{ "id": "1178", "status": "in progress", "provenance": { "desc_version": "2", "data_version": "1", "uploaded": { "by": "Felipe Munoz", "date": "2014-05-07T10:22:07" }, "modified": [ { "by": "Luis Larrondo", "date": "2015-03-25T22:07:43", "version": "2.1" }, { "by": "Felipe Munoz", "date": "2015-03-13T13:59:07", "version": "2.1" }, { "by": "SYSTEM USER", "date": "2014-09-15T16:54:04" }, { "by": "SYSTEM USER", "date": "2014-09-08T18:30:39" }, { "by": "Felipe Munoz", "date": "2014-05-07T10:24:18" }, { "by": "Felipe Munoz", "date": "2014-05-07T10:22:30" }, { "by": "Felipe Munoz", "date": "2014-05-07T10:22:07" }, { "by": "Felipe Munoz", "date": "2014-05-07T10:22:07" } ] }, "description_file": { "id": "0", "file_type": "description file", "original_name": "description file", "version": [ { "id": "1", "file_type": "description file", "content_type": "text/xml", "original_name": "description file", "local_name": "1178_dsc.1.xml", "local_path": "/disk/data/robust/biodare3_prod/Robust/Storage/1178/1178_dsc.1.xml", "uploaded": { "by": "Felipe Munoz", "date": "2014-05-07T10:22:30" } }, { "id": "0", "file_type": "description file", "content_type": "text/xml", "original_name": "description file", "local_name": "1178_dsc.xml", "local_path": "/disk/data/robust/biodare3_prod/Robust/Storage/1178/1178_dsc.xml", "uploaded": { "by": "Felipe Munoz", "date": "2014-05-07T10:22:07" } } ] }, "pedro_file": { "id": "0", "file_type": "pedro file", "original_name": "pedro file", "version": { "id": "0", "file_type": "pedro file", "content_type": "text/xml", "original_name": "EntrainmentControls.xml", "local_name": "EntrainmentControls.xml", "local_path": "/disk/data/robust/biodare3_prod/Robust/Storage/1178/EntrainmentControls.xml", "uploaded": { "by": "Felipe Munoz", "date": "2014-05-07T10:22:07", "version": "1" } } }, "bibliographyFile": { "id": "0", "file_type": "BIBLIOGRAPHY", "original_name": "1178_bibl.xml", "version": { "id": "2", "file_type": "BIBLIOGRAPHY", "content_type": "text/plain", "original_name": "1178_bibl.xml", "local_name": "1178_bibl.xml", "local_path": "/localdisk/data/biodare/biodare3_prod/Robust/Storage/1178/1178_bibl.xml", "uploaded": { "by": "Felipe Munoz", "date": "2015-03-13T13:59:07", "version": "2" } } }, "ppaJobsFile": { "id": "0", "file_type": "PPA jobs", "original_name": "PPA_JOBS_FILE.xml", "version": { "id": "0", "file_type": "jobs file", "content_type": "text/plain", "original_name": "PPA_JOBS_FILE.xml", "local_name": "PPA_JOBS_FILE.xml", "local_path": "/disk/data/robust/biodare3_prod/Robust/Storage/1178/PPA_JOBS_FILE.xml", "uploaded": { "by": "Felipe Munoz", "date": "2014-05-07T10:24:18" } } }, "ppaNewStatsFile": { "id": "0", "file_type": "PPA stats", "original_name": "NEW_PPA_STATS_FILE.xml", "version": { "id": "0", "file_type": "stats file", "content_type": "text/plain", "original_name": "NEW_PPA_STATS_FILE.xml", "local_name": "NEW_PPA_STATS_FILE.xml", "local_path": "/disk/data/robust/biodare3_prod/Robust/Storage/1178/NEW_PPA_STATS_FILE.xml", "uploaded": { "by": "Felipe Munoz", "date": "2014-05-07T10:24:18" } } }, "ppaNewResultsFile": { "id": "0", "file_type": "PPA results", "original_name": "NEW_PPA_RESULTS_FILE.xml", "version": { "id": "0", "file_type": "results file", "content_type": "text/plain", "original_name": "NEW_PPA_RESULTS_FILE.xml", "local_name": "NEW_PPA_RESULTS_FILE.xml", "local_path": "/disk/data/robust/biodare3_prod/Robust/Storage/1178/NEW_PPA_RESULTS_FILE.xml", "uploaded": { "by": "Felipe Munoz", "date": "2014-05-07T10:24:18" } } }, "data_file": { "id": "0", "file_type": "data file", "original_name": "entrenamiento o no.xlsx", "version": { "id": "0", "file_type": "data file", "content_type": "application/vnd.openxmlformats-officedocument.spreadsheetml.sheet", "original_name": "entrenamiento o no.xlsx", "local_name": "entrenamiento o no.xlsx", "local_path": "/disk/data/robust/biodare3_prod/Robust/Storage/1178/entrenamiento o no.xlsx", "uploaded": { "by": "Felipe Munoz", "date": "2014-05-07T10:22:30", "version": "1" }, "parameter": [ { "name": "interval", "value": "0.333333333333333" }, { "name": "background", "value": "none" }, { "name": "start_time", "value": "0" }, { "name": "diff_length", "value": "false" } ] } }, "std_raw_file": { "id": "0", "file_type": "data file", "original_name": "STANDARD_RAWDATAFILE.txt", "version": { "id": "0", "file_type": "data file", "content_type": "text/plain", "original_name": "STANDARD_RAWDATAFILE.txt", "local_name": "STANDARD_RAWDATAFILE.txt", "local_path": "/disk/data/robust/biodare3_prod/Robust/Storage/1178/STANDARD_RAWDATAFILE.txt", "uploaded": { "by": "Felipe Munoz", "date": "2014-05-07T10:22:30" }, "parameter": [ { "name": "interval", "value": "0.333333333333333" }, { "name": "background", "value": "none" }, { "name": "start_time", "value": "0" }, { "name": "diff_length", "value": "false" } ] } }, "numeric_file": { "id": "0", "file_type": "data file", "original_name": "STANDARD_DATAFILE.txt", "version": { "id": "0", "file_type": "data file", "content_type": "text/plain", "original_name": "STANDARD_DATAFILE.txt", "local_name": "STANDARD_DATAFILE.txt", "local_path": "/disk/data/robust/biodare3_prod/Robust/Storage/1178/STANDARD_DATAFILE.txt", "uploaded": { "by": "Felipe Munoz", "date": "2014-05-07T10:22:30" }, "parameter": [ { "name": "interval", "value": "0.333333333333333" }, { "name": "background", "value": "none" }, { "name": "start_time", "value": "0" }, { "name": "diff_length", "value": "false" } ] } }, "security": { "owner": "fsmunoz", "supervisor": "llarrond", "allowedToRead": [ "larrondo", "public" ] }, "open_access_info": { "grantedBy": "llarrond", "grantedOn": "2015-03-25T22:07:43", "licence": "CC_BY" }, "desc": { "experiment_type": "Luciferase exp", "id": "1178", "status": "in progress", "name": "Entrainment Control Analysis", "purpose": "Compare Period Calculations using entrainment and non entrainment strains for 72 hours", "provenance": { "site": "Larrondo", "author": "Felipe Munoz", "start_date": "2012-08-03" }, "growth_condition": [ { "name": "LL", "medium": "LNN-CCD", "incubation": "72 hours in 25C", "growth_space": "Percival", "duration": "3.0", "temperature_conditions": { "label": "const. 25.0C", "env_conditions": { "type": "constant_temp", "label": "const. 25.0C", "duration": "3", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "3", "cycle_length": "24", "base_value": "25.0", "second_value": "25.0" } } }, "light_conditions": { "label": "W: LL", "light_channel": { "spectrum": "white", "intensity": "40", "source": "tube", "env_conditions": { "type": "constant_light", "label": "LL", "duration": "3", "env_day": { "type": "constant_light", "label": "constant light", "duration": "3", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "24:00" } } } } }, "pH": { "label": null, "env_conditions": { "type": "constant", "label": "constant", "duration": "0", "env_day": { "type": "constant", "label": "constant", "duration": "0", "cycle_length": "24", "base_value": "5.8", "second_value": "5.8" } } } }, { "name": "LD", "medium": "LNN-CCD", "incubation": "72 hours at 4C", "growth_space": "Percival", "duration": "3.0", "temperature_conditions": { "label": "const. 25.0C", "env_conditions": { "type": "constant_temp", "label": "const. 25.0C", "duration": "3", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "3", "cycle_length": "24", "base_value": "25.0", "second_value": "25.0" } } }, "light_conditions": { "label": "W: LD 12:00:12:00", "light_channel": { "spectrum": "white", "intensity": "40", "source": "LED", "env_conditions": { "type": "diurnal_light", "label": "LD 12:00:12:00", "duration": "3", "env_day": { "type": "diurnal_light", "label": "diurnal light", "duration": "3", "cycle_length": "24", "base_value": "0.0", "second_value": "100.0", "env_period": { "start_time": "0:00", "duration": "12:00" } } } } }, "pH": { "label": null, "env_conditions": { "type": "constant", "label": "constant", "duration": "0", "env_day": { "type": "constant", "label": "constant", "duration": "0", "cycle_length": "24", "base_value": "5.8", "second_value": "5.8" } } } } ], "experimental_condition": { "name": "Free Running", "medium": "LNN-CCD", "growth_space": "Percival", "duration": "5.0", "temperature_conditions": { "label": "const. 25.0C", "env_conditions": { "type": "constant_temp", "label": "const. 25.0C", "duration": "5", "env_day": { "type": "constant_temp", "label": "constant temperature", "duration": "5", "cycle_length": "24", "base_value": "25.0", "second_value": "25.0" } } }, "light_conditions": { "label": "W: DD", "light_channel": { "spectrum": "white", "intensity": "40", "source": "LED", "env_conditions": { "type": "constant_dark", "label": "DD", "duration": "5", "env_day": { "type": "constant_dark", "label": "constant dark", "duration": "5", "cycle_length": "24", "base_value": "0.0", "second_value": "0.0" } } } }, "pH": { "label": null, "env_conditions": { "type": "constant", "label": "constant", "duration": "0", "env_day": { "type": "constant", "label": "constant", "duration": "0", "cycle_length": "24", "base_value": "5.8", "second_value": "5.8" } } } }, "measurement": { "technique": "Luciferase luminescence", "equipment": "CCD Camera", "param": [ { "@name": "RD interval", "@value": "0.333333333333333" }, { "@name": "RD background", "@value": "none" }, { "@name": "RD start_time", "@value": "0" }, { "@name": "RD diff_length", "@value": "false" } ] }, "sample_preparation": null, "samples": { "sample": [ { "sample_id": "1", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "4", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LL", "experiment_cond_name": "Free Running", "ignored": "false", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "2", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "4", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LL", "experiment_cond_name": "Free Running", "ignored": "false", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "3", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "4", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LL", "experiment_cond_name": "Free Running", "ignored": "false", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "4", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "3", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LL", "experiment_cond_name": "Free Running", "ignored": "false", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "5", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "3", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LL", "experiment_cond_name": "Free Running", "ignored": "false", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "6", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "3", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LL", "experiment_cond_name": "Free Running", "ignored": "false", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "7", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "4", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LD", "experiment_cond_name": "Free Running", "ignored": "false", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "8", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "4", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LD", "experiment_cond_name": "Free Running", "ignored": "false", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "9", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "4", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LD", "experiment_cond_name": "Free Running", "ignored": "false", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "10", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "3", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LD", "experiment_cond_name": "Free Running", "ignored": "false", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "11", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "3", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LD", "experiment_cond_name": "Free Running", "ignored": "false", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "12", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "3", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LD", "experiment_cond_name": "Free Running", "ignored": "false", "param": { "@name": "TAG", "@value": "Luc" } } ] } }, "pedro": { "@xmlns:xsi": "http://www.w3.org/2001/XMLSchema-instance", "@xsi:schemaLocation": "/Users/felipemunoz/Desktop/Lorrando/models/neuro/model/newluc_model.xsd", "id": "will be updated by the system", "status": "in progress", "name": "Entrainment Control Analysis", "purpose": "Compare Period Calculations using entrainment and non entrainment strains for 72 hours", "provenance": { "site": "Larrondo", "author": "Felipe Munoz", "start_date": "2012-08-03" }, "growth_condition": [ { "name": "LL", "medium": "LNN-CCD", "incubation": "72 hours in 25C", "growth_space": "Percival", "duration": "3", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "25" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "40", "source": "tube", "constant_light": { "cycle_length": "24" } } }, "pH": { "settings": { "const": { "base_value": "5.8" } } } }, { "name": "LD", "medium": "LNN-CCD", "incubation": "72 hours at 4C", "growth_space": "Percival", "duration": "3", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "25" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "40", "source": "LED", "diurnal_light": { "cycle_length": "24", "start_time": "0", "duration": "12" } } }, "pH": { "settings": { "const": { "base_value": "5.8" } } } } ], "experimental_condition": { "name": "Free Running", "medium": "LNN-CCD", "growth_space": "Percival", "duration": "5", "temperature_conditions": { "constant_temp": { "cycle_length": "24", "base_temp": "25" } }, "light_conditions": { "light_channel": { "spectrum": "white", "intensity": "40", "source": "LED", "constant_dark": { "cycle_length": "24" } } }, "pH": { "settings": { "const": { "base_value": "5.8" } } } }, "measurement": { "technique": "Luciferase luminescence", "equipment": "CCD Camera" }, "sample_preparation": null, "samples": { "sample": [ { "sample_id": "1", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "4", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LL", "experiment_cond_name": "Free Running", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "2", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "4", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LL", "experiment_cond_name": "Free Running", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "3", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "4", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LL", "experiment_cond_name": "Free Running", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "4", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "3", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LL", "experiment_cond_name": "Free Running", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "5", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "3", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LL", "experiment_cond_name": "Free Running", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "6", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "3", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LL", "experiment_cond_name": "Free Running", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "7", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "4", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LD", "experiment_cond_name": "Free Running", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "8", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "4", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LD", "experiment_cond_name": "Free Running", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "9", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "4", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LD", "experiment_cond_name": "Free Running", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "10", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "3", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LD", "experiment_cond_name": "Free Running", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "11", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "3", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LD", "experiment_cond_name": "Free Running", "param": { "@name": "TAG", "@value": "Luc" } }, { "sample_id": "12", "sample_type": "Spores", "origin": "unquantified", "growth_stage": "seedling", "age": "7", "genetic_info": { "species": "Neurospora crassa", "background": "74A", "genotype": "Wild Type", "line": "3", "provenance": "Robust stock" }, "marker": "Pcbox", "growth_cond_name": "LD", "experiment_cond_name": "Free Running", "param": { "@name": "TAG", "@value": "Luc" } } ] } }, "biblio": { "principal": "Luis Larrondo", "institution": "Pontificia Universidad Católica de Chile", "author": "Felipe Munoz" } }