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

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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{
    "summary": {
        "num_errors": 0,
        "num_failures": 0,
        "num_skips": 0,
        "num_tests": 2
    },
    "tests": [
        {
            "data": {
                "inputs": {
                    "db|db_request|db_config|annotation_column": "annotation",
                    "db|db_request|db_config|db_uri": "postgresql://postgres:RK17@localhost:5432/test_fragments_db",
                    "db|db_request|db_config|fragment_column": "fragment",
                    "db|db_request|db_config|sequence_column": "sequence",
                    "db|db_request|db_config|table_name": "sample",
                    "db|db_request|execution": true
                },
                "job": {
                    "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'",
                    "command_version": "",
                    "copied_from_job_id": null,
                    "create_time": "2025-06-11T15:59:58.065310",
                    "dependencies": [],
                    "exit_code": 0,
                    "external_id": "75561",
                    "galaxy_version": "24.2",
                    "handler": null,
                    "history_id": "6ee26cd2a9b017f6",
                    "id": "6ee26cd2a9b017f6",
                    "inputs": {},
                    "job_messages": [],
                    "job_metrics": [],
                    "job_runner_name": null,
                    "job_stderr": "",
                    "job_stdout": "",
                    "model_class": "Job",
                    "output_collections": {},
                    "outputs": {
                        "output_json": {
                            "id": "6ee26cd2a9b017f6",
                            "src": "hda",
                            "uuid": "adbe4688-ac5a-4157-9d00-bd44d8e5925a"
                        }
                    },
                    "params": {
                        "__input_ext": "\"input\"",
                        "chromInfo": "\"/tmp/tmpetlap50a/galaxy-dev/tool-data/shared/ucsc/chrom/?.len\"",
                        "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}}",
                        "dbkey": "\"?\""
                    },
                    "state": "ok",
                    "stderr": "",
                    "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}",
                    "tool_id": "json_db_config_generating",
                    "tool_stderr": "",
                    "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}",
                    "update_time": "2025-06-11T16:00:13.304790",
                    "user_email": "planemo@galaxyproject.org",
                    "user_id": "6ee26cd2a9b017f6"
                },
                "status": "success",
                "test_index": 0,
                "time_seconds": 15.370232105255127,
                "tool_id": "json_db_config_generating",
                "tool_version": "0.1.0+galaxy2"
            },
            "has_data": true,
            "id": "json_db_config_generating-0"
        },
        {
            "data": {
                "inputs": {},
                "job": {
                    "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'",
                    "command_version": "",
                    "copied_from_job_id": null,
                    "create_time": "2025-06-11T16:00:13.510772",
                    "dependencies": [],
                    "exit_code": 0,
                    "external_id": "75631",
                    "galaxy_version": "24.2",
                    "handler": null,
                    "history_id": "39ef7b54816acc5a",
                    "id": "39ef7b54816acc5a",
                    "inputs": {},
                    "job_messages": [],
                    "job_metrics": [],
                    "job_runner_name": null,
                    "job_stderr": "",
                    "job_stdout": "",
                    "model_class": "Job",
                    "output_collections": {},
                    "outputs": {
                        "output_json": {
                            "id": "39ef7b54816acc5a",
                            "src": "hda",
                            "uuid": "c331c972-0356-4042-917b-f63fe99f938d"
                        }
                    },
                    "params": {
                        "__input_ext": "\"input\"",
                        "chromInfo": "\"/tmp/tmpetlap50a/galaxy-dev/tool-data/shared/ucsc/chrom/?.len\"",
                        "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}}",
                        "dbkey": "\"?\""
                    },
                    "state": "ok",
                    "stderr": "",
                    "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}",
                    "tool_id": "json_db_config_generating",
                    "tool_stderr": "",
                    "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}",
                    "update_time": "2025-06-11T16:00:19.478490",
                    "user_email": "planemo@galaxyproject.org",
                    "user_id": "6ee26cd2a9b017f6"
                },
                "status": "success",
                "test_index": 1,
                "time_seconds": 6.3762428760528564,
                "tool_id": "json_db_config_generating",
                "tool_version": "0.1.0+galaxy2"
            },
            "has_data": true,
            "id": "json_db_config_generating-1"
        }
    ],
    "version": "0.1"
}