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planemo upload for repository https://github.com/brsynth/galaxytools/tree/main/tools commit d8cc8b87fdb0374745b5420f2da7f08ae905c222-dirty
author tduigou
date Wed, 16 Jul 2025 14:51:52 +0000
parents 5db1c2b9edb8
children
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{
    "summary": {
        "num_errors": 0,
        "num_failures": 0,
        "num_skips": 0,
        "num_tests": 1
    },
    "tests": [
        {
            "data": {
                "inputs": {
                    "genbank_files": {
                        "id": "c483dc6e4815613d",
                        "src": "hdca"
                    },
                    "json_generating": false,
                    "json_use|json_conf": {
                        "id": "aa2843b1b277b7a7",
                        "src": "hda"
                    },
                    "json_use|use_json_paramers": true
                },
                "job": {
                    "command_line": "python '/home/rkhaled/galaxytools/tools/seq_to_db/save_to_db.py' --input '/tmp/tmpac_768cd/files/d/4/1/dataset_d41458b9-ed0a-4b73-83bd-c0b05e03f3ca.dat,/tmp/tmpac_768cd/files/3/2/3/dataset_3234dfd4-c4b6-42fb-b254-e23532f04d7a.dat,/tmp/tmpac_768cd/files/5/c/3/dataset_5c34ee15-4ade-4ee7-9068-607cee72ba4f.dat,/tmp/tmpac_768cd/files/7/9/7/dataset_7970a203-ec8d-40ea-845f-eaa66f55ac7b.dat,/tmp/tmpac_768cd/files/b/c/5/dataset_bc5a286c-1a56-4506-90e2-1687f93f24d0.dat' --use_json_paramers 'true' --json_conf '/tmp/tmpac_768cd/files/5/7/3/dataset_57302268-f98c-4e9d-9812-c2e5bda507f5.dat' --output '/tmp/tmpac_768cd/job_working_directory/000/7/outputs/dataset_8bb5f859-22ca-4d7f-bb07-cfbb3ca3a04f.dat' --file_name_mapping '/tmp/tmpac_768cd/files/d/4/1/dataset_d41458b9-ed0a-4b73-83bd-c0b05e03f3ca.dat:p7_L7Ae-Weiss.gb,/tmp/tmpac_768cd/files/3/2/3/dataset_3234dfd4-c4b6-42fb-b254-e23532f04d7a.dat:p6_Nt-IgKLsequence.gb,/tmp/tmpac_768cd/files/5/c/3/dataset_5c34ee15-4ade-4ee7-9068-607cee72ba4f.dat:p6_Kozak-ATG.gb,/tmp/tmpac_768cd/files/7/9/7/dataset_7970a203-ec8d-40ea-845f-eaa66f55ac7b.dat:p4_Kt-L7Ae-Weiss.gb,/tmp/tmpac_768cd/files/b/c/5/dataset_bc5a286c-1a56-4506-90e2-1687f93f24d0.dat:HC_Amp_ccdB.gb' --json_generating 'false' --json_output 'XXXX'",
                    "command_version": "",
                    "copied_from_job_id": null,
                    "create_time": "2025-07-16T14:50:01.488998",
                    "dependencies": [],
                    "exit_code": 0,
                    "external_id": "166724",
                    "galaxy_version": "25.0",
                    "handler": null,
                    "history_id": "c483dc6e4815613d",
                    "id": "bcb3b45a1cc4a671",
                    "inputs": {
                        "genbank_files1": {
                            "id": "c483dc6e4815613d",
                            "src": "hda",
                            "uuid": "d41458b9-ed0a-4b73-83bd-c0b05e03f3ca"
                        },
                        "genbank_files2": {
                            "id": "c4d3b2f0c36d8241",
                            "src": "hda",
                            "uuid": "3234dfd4-c4b6-42fb-b254-e23532f04d7a"
                        },
                        "genbank_files3": {
                            "id": "69de8fd4747f3c3b",
                            "src": "hda",
                            "uuid": "5c34ee15-4ade-4ee7-9068-607cee72ba4f"
                        },
                        "genbank_files4": {
                            "id": "941f1e1f3cfa391c",
                            "src": "hda",
                            "uuid": "7970a203-ec8d-40ea-845f-eaa66f55ac7b"
                        },
                        "genbank_files5": {
                            "id": "3a97944c68e74177",
                            "src": "hda",
                            "uuid": "bc5a286c-1a56-4506-90e2-1687f93f24d0"
                        },
                        "json_use|json_conf": {
                            "id": "aa2843b1b277b7a7",
                            "src": "hda",
                            "uuid": "57302268-f98c-4e9d-9812-c2e5bda507f5"
                        }
                    },
                    "job_messages": [],
                    "job_metrics": [],
                    "job_runner_name": null,
                    "job_stderr": "",
                    "job_stdout": "",
                    "model_class": "Job",
                    "output_collections": {},
                    "outputs": {
                        "output": {
                            "id": "bcb3b45a1cc4a671",
                            "src": "hda",
                            "uuid": "8bb5f859-22ca-4d7f-bb07-cfbb3ca3a04f"
                        }
                    },
                    "params": {
                        "__input_ext": "\"input\"",
                        "chromInfo": "\"/tmp/tmpac_768cd/galaxy-dev/tool-data/shared/ucsc/chrom/?.len\"",
                        "dbkey": "\"?\"",
                        "genbank_files": "{\"values\": [{\"id\": 1, \"src\": \"hdca\"}]}",
                        "json_generating": "false",
                        "json_use": "{\"__current_case__\": 1, \"json_conf\": {\"values\": [{\"id\": 6, \"src\": \"hda\"}]}, \"use_json_paramers\": true}"
                    },
                    "state": "ok",
                    "stderr": "",
                    "stdout": "Connected to database.\nProcessing file: dataset_d41458b9-ed0a-4b73-83bd-c0b05e03f3ca.dat(p7_L7Ae-Weiss)\nProcessing file: dataset_3234dfd4-c4b6-42fb-b254-e23532f04d7a.dat(p6_Nt-IgKLsequence)\nProcessing file: dataset_5c34ee15-4ade-4ee7-9068-607cee72ba4f.dat(p6_Kozak-ATG)\nProcessing file: dataset_7970a203-ec8d-40ea-845f-eaa66f55ac7b.dat(p4_Kt-L7Ae-Weiss)\nProcessing file: dataset_bc5a286c-1a56-4506-90e2-1687f93f24d0.dat(HC_Amp_ccdB)\nInserted 5 fragments.\nFragment names written to '/tmp/tmpac_768cd/job_working_directory/000/7/outputs/dataset_8bb5f859-22ca-4d7f-bb07-cfbb3ca3a04f.dat'.\n",
                    "tool_id": "seq_to_db",
                    "tool_stderr": "",
                    "tool_stdout": "Connected to database.\nProcessing file: dataset_d41458b9-ed0a-4b73-83bd-c0b05e03f3ca.dat(p7_L7Ae-Weiss)\nProcessing file: dataset_3234dfd4-c4b6-42fb-b254-e23532f04d7a.dat(p6_Nt-IgKLsequence)\nProcessing file: dataset_5c34ee15-4ade-4ee7-9068-607cee72ba4f.dat(p6_Kozak-ATG)\nProcessing file: dataset_7970a203-ec8d-40ea-845f-eaa66f55ac7b.dat(p4_Kt-L7Ae-Weiss)\nProcessing file: dataset_bc5a286c-1a56-4506-90e2-1687f93f24d0.dat(HC_Amp_ccdB)\nInserted 5 fragments.\nFragment names written to '/tmp/tmpac_768cd/job_working_directory/000/7/outputs/dataset_8bb5f859-22ca-4d7f-bb07-cfbb3ca3a04f.dat'.\n",
                    "update_time": "2025-07-16T14:50:07.342567",
                    "user_email": "planemo@galaxyproject.org",
                    "user_id": "c483dc6e4815613d"
                },
                "status": "success",
                "test_index": 0,
                "time_seconds": 35.08016586303711,
                "tool_id": "seq_to_db",
                "tool_version": "0.3.0+galaxy2"
            },
            "has_data": true,
            "id": "seq_to_db-0"
        }
    ],
    "version": "0.1"
}