
+            "contig": "contig_1",
+            "start": 2,
+            "stop": 736,
+            "strand": "+",
+            "gene": null,
+            "product": "hypothetical protein",
+            "start_type": "Edge",
+            "rbs_motif": null,
+            "db_xrefs": [],
+            "frame": 2,
+            "truncated": "5-prime",
+            "aa": "SSASSCSFSHMVACSSASSASSFSSSVRLWLFMNPAMLSAVCCCLFIFLFSPFCLSSASCDYIAHHFSTVLPPVFCRRTFQSDNTVTAKKQQCFVGNSNLQTGQDVQLLYRAYMHAITITLVRASPRHPMSDTEPCFMTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRAAALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRLMAD",
+            "aa_hexdigest": "bbb582b0498d5635f931d45732cbfcbb",
+            "nt": "TCTTCTGCGAGTTCGTGCAGCTTCTCACACATGGTGGCCTGCTCGTCAGCATCGAGTGCGTCCAGTTTTTCGAGCAGCGTCAGGCTCTGGCTTTTTATGAATCCCGCCATGTTGAGTGCAGTTTGCTGCTGCTTGTTCATCTTTCTGTTTTCTCCGTTCTGTCTGTCATCTGCGTCGTGTGATTATATCGCGCACCACTTTTCGACCGTCTTACCGCCGGTATTCTGCCGACGGACATTTCAGTCAGACAACACTGTCACTGCCAAAAAACAGCAGTGCTTTGTTGGTAATTCGAACTTGCAGACAGGACAGGATGTGCAATTGTTATACCGCGCATACATGCACGCTATTACAATTACCCTGGTCAGGGCTTCGCCCCGACACCCCATGTCAGATACGGAGCCATGTTTTATGACAAAACGAAGTGGAAGTAATACGCGCAGGCGGGCTATCAGTCGCCCTGTTCGTCTGACGGCAGAAGAAGACCAGGAAATCAGAAAAAGGGCTGCTGAATGCGGCAAGACCGTTTCTGGTTTTTTACGGGCGGCAGCTCTCGGTAAGAAAGTTAACTCACTGACTGATGACCGGGTGCTGAAAGAAGTTATGCGACTGGGGGCGTTGCAGAAAAAACTCTTTATCGACGGCAAGCGTGTCGGGGACAGAGAGTATGCGGAGGTGCTGATCGCTATTACGGAGTATCACCGTGCCCTGTTATCCAGGCTTATGGCAGATTAG",
+            "hypothetical": true,
+            "seq_stats": {
+                "molecular_weight": 27118.087300000014,
+                "isoelectric_point": 9.477126502990725
+            },
+            "id": "DOGAIAIOFN_3",
+            "locus": "DOGAIA_00005"
+        },
+        {
+            "type": "cds",
+            "contig": "contig_1",
+            "start": 971,
+            "stop": 1351,
+            "strand": "-",
+            "gene": null,
+            "product": "hypothetical protein",
+            "start_type": "ATG",
+            "rbs_motif": "GGA/GAG/AGG",
+            "db_xrefs": [],
+            "frame": 3,
+            "aa": "MKKDKKYQIEAIKNKDKTLFIVYATDIYSPSEFFSKIESDLKKKKSKGDVFFDLIIPNGGKKDRYVYTSFNGEKFSSYTLNKVTKTDEYNDLSELSASFFKKNFDKINVNLLSKATSFALKKGIPI",
+            "aa_hexdigest": "ed7e6002701269c907bf57f264e763c1",
+            "nt": "ATGAAAAAAGATAAAAAATATCAAATAGAAGCAATAAAAAATAAAGATAAAACTTTATTTATTGTCTATGCTACTGATATTTATAGCCCGAGCGAATTTTTCTCAAAAATCGAATCCGACTTGAAGAAAAAGAAAAGCAAGGGTGATGTTTTTTTTGATTTAATAATTCCTAACGGTGGAAAAAAAGATCGTTACGTCTATACGTCATTTAATGGCGAGAAGTTTTCAAGTTACACATTAAACAAAGTTACGAAAACTGATGAATATAATGATTTATCTGAGCTCTCGGCTTCGTTCTTTAAAAAAAACTTTGATAAGATCAACGTAAACCTTCTATCCAAAGCCACATCATTTGCTTTGAAAAAAGGCATTCCAATATAA",
+            "hypothetical": true,
+            "seq_stats": {
+                "molecular_weight": 14526.537599999976,
+                "isoelectric_point": 9.541337013244629
+            },
+            "id": "DOGAIAIOFN_1",
+            "locus": "DOGAIA_00010"
+        },
+        {
+            "type": "cds",
+            "contig": "contig_1",
+            "start": 1348,
+            "stop": 2388,
+            "strand": "-",
+            "gene": null,
+            "product": "hypothetical protein",
+            "start_type": "ATG",
+            "rbs_motif": "GGA/GAG/AGG",
+            "db_xrefs": [],
+            "frame": 1,
+            "aa": "MAQNPFKALNINIDKIESALTQNGVTNYSSNVKNERETHISGTYKGIDFLIKLMPSGGNTTIGRASGQNNTYFDEIALIIKENCLYSDTKNFEYTIPKFSDDDRANLFEFLSEEGITITEDNNNDPNCKHQYIMTTSNGDRVRAKIYKRGSIQFQGKYLQIASLINDFMCSILNMKEIVEQKNKEFNVDIKKETIESELHSKLPKSIDKIHEDIKKQLSCSLIMKKIDVEMEDYSTYCFSALRAIEGFIYQILNDVCNPSSSKNLGEYFTENKPKYIIREIHQETINGEIAEVLCECYTYWHENRHGLFHMKPGIADTKTINKLESIAIIDTVCQLIDGGVARLKL",
+            "aa_hexdigest": "f38c7538741cc7996a5564ff430abad7",
+            "nt": "ATGGCACAGAACCCGTTTAAAGCACTAAATATCAATATTGACAAGATTGAGTCTGCTCTGACGCAGAATGGCGTCACAAACTATTCCTCTAATGTAAAAAACGAAAGAGAAACTCACATATCTGGCACATATAAAGGAATAGACTTCTTAATAAAACTAATGCCATCAGGCGGAAATACCACTATCGGAAGAGCGTCTGGGCAAAATAACACTTACTTTGATGAAATCGCCTTGATTATAAAAGAAAACTGTTTGTATTCAGACACAAAGAACTTTGAATACACCATTCCAAAATTCAGTGATGATGACAGGGCAAATCTATTTGAATTTCTTTCTGAAGAGGGGATAACAATAACAGAAGATAATAATAACGATCCTAATTGTAAACACCAATATATTATGACCACCAGCAATGGTGACAGGGTCAGGGCAAAAATTTACAAGCGCGGCTCTATTCAATTCCAAGGAAAATACCTTCAAATCGCGAGTTTGATTAACGATTTCATGTGCTCAATACTAAACATGAAAGAGATTGTCGAACAAAAAAATAAAGAATTTAATGTTGACATAAAAAAAGAAACTATTGAGTCCGAGTTGCATAGCAAACTACCAAAAAGCATCGATAAAATCCATGAAGATATCAAAAAACAGCTATCATGCTCGCTAATAATGAAAAAAATAGATGTCGAAATGGAAGATTACTCAACATACTGCTTCTCTGCATTAAGAGCCATAGAAGGCTTTATATATCAAATACTTAATGATGTTTGCAATCCATCATCATCAAAGAACCTTGGCGAATACTTCACTGAAAACAAACCCAAATATATAATCAGAGAAATACACCAAGAAACTATAAATGGTGAAATAGCGGAAGTTTTGTGTGAATGCTACACTTACTGGCATGAGAACAGGCATGGTTTGTTTCATATGAAACCAGGAATAGCTGACACGAAGACAATTAACAAATTAGAATCAATCGCAATCATCGATACCGTTTGCCAATTAATAGATGGTGGCGTAGCTAGGTTGAAATTATGA",
+            "hypothetical": true,
+            "seq_stats": {
+                "molecular_weight": 39573.52969999999,
+                "isoelectric_point": 5.608326148986817
+            },
+            "id": "DOGAIAIOFN_2",
+            "locus": "DOGAIA_00015"
+        }
+    ],
+    "sequences": [
+        {
+            "id": "contig_1",
+            "description": "[completeness=complete] [topology=circular] [gcode=11]",
+            "sequence": "TTCTTCTGCGAGTTCGTGCAGCTTCTCACACATGGTGGCCTGCTCGTCAGCATCGAGTGCGTCCAGTTTTTCGAGCAGCGTCAGGCTCTGGCTTTTTATGAATCCCGCCATGTTGAGTGCAGTTTGCTGCTGCTTGTTCATCTTTCTGTTTTCTCCGTTCTGTCTGTCATCTGCGTCGTGTGATTATATCGCGCACCACTTTTCGACCGTCTTACCGCCGGTATTCTGCCGACGGACATTTCAGTCAGACAACACTGTCACTGCCAAAAAACAGCAGTGCTTTGTTGGTAATTCGAACTTGCAGACAGGACAGGATGTGCAATTGTTATACCGCGCATACATGCACGCTATTACAATTACCCTGGTCAGGGCTTCGCCCCGACACCCCATGTCAGATACGGAGCCATGTTTTATGACAAAACGAAGTGGAAGTAATACGCGCAGGCGGGCTATCAGTCGCCCTGTTCGTCTGACGGCAGAAGAAGACCAGGAAATCAGAAAAAGGGCTGCTGAATGCGGCAAGACCGTTTCTGGTTTTTTACGGGCGGCAGCTCTCGGTAAGAAAGTTAACTCACTGACTGATGACCGGGTGCTGAAAGAAGTTATGCGACTGGGGGCGTTGCAGAAAAAACTCTTTATCGACGGCAAGCGTGTCGGGGACAGAGAGTATGCGGAGGTGCTGATCGCTATTACGGAGTATCACCGTGCCCTGTTATCCAGGCTTATGGCAGATTAGCTTCCCGGAGAGAAACTGTCGAAAACAGACGGTATGAACGCCGTAAGCCCCCAAACCGATCGCCATTCACTTTCATGCATAGCTATGCAGTGAGCTGAAAGCGATCCTGACGCATTTTTCCGGTTTACCCCGGGGAAAACATCTCTTTTTGCGGTGTCTGCGTCAGAATCGCGTTCAGCGCGTTTTGGCGGTGCGCGTAATGAGACGTTATGGTAAATGTCTTCTGGCTTGATATTATATTGGAATGCCTTTTTTCAAAGCAAATGATGTGGCTTTGGATAGAAGGTTTACGTTGATCTTATCAAAGTTTTTTTTAAAGAACGAAGCCGAGAGCTCAGATAAATCATTATATTCATCAGTTTTCGTAACTTTGTTTAATGTGTAACTTGAAAACTTCTCGCCATTAAATGACGTATAGACGTAACGATCTTTTTTTCCACCGTTAGGAATTATTAAATCAAAAAAAACATCACCCTTGCTTTTCTTTTTCTTCAAGTCGGATTCGATTTTTGAGAAAAATTCGCTCGGGCTATAAATATCAGTAGCATAGACAATAAATAAAGTTTTATCTTTATTTTTTATTGCTTCTATTTGATATTTTTTATCTTTTTTCATAATTTCAACCTAGCTACGCCACCATCTATTAATTGGCAAACGGTATCGATGATTGCGATTGATTCTAATTTGTTAATTGTCTTCGTGTCAGCTATTCCTGGTTTCATATGAAACAAACCATGCCTGTTCTCATGCCAGTAAGTGTAGCATTCACACAAAACTTCCGCTATTTCACCATTTATAGTTTCTTGGTGTATTTCTCTGATTATATATTTGGGTTTGTTTTCAGTGAAGTATTCGCCAAGGTTCTTTGATGATGATGGATTGCAAACATCATTAAGTATTTGATATATAAAGCCTTCTATGGCTCTTAATGCAGAGAAGCAGTATGTTGAGTAATCTTCCATTTCGACATCTATTTTTTTCATTATTAGCGAGCATGATAGCTGTTTTTTGATATCTTCATGGATTTTATCGATGCTTTTTGGTAGTTTGCTATGCAACTCGGACTCAATAGTTTCTTTTTTTATGTCAACATTAAATTCTTTATTTTTTTGTTCGACAATCTCTTTCATGTTTAGTATTGAGCACATGAAATCGTTAATCAAACTCGCGATTTGAAGGTATTTTCCTTGGAATTGAATAGAGCCGCGCTTGTAAATTTTTGCCCTGACCCTGTCACCATTGCTGGTGGTCATAATATATTGGTGTTTACAATTAGGATCGTTATTATTATCTTCTGTTATTGTTATCCCCTCTTCAGAAAGAAATTCAAATAGATTTGCCCTGTCATCATCACTGAATTTTGGAATGGTGTATTCAAAGTTCTTTGTGTCTGAATACAAACAGTTTTCTTTTATAATCAAGGCGATTTCATCAAAGTAAGTGTTATTTTGCCCAGACGCTCTTCCGATAGTGGTATTTCCGCCTGATGGCATTAGTTTTATTAAGAAGTCTATTCCTTTATATGTGCCAGATATGTGAGTTTCTCTTTCGTTTTTTACATTAGAGGAATAGTTTGTGACGCCATTCTGCGTCAGAGCAGACTCAATCTTGTCAATATTGATATTTAGTGCTTTAAACGGGTTCTGTGCCATTGGGTCAATCCGTTGTTTTTTTTGAATATGTACAGATCTTGTTTTTTTGTCAACGGAATAGCTGTTCGTTGACTTGATAGACCGATTGATTCATCATCTCATAAATAAAGAAAAACCACCGCTACCAACGGTGGTTTTCTCAAGGTTCGCTGAGCTACCAACTCTTTGAACCAAGGTAACTGGCTTGGAGGAGCGCAGTCACCAAAATCTGTTCTTTCAGTTTAGCCTTAACAGGTGCATAACTTCAAGACAAACTCCTCTAAATCAGTTACCAATGGCTGCTGCCAGTGGCGATAAGTCGTGTCTTACCGGGTTGGACTCAAGACGATAGTTACCGGATAAGGCGCAGCGGTCGGGCTGAACGGGGGGTTCGTGCACACAGCCCAGCTTGGAGCGAACGACCTACACCGAACTGAGATACCAACAGCGTGAGCTATGAGAAAGCGCCACGCTTCCCGAAGGGAGAAAGGCGGACAGGTATCCGGTAAGTGGCAGGGTCGGAACAGGAGAGCGCACGAGGGAGCTTCCGGGGGGAAACGCCTGGTATCTTTATAGTCCTGTCGGGTTTCGCCACCTCTGGCTTGAGCGTCGATTTTTGTGATGCTCGTCAGGGGGGCGGAGCCTATGGAAAAACGCCTGCGGTGCTGGCTTCTTCCGGTGCTTTGCTTTTTGCTCACATGTTCTTTCCGGCTTTATCCCCTGATTCTGTGGATAACCGTATTACCGCCTTTGAGTGAGCTGACACCGCTCGCCGCAGTCGAACGACCGAGCGTAGCGAGTCAGTGAGCGAGGAAGCGGAAGAGCGCCTTATGTGACATTTTCTCCTTACGCTCTGTTGTGCCGTTCGGCATCCTGCCCTGAGCGTTATATCTCTGTGCTATTTTCTACTTCAAAGCGTGTCTGTATGCTGTTCTGGAG",
+            "length": 3306,
+            "complete": true,
+            "type": "plasmid",
+            "topology": "circular",
+            "simple_id": "contig_1",
+            "orig_id": "NC_002127.1",
+            "orig_description": "Escherichia coli O157:H7 str. Sakai plasmid pOSAK1, complete sequence",
+            "name": "unnamed1"
+        }
+    ],
+    "run": {
+        "start": "2022-05-05 15:12:50",
+        "end": "2022-05-05 15:12:51"
+    },
+    "version": {
+        "bakta": "1.4.0",
+        "db": "3.0"
+    }
+}
\ No newline at end of file