Mercurial > repos > tduigou > json_db_config_generating

annotate output.json @ 5:40aa268ce07f draft default tip

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planemo upload for repository https://github.com/brsynth commit 3401816c949b538bd9c67e61cbe92badff6a4007-dirty
author tduigou
date Wed, 11 Jun 2025 16:00:37 +0000
parents 8eb6c417d4f5
children
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95757ea6c333 planemo upload for repository https://github.com/brsynth commit 6ae809b563b40bcdb6be2e74fe2a84ddad5484ae
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1 {
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2 "summary": {
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3 "num_errors": 0,
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4 "num_failures": 0,
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5 "num_skips": 0,
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6 "num_tests": 2
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7 },
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8 "tests": [
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9 {
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10 "data": {
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11 "inputs": {
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12 "db|db_request|db_config|annotation_column": "annotation",
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13 "db|db_request|db_config|db_uri": "postgresql://postgres:RK17@localhost:5432/test_fragments_db",
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14 "db|db_request|db_config|fragment_column": "fragment",
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15 "db|db_request|db_config|sequence_column": "sequence",
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16 "db|db_request|db_config|table_name": "sample",
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17 "db|db_request|execution": true
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18 },
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19 "job": {
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20 "command_line": "python3 -c \"import json; params = { 'execution': 'true', 'JSON_db_uri': 'postgresql://postgres:RK17__at__localhost:5432/test_fragments_db', 'JSON_table': 'sample', 'JSON_fragment_column': 'fragment', 'JSON_sequence_column': 'sequence', 'JSON_annotation_column': 'annotation' }; f = open('/tmp/tmpetlap50a/job_working_directory/000/1/outputs/dataset_adbe4688-ac5a-4157-9d00-bd44d8e5925a.dat', 'w'); json.dump(params, f, indent=4); f.close()\" && echo DEBUG && cat '/tmp/tmpetlap50a/job_working_directory/000/1/outputs/dataset_adbe4688-ac5a-4157-9d00-bd44d8e5925a.dat'",
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21 "command_version": "",
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22 "copied_from_job_id": null,
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23 "create_time": "2025-06-11T15:59:58.065310",
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24 "dependencies": [],
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25 "exit_code": 0,
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26 "external_id": "75561",
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27 "galaxy_version": "24.2",
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28 "handler": null,
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29 "history_id": "6ee26cd2a9b017f6",
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30 "id": "6ee26cd2a9b017f6",
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31 "inputs": {},
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32 "job_messages": [],
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33 "job_metrics": [],
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34 "job_runner_name": null,
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35 "job_stderr": "",
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36 "job_stdout": "",
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37 "model_class": "Job",
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38 "output_collections": {},
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39 "outputs": {
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40 "output_json": {
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41 "id": "6ee26cd2a9b017f6",
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42 "src": "hda",
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43 "uuid": "adbe4688-ac5a-4157-9d00-bd44d8e5925a"
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44 }
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45 },
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46 "params": {
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47 "__input_ext": "\"input\"",
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48 "chromInfo": "\"/tmp/tmpetlap50a/galaxy-dev/tool-data/shared/ucsc/chrom/?.len\"",
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49 "db": "{\"db_request\": {\"__current_case__\": 0, \"db_config\": {\"annotation_column\": \"annotation\", \"db_uri\": \"postgresql://postgres:RK17@localhost:5432/test_fragments_db\", \"fragment_column\": \"fragment\", \"sequence_column\": \"sequence\", \"table_name\": \"sample\"}, \"execution\": true}}",
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50 "dbkey": "\"?\""
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51 },
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52 "state": "ok",
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53 "stderr": "",
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54 "stdout": "DEBUG\n{\n \"execution\": \"true\",\n \"JSON_db_uri\": \"postgresql://postgres:RK17__at__localhost:5432/test_fragments_db\",\n \"JSON_table\": \"sample\",\n \"JSON_fragment_column\": \"fragment\",\n \"JSON_sequence_column\": \"sequence\",\n \"JSON_annotation_column\": \"annotation\"\n}",
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55 "tool_id": "json_db_config_generating",
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56 "tool_stderr": "",
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57 "tool_stdout": "DEBUG\n{\n \"execution\": \"true\",\n \"JSON_db_uri\": \"postgresql://postgres:RK17__at__localhost:5432/test_fragments_db\",\n \"JSON_table\": \"sample\",\n \"JSON_fragment_column\": \"fragment\",\n \"JSON_sequence_column\": \"sequence\",\n \"JSON_annotation_column\": \"annotation\"\n}",
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58 "update_time": "2025-06-11T16:00:13.304790",
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59 "user_email": "planemo@galaxyproject.org",
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60 "user_id": "6ee26cd2a9b017f6"
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61 },
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62 "status": "success",
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63 "test_index": 0,
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64 "time_seconds": 15.370232105255127,
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65 "tool_id": "json_db_config_generating",
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66 "tool_version": "0.1.0+galaxy2"
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67 },
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68 "has_data": true,
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69 "id": "json_db_config_generating-0"
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70 },
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71 {
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72 "data": {
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73 "inputs": {},
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74 "job": {
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75 "command_line": "python3 -c \"import json; params = { 'execution': 'false', 'JSON_db_uri': '', 'JSON_table': '', 'JSON_fragment_column': '', 'JSON_sequence_column': '', 'JSON_annotation_column': '' }; f = open('/tmp/tmpetlap50a/job_working_directory/000/2/outputs/dataset_c331c972-0356-4042-917b-f63fe99f938d.dat', 'w'); json.dump(params, f, indent=4); f.close()\" && echo DEBUG && cat '/tmp/tmpetlap50a/job_working_directory/000/2/outputs/dataset_c331c972-0356-4042-917b-f63fe99f938d.dat'",
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76 "command_version": "",
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77 "copied_from_job_id": null,
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78 "create_time": "2025-06-11T16:00:13.510772",
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79 "dependencies": [],
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80 "exit_code": 0,
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81 "external_id": "75631",
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82 "galaxy_version": "24.2",
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83 "handler": null,
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84 "history_id": "39ef7b54816acc5a",
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85 "id": "39ef7b54816acc5a",
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86 "inputs": {},
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87 "job_messages": [],
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88 "job_metrics": [],
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89 "job_runner_name": null,
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90 "job_stderr": "",
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91 "job_stdout": "",
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92 "model_class": "Job",
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93 "output_collections": {},
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94 "outputs": {
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95 "output_json": {
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96 "id": "39ef7b54816acc5a",
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97 "src": "hda",
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98 "uuid": "c331c972-0356-4042-917b-f63fe99f938d"
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99 }
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100 },
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101 "params": {
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102 "__input_ext": "\"input\"",
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103 "chromInfo": "\"/tmp/tmpetlap50a/galaxy-dev/tool-data/shared/ucsc/chrom/?.len\"",
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104 "db": "{\"db_request\": {\"__current_case__\": 1, \"db_config\": {\"annotation_column\": null, \"db_uri\": null, \"fragment_column\": null, \"sequence_column\": null, \"table_name\": null}, \"execution\": false}}",
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105 "dbkey": "\"?\""
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106 },
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107 "state": "ok",
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108 "stderr": "",
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109 "stdout": "DEBUG\n{\n \"execution\": \"false\",\n \"JSON_db_uri\": \"\",\n \"JSON_table\": \"\",\n \"JSON_fragment_column\": \"\",\n \"JSON_sequence_column\": \"\",\n \"JSON_annotation_column\": \"\"\n}",
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110 "tool_id": "json_db_config_generating",
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111 "tool_stderr": "",
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112 "tool_stdout": "DEBUG\n{\n \"execution\": \"false\",\n \"JSON_db_uri\": \"\",\n \"JSON_table\": \"\",\n \"JSON_fragment_column\": \"\",\n \"JSON_sequence_column\": \"\",\n \"JSON_annotation_column\": \"\"\n}",
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113 "update_time": "2025-06-11T16:00:19.478490",
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114 "user_email": "planemo@galaxyproject.org",
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115 "user_id": "6ee26cd2a9b017f6"
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116 },
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117 "status": "success",
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118 "test_index": 1,
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119 "time_seconds": 6.3762428760528564,
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120 "tool_id": "json_db_config_generating",
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121 "tool_version": "0.1.0+galaxy2"
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122 },
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123 "has_data": true,
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124 "id": "json_db_config_generating-1"
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125 }
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126 ],
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127 "version": "0.1"
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128 }