{
    "summary": {
        "num_errors": 0,
        "num_failures": 0,
        "num_skips": 0,
        "num_tests": 2
    },
    "tests": [
        {
            "data": {
                "inputs": {
                    "DB|annotation_column": "annotation",
                    "DB|db_uri": "postgresql://postgres:RK17@localhost:5432/test_fragments_db",
                    "DB|execution": true,
                    "DB|fragment_column": "fragment",
                    "DB|sequence_column": "sequence",
                    "DB|table_name": "sample",
                    "DnaOptimizationProblemClass": "DnaOptimizationProblem",
                    "assembly_plan_name": "Type2sRestrictionAssembly",
                    "avoid_patterns": "BsaI_site             nNotI_site             nXbaI_site             nClaI_site             n8x1mer",
                    "enzyme": "auto",
                    "gc_constraints": "mini=0.3, maxi=0.7, window=100             mini=0.1, maxi=0.9, window=100",
                    "hairpin_constraints": "stem_size=20, hairpin_window=200",
                    "kmer_size": "15",
                    "methylation_protection": true,
                    "topology": "circular"
                },
                "job": {
                    "command_line": "python3 -c \"import json; params = { 'DnaOptimizationProblemClass': 'DnaOptimizationProblem', 'methylation_protection': 'true', 'allow_edits': 'true', 'avoid_patterns': 'BsaI_site             nNotI_site             nXbaI_site             nClaI_site             n8x1mer', 'hairpin_constraints': 'stem_size=20, hairpin_window=200', 'gc_constraints': 'mini=0.3, maxi=0.7, window=100             mini=0.1, maxi=0.9, window=100', 'kmer_size': '15', 'assembly_plan_name': 'Type2sRestrictionAssembly', 'topology': 'circular', 'enzyme': 'auto', 'execution': 'true', 'db_uri': 'postgresql://postgres:RK17__at__localhost:5432/test_fragments_db', 'table': 'sample', 'fragment_column': 'fragment', 'sequence_column': 'sequence', 'annotation_column': 'annotation' }; f = open('/tmp/tmpnxavcgf5/job_working_directory/000/1/outputs/dataset_53ffa695-5fab-48b3-b5f5-ff93f77bfc10.dat', 'w'); json.dump(params, f, indent=4); f.close()\" && echo DEBG && cat '/tmp/tmpnxavcgf5/job_working_directory/000/1/outputs/dataset_53ffa695-5fab-48b3-b5f5-ff93f77bfc10.dat' && echo DEBG && cat '/tmp/tmpnxavcgf5/job_working_directory/000/1/outputs/dataset_53ffa695-5fab-48b3-b5f5-ff93f77bfc10.dat'",
                    "command_version": "",
                    "copied_from_job_id": null,
                    "create_time": "2025-07-17T12:08:28.832103",
                    "dependencies": [],
                    "exit_code": 0,
                    "external_id": "135810",
                    "galaxy_version": "25.0",
                    "handler": null,
                    "history_id": "d952758136b0c83c",
                    "id": "d952758136b0c83c",
                    "inputs": {},
                    "job_messages": [],
                    "job_metrics": [],
                    "job_runner_name": null,
                    "job_stderr": "",
                    "job_stdout": "",
                    "model_class": "Job",
                    "output_collections": {},
                    "outputs": {
                        "output_json": {
                            "id": "d952758136b0c83c",
                            "src": "hda",
                            "uuid": "53ffa695-5fab-48b3-b5f5-ff93f77bfc10"
                        }
                    },
                    "params": {
                        "DB": "{\"annotation_column\": \"annotation\", \"db_uri\": \"postgresql://postgres:RK17@localhost:5432/test_fragments_db\", \"execution\": true, \"fragment_column\": \"fragment\", \"sequence_column\": \"sequence\", \"table_name\": \"sample\", \"user_json\": null}",
                        "DnaOptimizationProblemClass": "\"DnaOptimizationProblem\"",
                        "__input_ext": "\"input\"",
                        "allow_edits": "true",
                        "assembly_plan_name": "\"Type2sRestrictionAssembly\"",
                        "avoid_patterns": "\"BsaI_site             nNotI_site             nXbaI_site             nClaI_site             n8x1mer\"",
                        "chromInfo": "\"/tmp/tmpnxavcgf5/galaxy-dev/tool-data/shared/ucsc/chrom/?.len\"",
                        "dbkey": "\"?\"",
                        "enzyme": "\"auto\"",
                        "gc_constraints": "\"mini=0.3, maxi=0.7, window=100             mini=0.1, maxi=0.9, window=100\"",
                        "hairpin_constraints": "\"stem_size=20, hairpin_window=200\"",
                        "kmer_size": "\"15\"",
                        "methylation_protection": "true",
                        "topology": "\"circular\""
                    },
                    "state": "ok",
                    "stderr": "",
                    "stdout": "DEBG\n{\n    \"DnaOptimizationProblemClass\": \"DnaOptimizationProblem\",\n    \"methylation_protection\": \"true\",\n    \"allow_edits\": \"true\",\n    \"avoid_patterns\": \"BsaI_site             nNotI_site             nXbaI_site             nClaI_site             n8x1mer\",\n    \"hairpin_constraints\": \"stem_size=20, hairpin_window=200\",\n    \"gc_constraints\": \"mini=0.3, maxi=0.7, window=100             mini=0.1, maxi=0.9, window=100\",\n    \"kmer_size\": \"15\",\n    \"assembly_plan_name\": \"Type2sRestrictionAssembly\",\n    \"topology\": \"circular\",\n    \"enzyme\": \"auto\",\n    \"execution\": \"true\",\n    \"db_uri\": \"postgresql://postgres:RK17__at__localhost:5432/test_fragments_db\",\n    \"table\": \"sample\",\n    \"fragment_column\": \"fragment\",\n    \"sequence_column\": \"sequence\",\n    \"annotation_column\": \"annotation\"\n}DEBG\n{\n    \"DnaOptimizationProblemClass\": \"DnaOptimizationProblem\",\n    \"methylation_protection\": \"true\",\n    \"allow_edits\": \"true\",\n    \"avoid_patterns\": \"BsaI_site             nNotI_site             nXbaI_site             nClaI_site             n8x1mer\",\n    \"hairpin_constraints\": \"stem_size=20, hairpin_window=200\",\n    \"gc_constraints\": \"mini=0.3, maxi=0.7, window=100             mini=0.1, maxi=0.9, window=100\",\n    \"kmer_size\": \"15\",\n    \"assembly_plan_name\": \"Type2sRestrictionAssembly\",\n    \"topology\": \"circular\",\n    \"enzyme\": \"auto\",\n    \"execution\": \"true\",\n    \"db_uri\": \"postgresql://postgres:RK17__at__localhost:5432/test_fragments_db\",\n    \"table\": \"sample\",\n    \"fragment_column\": \"fragment\",\n    \"sequence_column\": \"sequence\",\n    \"annotation_column\": \"annotation\"\n}",
                    "tool_id": "parameters_maystro_workflow_2",
                    "tool_stderr": "",
                    "tool_stdout": "DEBG\n{\n    \"DnaOptimizationProblemClass\": \"DnaOptimizationProblem\",\n    \"methylation_protection\": \"true\",\n    \"allow_edits\": \"true\",\n    \"avoid_patterns\": \"BsaI_site             nNotI_site             nXbaI_site             nClaI_site             n8x1mer\",\n    \"hairpin_constraints\": \"stem_size=20, hairpin_window=200\",\n    \"gc_constraints\": \"mini=0.3, maxi=0.7, window=100             mini=0.1, maxi=0.9, window=100\",\n    \"kmer_size\": \"15\",\n    \"assembly_plan_name\": \"Type2sRestrictionAssembly\",\n    \"topology\": \"circular\",\n    \"enzyme\": \"auto\",\n    \"execution\": \"true\",\n    \"db_uri\": \"postgresql://postgres:RK17__at__localhost:5432/test_fragments_db\",\n    \"table\": \"sample\",\n    \"fragment_column\": \"fragment\",\n    \"sequence_column\": \"sequence\",\n    \"annotation_column\": \"annotation\"\n}DEBG\n{\n    \"DnaOptimizationProblemClass\": \"DnaOptimizationProblem\",\n    \"methylation_protection\": \"true\",\n    \"allow_edits\": \"true\",\n    \"avoid_patterns\": \"BsaI_site             nNotI_site             nXbaI_site             nClaI_site             n8x1mer\",\n    \"hairpin_constraints\": \"stem_size=20, hairpin_window=200\",\n    \"gc_constraints\": \"mini=0.3, maxi=0.7, window=100             mini=0.1, maxi=0.9, window=100\",\n    \"kmer_size\": \"15\",\n    \"assembly_plan_name\": \"Type2sRestrictionAssembly\",\n    \"topology\": \"circular\",\n    \"enzyme\": \"auto\",\n    \"execution\": \"true\",\n    \"db_uri\": \"postgresql://postgres:RK17__at__localhost:5432/test_fragments_db\",\n    \"table\": \"sample\",\n    \"fragment_column\": \"fragment\",\n    \"sequence_column\": \"sequence\",\n    \"annotation_column\": \"annotation\"\n}",
                    "update_time": "2025-07-17T12:08:33.771569",
                    "user_email": "planemo@galaxyproject.org",
                    "user_id": "d952758136b0c83c"
                },
                "status": "success",
                "test_index": 0,
                "time_seconds": 5.093859434127808,
                "tool_id": "parameters_maystro_workflow_2",
                "tool_version": "0.1.0"
            },
            "has_data": true,
            "id": "parameters_maystro_workflow_2-0"
        },
        {
            "data": {
                "inputs": {
                    "DB|user_json": {
                        "id": "b08444d846605ee4",
                        "src": "hda"
                    }
                },
                "job": {
                    "command_line": "cp '/tmp/tmpnxavcgf5/files/b/b/d/dataset_bbd9a440-a787-439e-9b36-2c1c45dae0a3.dat' '/tmp/tmpnxavcgf5/job_working_directory/000/3/outputs/dataset_6eed7c7c-77ce-4d77-b2ef-0a367df7e250.dat' && echo DEBG && cat '/tmp/tmpnxavcgf5/job_working_directory/000/3/outputs/dataset_6eed7c7c-77ce-4d77-b2ef-0a367df7e250.dat'",
                    "command_version": "",
                    "copied_from_job_id": null,
                    "create_time": "2025-07-17T12:08:43.857384",
                    "dependencies": [],
                    "exit_code": 0,
                    "external_id": "135995",
                    "galaxy_version": "25.0",
                    "handler": null,
                    "history_id": "b08444d846605ee4",
                    "id": "e67c2cbedbcb0da1",
                    "inputs": {
                        "DB|user_json": {
                            "id": "b08444d846605ee4",
                            "src": "hda",
                            "uuid": "bbd9a440-a787-439e-9b36-2c1c45dae0a3"
                        }
                    },
                    "job_messages": [],
                    "job_metrics": [],
                    "job_runner_name": null,
                    "job_stderr": "",
                    "job_stdout": "",
                    "model_class": "Job",
                    "output_collections": {},
                    "outputs": {
                        "output_json": {
                            "id": "e67c2cbedbcb0da1",
                            "src": "hda",
                            "uuid": "6eed7c7c-77ce-4d77-b2ef-0a367df7e250"
                        }
                    },
                    "params": {
                        "DB": "{\"annotation_column\": null, \"db_uri\": null, \"execution\": false, \"fragment_column\": null, \"sequence_column\": null, \"table_name\": null, \"user_json\": {\"values\": [{\"id\": 2, \"src\": \"hda\"}]}}",
                        "DnaOptimizationProblemClass": "\"DnaOptimizationProblem\"",
                        "__input_ext": "\"input\"",
                        "allow_edits": "true",
                        "assembly_plan_name": "\"Type2sRestrictionAssembly\"",
                        "avoid_patterns": null,
                        "chromInfo": "\"/tmp/tmpnxavcgf5/galaxy-dev/tool-data/shared/ucsc/chrom/?.len\"",
                        "dbkey": "\"?\"",
                        "enzyme": "\"auto\"",
                        "gc_constraints": null,
                        "hairpin_constraints": null,
                        "kmer_size": "\"\"",
                        "methylation_protection": "false",
                        "topology": "\"circular\""
                    },
                    "state": "ok",
                    "stderr": "",
                    "stdout": "DEBG\n{\n    \"DnaOptimizationProblemClass\":\"DnaOptimizationProblem\",\n    \"avoid_patterns\": \"BsaI_site\\nNotI_site\\nXbaI_site\\nClaI_site\\n8x1mer\",\n    \"hairpin_constraints\": \"stem_size=20, hairpin_window=200\\nstem_size=10, hairpin_window=100\",\n    \"gc_constraints\": \"mini=0.1, maxi=0.9\\nmini-0.3, maxi=0.7, window=50\",\n    \"kmer_size\": \"15\",\n    \"methylation_protection\":\"methylation_protection\",\n    \"allow_edits\":\"True\",\n    \"assembly_plan_name\": \"Type2sRestrictionAssembly\",\n    \"topology\": \"circular\",\n    \"enzyme\": \"auto\",\n    \"execution\": \"true\",\n    \"db_uri\": \"postgresql://postgres:RK17@localhost:5432/test_fragments_db\",\n    \"table\": \"sample\",\n    \"fragment_column\": \"fragment\",\n    \"sequence_column\": \"sequence\",\n    \"annotation_column\": \"annotation\"\n}\n",
                    "tool_id": "parameters_maystro_workflow_2",
                    "tool_stderr": "",
                    "tool_stdout": "DEBG\n{\n    \"DnaOptimizationProblemClass\":\"DnaOptimizationProblem\",\n    \"avoid_patterns\": \"BsaI_site\\nNotI_site\\nXbaI_site\\nClaI_site\\n8x1mer\",\n    \"hairpin_constraints\": \"stem_size=20, hairpin_window=200\\nstem_size=10, hairpin_window=100\",\n    \"gc_constraints\": \"mini=0.1, maxi=0.9\\nmini-0.3, maxi=0.7, window=50\",\n    \"kmer_size\": \"15\",\n    \"methylation_protection\":\"methylation_protection\",\n    \"allow_edits\":\"True\",\n    \"assembly_plan_name\": \"Type2sRestrictionAssembly\",\n    \"topology\": \"circular\",\n    \"enzyme\": \"auto\",\n    \"execution\": \"true\",\n    \"db_uri\": \"postgresql://postgres:RK17@localhost:5432/test_fragments_db\",\n    \"table\": \"sample\",\n    \"fragment_column\": \"fragment\",\n    \"sequence_column\": \"sequence\",\n    \"annotation_column\": \"annotation\"\n}\n",
                    "update_time": "2025-07-17T12:08:49.096516",
                    "user_email": "planemo@galaxyproject.org",
                    "user_id": "d952758136b0c83c"
                },
                "status": "success",
                "test_index": 1,
                "time_seconds": 15.298557996749878,
                "tool_id": "parameters_maystro_workflow_2",
                "tool_version": "0.1.0"
            },
            "has_data": true,
            "id": "parameters_maystro_workflow_2-1"
        }
    ],
    "version": "0.1"
}