{ "_id": "6a1172e8acfb0bcc41cf8165", "Package": "RoME", "Type": "Package", "Title": "Multiple Checks on MEDITS Trawl Survey Data", "Version": "0.2.3", "Authors@R": "c(\nperson(\"Walter\", \"Zupa\", email = \"zupa@fondazionecoispa.org\",\nrole = c(\"aut\", \"cre\")),\nperson(\"Isabella\", \"Bitetto\", email = \"bitetto@fondazionecoispa.org\",\nrole = \"aut\"),\nperson(\"Maria Teresa\", \"Spedicato\", email = \"spedicato@fondazionecoispa.org\",\nrole = \"aut\"),\nperson(\"Loredana\", \"Casciaro\", email = \"casciaro@coispa.eu\",\nrole = \"rev\"),\nperson(\"Cosmidano\", \"Neglia\", email = \"neglia@coispa.eu\",\nrole = \"rev\")\n)", "Description": "Provides quality checks for MEDITS (International Bottom\nTrawl Survey in the Mediterranean) trawl survey exchange data\ntables (TA (Haul data), TB (Catch data), TC (Biological data),\nTE (Biological individual data), TL (Litter data)). The main\nfunction RoME() calls all check functions in a defined sequence\nto perform a complete quality control of TX (Generic exchange\ndata) data, including header validation, controlled-vocabulary\nchecks, cross-table consistency tests, and biological\nplausibility checks. No automatic correction is applied: the\npackage detects errors, warns the user, and specifies the type\nof error to ease data correction. Checks can be run\nsimultaneously on multi-year datasets. An embedded 'shiny'\napplication is also provided via run_RoME_app(). References\ndescribing the methods: MEDITS Working Group (2017)\n.", "License": "GPL-3", "Encoding": "UTF-8", "Language": "en-US", "LazyData": "true", "VignetteBuilder": "knitr", "RoxygenNote": "7.3.3", "NeedsCompilation": "no", "Packaged": { "Date": "2026-05-23 09:23:14 UTC", "User": "root" }, "Author": "Walter Zupa [aut, cre], Isabella Bitetto [aut], Maria Teresa\nSpedicato [aut], Loredana Casciaro [rev], Cosmidano Neglia\n[rev]", "Maintainer": "Walter Zupa ", "Repository": "https://cran.r-universe.dev", "Date/Publication": "2026-04-23 21:11:20 UTC", "RemoteUrl": "https://github.com/cran/RoME", "RemoteRef": "HEAD", "RemoteSha": "5675f8e6915dafded1263038b1a0f757cec38e33", "MD5sum": "01c50310519a738dcb4e1cbffb37c6ee", "_user": "cran", "_type": "src", "_file": "RoME_0.2.3.tar.gz", "_fileid": "79495982251442156d2b24a8d8cf9125e896908922d2688cc8eda734f3fed312", "_filesize": 2841542, "_sha256": "79495982251442156d2b24a8d8cf9125e896908922d2688cc8eda734f3fed312", "_created": "2026-05-23T09:23:14.000Z", "_published": "2026-05-23T09:27:04.283Z", "_distro": "noble", "_jobs": [ { "job": 77512145890, "time": 183, "config": "linux-devel-x86_64", "r": "4.7.0", "check": "OK", "artifact": "7175943317" }, { "job": 77512145898, "time": 178, "config": "linux-release-x86_64", "r": "4.6.0", "check": "OK", "artifact": "7175942995" }, { "job": 77511958183, "time": 235, "config": "source", "r": "4.6.0", "check": "OK", "artifact": "7175928258" }, { "job": 77512145901, "time": 128, "config": "wasm-release", "r": "4.6.0", "check": "OK", "artifact": "7175938610" } ], "_buildurl": "https://github.com/r-universe/cran/actions/runs/26329094271", "_status": "success", "_host": "GitHub-Actions", "_upstream": "https://github.com/cran/RoME", "_commit": { "id": "5675f8e6915dafded1263038b1a0f757cec38e33", "author": "Walter Zupa ", "committer": "cran-robot ", "message": "version 0.2.3\n", "time": 1776978680 }, "_maintainer": { "name": "Walter Zupa", "email": "zupa@fondazionecoispa.org" }, "_registered": true, "_dependencies": [ { "package": "R", "version": ">= 4.0", "role": "Depends" }, { "package": "timeDate", "role": "Imports" }, { "package": "stringr", "role": "Imports" }, { "package": "ggplot2", "role": "Imports" }, { "package": "rnaturalearth", "role": "Imports" }, { "package": "rnaturalearthdata", "role": "Imports" }, { "package": "zip", "role": "Imports" }, { "package": "maps", "role": "Imports" }, { "package": "sp", "role": "Imports" }, { "package": "dplyr", "role": "Imports" }, { "package": "ggrepel", "role": "Imports" }, { "package": "magrittr", "role": "Imports" }, { "package": "geosphere", "role": "Imports" }, { "package": "shiny", "role": "Imports" }, { "package": "knitr", "role": "Suggests" }, { "package": "rmarkdown", "role": "Suggests" }, { "package": "svDialogs", "role": "Suggests" }, { "package": "shinyjs", "role": "Suggests" } ], "_owner": "cran", "_selfowned": false, "_usedby": 0, "_updates": [ { "week": "2026-17", "n": 1 } ], "_tags": [ { "name": 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"check_hauls_TATL", "check_hauls_TBTA", "check_hauls_TLTA", "check_identical_records", "check_individual_weightTC", "check_individual_weightTE", "check_length", "check_length_class_codeTC", "check_mat_stages", "check_nb_per_sexTC", "check_nb_TE", "check_nbtotTB", "check_nm_TB", "check_no_empty_fields", "check_numeric_range", "check_position", "check_position_in_Med", "check_quadrant", "check_quasiidentical_records", "check_raising", "check_rubincode", "check_smallest_mature", "check_spawning_period", "check_species_TBTC", "check_step_length_distr", "check_stratum", "check_stratum_code", "check_subsampling", "check_swept_area", "check_TE_TC", "check_temperature", "check_type", "check_unique_valid_haul", "check_weight", "check_weight_tot_nb", "check_year", "checkHeader", "create_catch", "create_haul", "create_length", "create_strata", "dd.distance", "error.table", "graphs_TA", "haul_at_sea", "headers.conversion", "MEDITS.to.dd", "printError", "printError_cc", "RoME", "RoMEBScc", "RoMEcc", "RSufi_files", "run_RoME_app", "scheme_individual_data" ], "_datasets": [ { "name": "assTL", "title": "TL association between categories and sub-categories", "object": "assTL", "class": [ "data.frame" ], "fields": [ "LITTER_CATEGORY", "LITTER_SUB-CATEGORY" ], "rows": 74, "table": true, "tojson": true }, { "name": "classes", "title": "Class of fields", "object": "classes", "class": [ "data.frame" ], "fields": [ "RDBFIS", "MEDITS", "table", "type" ], "rows": 123, "table": true, "tojson": true }, { "name": "DataTargetSpecies", "title": "Length and weight ranges for relevant species", "object": "DataTargetSpecies", "class": [ "data.frame" ], "fields": [ "SPECIES", "WMIN", "WMIN05", "WMIN10", "WMIN25", "WMAX_75", "WMAX90", "WMAX95", "WMAX", "LMIN", "LMIN01", "LMIN05", "LMIN10", "LMIN25", "LMAX75", "LMAN90", "LMAX95", "LMAX99", "LMAX", "obs_in_TC", "FAUNISTIC_CATEGORY", "START_YEAR", "END_YEAR", "GROUP" ], "rows": 1318, "table": true, "tojson": true }, { "name": "GSAs", "title": "List of GFCM Geographical subareas (GSAs)", "object": "GSAs", "class": [ "spec_tbl_df", "tbl_df", "tbl", "data.frame" ], "fields": [ "GSA", "CODE", "Area" ], "rows": 31, "table": true, "tojson": true }, { "name": "list_g1_g2", "title": "List of G1 and G2 species", "object": "list_g1_g2", "class": [ "data.frame" ], "fields": [ "No", "Medit_LIST_proposal_2011", "Species_group_DCF", "MEDITS_G1", "MEDITS_G2", "Group", "Old_MEDITS_list", "Tot_No", "Tot_W", "Ind_Length", "Sex", "Mat_stage", "Age", "Ind_weight", "Date", "CODE", "English_common_name" ], "rows": 88, "table": true, "tojson": true }, { "name": "LW", "title": "Table of the Length-Weight parameters", "object": "LW", "class": [ "data.frame" ], "fields": [ "AREA", "SPECIES", "SEX", "a", "b" ], "rows": 476, "table": true, "tojson": true }, { "name": "mat_stages", "title": "Table of maturity stages", "object": "mat_stages", "class": [ "data.frame" ], "fields": [ "TYPE_OF_FILE", "FAUNISTIC_CATEGORY", "SEX", "MATURITY", "MATSUB", "code" ], "rows": 190, "table": true, "tojson": true }, { "name": "Maturity_parameters", "title": "Maturity parameters", "object": "Maturity_parameters", "class": [ "data.frame" ], "fields": [ "Species", "SEX", "min_L50", "max_L50", "smallest_mature_individual_observed", "min_length_SEX_INVERSION", "max_length_SEX_INVERSION", "Type_of_hermaphroditism", "Area", "Reference", "Start_reproductive_season", "End_reproductive_season" ], "rows": 182, "table": true, "tojson": true }, { "name": "MedSea", "title": "Shapefile of Mediterranean and Black Sea area", "object": "MedSea", "class": [ "SpatialPolygonsDataFrame" ], "fields": [], "table": false, "tojson": false }, { "name": "stratification_scheme", "title": "stratification_scheme", "object": "stratification_scheme", "class": [ "data.frame" ], "fields": [ "GSA", "COUNTRY", "STRATUM", "CODE", "SURF", "MIN_DEPTH", "MAX_DEPTH" ], "rows": 474, "table": true, "tojson": true }, { "name": "stratification_scheme_rapana", "title": "stratification_scheme_rapana", "object": "stratification_scheme_rapana", "class": [ "data.frame" ], "fields": [ "GSA", "COUNTRY", "STRATUM", "CODE", "SURF", "MIN_DEPTH", "MAX_DEPTH" ], "rows": 7, "table": true, "tojson": true }, { "name": "TA", "title": "TA", "object": "TA", "class": [ "data.frame" ], "fields": [ "TYPE_OF_FILE", "COUNTRY", "AREA", "VESSEL", "GEAR", "RIGGING", "DOORS", "YEAR", "MONTH", "DAY", "HAUL_NUMBER", "CODEND_CLOSING", "PART_OF_THE_CODEND", "SHOOTING_TIME", "SHOOTING_QUADRANT", "SHOOTING_LATITUDE", "SHOOTING_LONGITUDE", "SHOOTING_DEPTH", "HAULING_TIME", "HAULING_QUADRANT", "HAULING_LATITUDE", "HAULING_LONGITUDE", "HAULING_DEPTH", "HAUL_DURATION", "VALIDITY", "COURSE", "RECORDED_SPECIES", "DISTANCE", "VERTICAL_OPENING", "WING_OPENING", "GEOMETRICAL_PRECISION", "BRIDLES_LENGTH", "WARP_LENGTH", "WARP_DIAMETER", "HYDROLOGICAL_STATION", "OBSERVATIONS", "BOTTOM_TEMPERATURE_BEGINNING", "BOTTOM_TEMPERATURE_END", "MEASURING_SYSTEM", "NUMBER_OF_THE_STRATUM", "BOTTOM_SALINITY_BEGINNING", "BOTTOM_SALINITY_END", "MEASURING_SYSTEM_SALINITY" ], "rows": 100, "table": true, "tojson": true }, { "name": "TB", "title": "TB", "object": "TB", "class": [ "data.frame" ], "fields": [ "TYPE_OF_FILE", "COUNTRY", "AREA", "VESSEL", "YEAR", "MONTH", "DAY", "HAUL_NUMBER", "CODEND_CLOSING", "PART_OF_THE_CODEND", "FAUNISTIC_CATEGORY", "GENUS", "SPECIES", "NAME_OF_THE_REFERENCE_LIST", "TOTAL_WEIGHT_IN_THE_HAUL", "TOTAL_NUMBER_IN_THE_HAUL", "NB_OF_FEMALES", "NB_OF_MALES", "NB_OF_UNDETERMINED" ], "rows": 3059, "table": true, "tojson": true }, { "name": "TC", "title": "TC", "object": "TC", "class": [ "data.frame" ], "fields": [ "TYPE_OF_FILE", "COUNTRY", "AREA", "VESSEL", "YEAR", "MONTH", "DAY", "HAUL_NUMBER", "CODEND_CLOSING", "PART_OF_THE_CODEND", "FAUNISTIC_CATEGORY", "GENUS", "SPECIES", "LENGTH_CLASSES_CODE", "WEIGHT_OF_THE_FRACTION", "WEIGHT_OF_THE_SAMPLE_MEASURED", "SEX", "NO_OF_INDIVIDUAL_OF_THE_ABOVE_SEX_MEASURED", "LENGTH_CLASS", "MATURITY", "MATSUB", "NUMBER_OF_INDIVIDUALS_IN_THE_LENGTH_CLASS_AND_MATURITY_STAGE" ], "rows": 11185, "table": true, "tojson": true }, { "name": "TE", "title": "TE", "object": "TE", "class": [ "data.frame" ], "fields": [ "TYPE_OF_FILE", "COUNTRY", "AREA", "VESSEL", "YEAR", "MONTH", "DAY", "HAUL_NUMBER", "FAUNISTIC_CATEGORY", "GENUS", "SPECIES", "LENGTH_CLASSES_CODE", "SEX", "NO_PER_SEX_MEASURED_IN_SUB_SAMPLE_FOR_OTOLITH", "LENGTH_CLASS", "MATURITY", "MATSUB", "INDIVIDUAL_WEIGHT", "NO_PER_SEX_MEASURED_IN_SUB_SAMPLE_FOR_WEIGHT", "OTOLITH_SAMPLED", "NO_PER_SEX_MEASURED_IN_SUB_SAMPLE_FOR_AGEING", "OTOLITH_READ", "AGE", "OTOLITH_CODE", "RECORD_NUMBER" ], "rows": 3801, "table": true, "tojson": true }, { "name": "templateTA", "title": "Template haul data table (TA).", "object": "templateTA", "class": [ "data.frame" ], "fields": [ "TYPE_OF_FILE", "COUNTRY", "AREA", "VESSEL", "GEAR", "RIGGING", "DOORS", "YEAR", "MONTH", "DAY", "HAUL_NUMBER", "CODEND_CLOSING", "PART_OF_THE_CODEND", "SHOOTING_TIME", "SHOOTING_QUADRANT", "SHOOTING_LATITUDE", "SHOOTING_LONGITUDE", "SHOOTING_DEPTH", "HAULING_TIME", "HAULING_QUADRANT", "HAULING_LATITUDE", "HAULING_LONGITUDE", "HAULING_DEPTH", "HAUL_DURATION", "VALIDITY", "COURSE", "RECORDED_SPECIES", "DISTANCE", "VERTICAL_OPENING", "WING_OPENING", "GEOMETRICAL_PRECISION", "BRIDLES_LENGTH", "WARP_LENGTH", "WARP_DIAMETER", "HYDROLOGICAL_STATION", "OBSERVATIONS", "BOTTOM_TEMPERATURE_BEGINNING", "BOTTOM_TEMPERATURE_END", "MEASURING_SYSTEM", "NUMBER_OF_THE_STRATUM", "BOTTOM_SALINITY_BEGINNING", "BOTTOM_SALINITY_END", "MEASURING_SYSTEM_SALINITY" ], "rows": 0, "table": true, "tojson": true }, { "name": "templateTB", "title": "Template catch data table (TB).", "object": "templateTB", "class": [ "data.frame" ], "fields": [ "TYPE_OF_FILE", "COUNTRY", "AREA", "VESSEL", "YEAR", "MONTH", "DAY", "HAUL_NUMBER", "CODEND_CLOSING", "PART_OF_THE_CODEND", "FAUNISTIC_CATEGORY", "GENUS", "SPECIES", "NAME_OF_THE_REFERENCE_LIST", "TOTAL_WEIGHT_IN_THE_HAUL", "TOTAL_NUMBER_IN_THE_HAUL", "NB_OF_FEMALES", "NB_OF_MALES", "NB_OF_UNDETERMINED" ], "rows": 0, "table": true, "tojson": true }, { "name": "templateTC", "title": "Template biological data table (TC).", "object": "templateTC", "class": [ "data.frame" ], "fields": [ "TYPE_OF_FILE", "COUNTRY", "AREA", "VESSEL", "YEAR", "MONTH", "DAY", "HAUL_NUMBER", "CODEND_CLOSING", "PART_OF_THE_CODEND", "FAUNISTIC_CATEGORY", "GENUS", "SPECIES", "LENGTH_CLASSES_CODE", "WEIGHT_OF_THE_FRACTION", "WEIGHT_OF_THE_SAMPLE_MEASURED", "SEX", "NO_OF_INDIVIDUAL_OF_THE_ABOVE_SEX_MEASURED", "LENGTH_CLASS", "MATURITY", "MATSUB", "NUMBER_OF_INDIVIDUALS_IN_THE_LENGTH_CLASS_AND_MATURITY_STAGE" ], "rows": 0, "table": true, "tojson": true }, { "name": "templateTE", "title": "Template individual data table (TE).", "object": "templateTE", "class": [ "data.frame" ], "fields": [ "TYPE_OF_FILE", "COUNTRY", "AREA", "VESSEL", "YEAR", "MONTH", "DAY", "HAUL_NUMBER", "FAUNISTIC_CATEGORY", "GENUS", "SPECIES", "LENGTH_CLASSES_CODE", "SEX", "NO_PER_SEX_MEASURED_IN_SUB_SAMPLE_FOR_OTOLITH", "LENGTH_CLASS", "MATURITY", "MATSUB", "INDIVIDUAL_WEIGHT", "NO_PER_SEX_MEASURED_IN_SUB_SAMPLE_FOR_WEIGHT", "OTOLITH_SAMPLED", "NO_PER_SEX_MEASURED_IN_SUB_SAMPLE_FOR_AGEING", "OTOLITH_READ", "AGE", "OTOLITH_CODE", "RECORD_NUMBER" ], "rows": 0, "table": true, "tojson": true }, { "name": "templateTL", "title": "TL table template", "object": "templateTL", "class": [ "data.frame" ], "fields": [ "TYPE_OF_FILE", "COUNTRY", "AREA", "VESSEL", "YEAR", "MONTH", "DAY", "HAUL_NUMBER", "LITTER_CATEGORY", "LITTER_SUB-CATEGORY", "TOTAL_WEIGHT_IN_THE_CATEGORY_HAUL", "TOTAL_NUMBER_IN_THE_CATEGORY_HAUL", "TOTAL_WEIGHT_IN_THE_SUB-CATEGORY_HAUL", "TOTAL_NUMBER_IN_THE_SUB-CATEGORY_HAUL" ], "rows": 0, "table": true, "tojson": true }, { "name": "time", "title": "allowed values for SHOOTING_TIME and HAULING_TIME", "object": "time", "class": [ "integer" ], "fields": [], "table": false, "tojson": true }, { "name": "TL", "title": "TL", "object": "TL", "class": [ "data.frame" ], "fields": [ "TYPE_OF_FILE", "COUNTRY", "AREA", "VESSEL", "YEAR", "MONTH", "DAY", "HAUL_NUMBER", "LITTER_CATEGORY", "LITTER_SUB-CATEGORY", "TOTAL_WEIGHT_IN_THE_CATEGORY_HAUL", "TOTAL_NUMBER_IN_THE_CATEGORY_HAUL", "TOTAL_WEIGHT_IN_THE_SUB-CATEGORY_HAUL", "TOTAL_NUMBER_IN_THE_SUB-CATEGORY_HAUL" ], "rows": 177, "table": true, "tojson": true }, { "name": "TM_list", "title": "TM list", "object": "TM_list", "class": [ "data.frame" ], "fields": [ "N.", "MeditsCode", "Scientific.Name.................................................valid", "Authorship", "Source", "Reference", "Remarks", "CATFAU", "CODLON", "GSAs", "Year" ], "rows": 1617, "table": true, "tojson": true } ], "_help": [ { "page": "assTL", "title": "TL association between categories and sub-categories", "topics": [ "assTL" ] }, { "page": "check_0_fieldsTA", "title": "Checks the presence of 0 fields in TA", "topics": [ "check_0_fieldsTA" ] }, { "page": "check_abundance", "title": "Box-plots of swept-area-standardised abundance indices", "topics": [ "check_abundance" ] }, { "page": "check_area", "title": "Check if TX files have the same area", "topics": [ "check_area" ] }, { "page": "check_associations_category_TL", "title": "Check correctness of TL categories", "topics": [ "check_associations_category_TL" ] }, { "page": "check_bridles_length", "title": "check of bridles length correctness", "topics": [ "check_bridles_length" ] }, { "page": "check_class", "title": "Check of field's class", "topics": [ "check_class" ] }, { "page": "check_consistencyTA_distance", "title": "Consistency check of distance in TA", "topics": [ "check_consistencyTA_distance" ] }, { "page": "check_consistencyTA_duration", "title": "Consistency check of hauls duration in TA", "topics": [ "check_consistencyTA_duration" ] }, { "page": "check_date_haul", "title": "Check of date consistency", "topics": [ "check_date_haul" ] }, { "page": "check_depth", "title": "Check between start depth and end depth", "topics": [ "check_depth" ] }, { "page": "check_dictionary", "title": "Check of the dictionary of specific fields", "topics": [ "check_dictionary" ] }, { "page": "check_distance", "title": "Check of distance consistency", "topics": [ "check_distance" ] }, { "page": "check_dm", "title": "Check of \"WING_OPENING\" and \"VERTICAL_OPENING\" fields", "topics": [ "check_dm" ] }, { "page": "check_G1_G2", "title": "Check of length measurements for G1 and G2 species", "topics": [ "check_G1_G2" ] }, { "page": "check_haul_species_TCTB", "title": "Check species of TC in TB", "topics": [ "check_haul_species_TCTB" ] }, { "page": "check_hauls_TATB", "title": "Check of TA hauls in TB", "topics": [ "check_hauls_TATB" ] }, { "page": "check_hauls_TATL", "title": "Check presence of TA hauls in TL", "topics": [ "check_hauls_TATL" ] }, { "page": "check_hauls_TBTA", "title": "Check of TB hauls in TA", "topics": [ "check_hauls_TBTA" ] }, { "page": "check_hauls_TLTA", "title": "Check presence of TL hauls in TA", "topics": [ "check_hauls_TLTA" ] }, { "page": "check_identical_records", "title": "Check of identical records in TX tables", "topics": [ "check_identical_records" ] }, { "page": "check_individual_weightTC", "title": "Check of observed and estimated total weight in the haul", "topics": [ "check_individual_weightTC" ] }, { "page": "check_individual_weightTE", "title": "Consistency of individual weights (according to length-weight relationship)", "topics": [ "check_individual_weightTE" ] }, { "page": "check_length", "title": "Check of length classes in TC", "topics": [ "check_length" ] }, { "page": "check_length_class_codeTC", "title": "Consistency check of LENGTH_CLASS", "topics": [ "check_length_class_codeTC" ] }, { "page": "check_mat_stages", "title": "Consistency of maturity stages", "topics": [ "check_mat_stages" ] }, { "page": "check_nb_per_sexTC", "title": "Consistency check of number of individuals", "topics": [ "check_nb_per_sexTC" ] }, { "page": "check_nb_TE", "title": "Consistency of number of individuals sampled for weight and ageing in TE", "topics": [ "check_nb_TE" ] }, { "page": "check_nbtotTB", "title": "Check total number of individuals in TB", "topics": [ "check_nbtotTB" ] }, { "page": "check_nm_TB", "title": "Check of consistency in number per sex set \"not mandatory\" in TB", "topics": [ "check_nm_TB" ] }, { "page": "check_no_empty_fields", "title": "Check empty fields in TA, TB, TC, TE and TL", "topics": [ "check_no_empty_fields" ] }, { "page": "check_numeric_range", "title": "Check of the values range in specific fields", "topics": [ "check_numeric_range" ] }, { "page": "check_position", "title": "Plot of haul positions", "topics": [ "check_position" ] }, { "page": "check_position_in_Med", "title": "Check of haul position in Mediterranean Sea", "topics": [ "check_position_in_Med" ] }, { "page": "check_quadrant", "title": "Check start and end quadrant for each haul", "topics": [ "check_quadrant" ] }, { "page": "check_quasiidentical_records", "title": "Function checking the presence of quasi-identical records.", "topics": [ "check_quasiidentical_records" ] }, { "page": "check_raising", "title": "Comprehensive consistency checks between MEDITS 'TB' and 'TC' files", "topics": [ "check_raising" ] }, { "page": "check_rubincode", "title": "Function checking the correctness of species MEDITS code and faunistic category according to TM reference list", "topics": [ "check_rubincode" ] }, { "page": "check_smallest_mature", "title": "Check for mature individuals below literature thresholds in TC data", "topics": [ "check_smallest_mature" ] }, { "page": "check_spawning_period", "title": "Check consistency of maturity stages with respect to the spawning period", "topics": [ "check_spawning_period" ] }, { "page": "check_species_TBTC", "title": "Function checking if all the target species in the catch data table (TB) are in Biological data table (TC)", "topics": [ "check_species_TBTC" ] }, { "page": "check_step_length_distr", "title": "The function verifies that in TC the length measures are reported with the correct precision.", "topics": [ "check_step_length_distr" ] }, { "page": "check_stratum", "title": "Function that checks the consistency between start and end depth according to the stratum.", "topics": [ "check_stratum" ] }, { "page": "check_stratum_code", "title": "Function to check the correct codification of the strata in haul data table (TA).", "topics": [ "check_stratum_code" ] }, { "page": "check_subsampling", "title": "Function to warn the user about the presence of subsamples <0.1 of the total catch.", "topics": [ "check_subsampling" ] }, { "page": "check_swept_area", "title": "Check Swept Area Calculation and Plot", "topics": [ "check_swept_area" ] }, { "page": "check_TE_TC", "title": "Function to verify the consistency between individual data table (TE) and biological data table (TC) respect to number of individuals.", "topics": [ "check_TE_TC" ] }, { "page": "check_temperature", "title": "Function to check the consistency of the temperature data stored in haul data table (TA).", "topics": [ "check_temperature" ] }, { "page": "check_type", "title": "Consistency check of TYPE_OF_FILE field", "topics": [ "check_type" ] }, { "page": "check_unique_valid_haul", "title": "Function checking that among hauls with the same code, only one must be valid.", "topics": [ "check_unique_valid_haul" ] }, { "page": "check_weight", "title": "Check consistency between total weight and number of individuals in MEDITS TB data.", "topics": [ "check_weight" ] }, { "page": "check_weight_tot_nb", "title": "Function to check if, when the weight is not null, also the number is not null.", "topics": [ "check_weight_tot_nb" ] }, { "page": "check_year", "title": "Consistency check of YEAR field", "topics": [ "check_year" ] }, { "page": "checkHeader", "title": "Function to check the correctness of the headers.", "topics": [ "checkHeader" ] }, { "page": "classes", "title": "Class of fields", "topics": [ "classes" ] }, { "page": "create_catch", "title": "Function to create the R-sufi file capt.", "topics": [ "create_catch" ] }, { "page": "create_haul", "title": "Function to create R-sufi file containing haul data.", "topics": [ "create_haul" ] }, { "page": "create_length", "title": "Function to create the R-sufi file taille.", "topics": [ "create_length" ] }, { "page": "create_strata", "title": "Function to create R-sufi file containing strata surface data.", "topics": [ "create_strata" ] }, { "page": "DataTargetSpecies", "title": "Length and weight ranges for relevant species", "topics": [ "DataTargetSpecies" ] }, { "page": "dd.distance", "title": "Estimation of haul distance", "topics": [ "dd.distance" ] }, { "page": "error.table", "title": "Summary table of the errors", "topics": [ "error.table" ] }, { "page": "graphs_TA", "title": "Function for qualitative checks of shooting depth, warp length and wing opening in Haul data table (TA).", "topics": [ "graphs_TA" ] }, { "page": "GSAs", "title": "List of GFCM Geographical subareas (GSAs)", "topics": [ "GSAs" ] }, { "page": "haul_at_sea", "title": "Check of haul position on sea area", "topics": [ "haul_at_sea" ] }, { "page": "headers.conversion", "title": "Headers conversion for MEDITS tables", "topics": [ "headers.conversion" ] }, { "page": "list_g1_g2", "title": "List of G1 and G2 species", "topics": [ "list_g1_g2" ] }, { "page": "LW", "title": "Table of the Length-Weight parameters", "topics": [ "LW" ] }, { "page": "mat_stages", "title": "Table of maturity stages", "topics": [ "mat_stages" ] }, { "page": "Maturity_parameters", "title": "Maturity parameters", "topics": [ "Maturity_parameters" ] }, { "page": "MEDITS.to.dd", "title": "Conversion of MEDITS format coordinates in decimal degrees format", "topics": [ "MEDITS.to.dd" ] }, { "page": "MedSea", "title": "Shapefile of Mediterranean and Black Sea area", "topics": [ "MedSea" ] }, { "page": "printError", "title": "Management of the error in logfile.", "topics": [ "printError" ] }, { "page": "printError_cc", "title": "Management of the error in logfile.", "topics": [ "printError_cc" ] }, { "page": "RoME", "title": "Multiple Checks on MEDITS Trawl Survey Data", "topics": [ "RoME" ] }, { "page": "RoMEBScc", "title": "Continuous Quality Checks on Black Sea trawl Survey Data", "topics": [ "RoMEBScc" ] }, { "page": "RoMEcc", "title": "Continuous Quality Checks on MEDITS Trawl Survey Data", "topics": [ "RoMEcc" ] }, { "page": "Rsufi_files", "title": "Function to concatenate the R-sufi files of the different years.", "topics": [ "RSufi_files" ] }, { "page": "run_RoME_app", "title": "Run the RoME Shiny application", "topics": [ "run_RoME_app" ] }, { "page": "scheme_individual_data", "title": "Summary of the individual data collected by species", "topics": [ "scheme_individual_data" ] }, { "page": "stratification_scheme", "title": "stratification_scheme", "topics": [ "stratification_scheme" ] }, { "page": "stratification_scheme_rapana", "title": "stratification_scheme_rapana", "topics": [ "stratification_scheme_rapana" ] }, { "page": "TA", "title": "TA", "topics": [ "TA" ] }, { "page": "TB", "title": "TB", "topics": [ "TB" ] }, { "page": "TC", "title": "TC", "topics": [ "TC" ] }, { "page": "TE", "title": "TE", "topics": [ "TE" ] }, { "page": "templateTA", "title": "Template haul data table (TA).", "topics": [ "templateTA" ] }, { "page": "templateTB", "title": "Template catch data table (TB).", "topics": [ "templateTB" ] }, { "page": "templateTC", "title": "Template biological data table (TC).", "topics": [ "templateTC" ] }, { "page": "templateTE", "title": "Template individual data table (TE).", "topics": [ "templateTE" ] }, { "page": "templateTL", "title": "TL table template", "topics": [ "templateTL" ] }, { "page": "time", "title": "allowed values for SHOOTING_TIME and HAULING_TIME", "topics": [ "time" ] }, { "page": "TL", "title": "TL", "topics": [ "TL" ] }, { "page": "TM_list", "title": "TM list", "topics": [ "TM_list" ] } ], "_rundeps": [ "askpass", "base64enc", "bslib", "cachem", "class", "classInt", "cli", "commonmark", "cpp11", "curl", "DBI", "digest", "dplyr", "e1071", "farver", "fastmap", "fontawesome", "fs", "generics", "geosphere", "ggplot2", "ggrepel", "glue", "gtable", "htmltools", "httpuv", "httr", "isoband", "jquerylib", "jsonlite", "KernSmooth", "labeling", "later", "lattice", "lifecycle", "magrittr", "maps", "MASS", "memoise", "mime", "openssl", "otel", "pillar", "pkgconfig", "promises", "proxy", "R6", "rappdirs", "RColorBrewer", "Rcpp", "rlang", "rnaturalearth", "rnaturalearthdata", "s2", "S7", "sass", "scales", "sf", "shiny", "sourcetools", "sp", "stringi", "stringr", "sys", "terra", "tibble", "tidyselect", "timeDate", "units", "utf8", "vctrs", "viridisLite", "withr", "wk", "xtable", "zip" ], "_vignettes": [ { "source": "RoME_vignettes.Rmd", "filename": "RoME_vignettes.html", "title": "RoME", "author": "W. Zupa, I. Bitetto", "engine": "knitr::rmarkdown", "headings": [ "RoME", "Installation", "References", "Use of RoME function", "Use of RoMEcc function", "Graphical interface" ], "created": "2026-04-23 21:11:20", "modified": "2026-04-23 21:11:20", "commits": 1 } ], "_score": 2.255272505103306, "_indexed": true, "_nocasepkg": "rome", "_universes": [ "cran" ], "_binaries": [ { "r": "4.7.0", "os": "linux", "version": "0.2.3", "date": "2026-05-23T09:25:43.000Z", "distro": "noble", "commit": "5675f8e6915dafded1263038b1a0f757cec38e33", "fileid": "50e649873a61d437f84021397c69f9e64cbc21d6d489552e30ff75c79cebb965", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/cran/actions/runs/26329094271" }, { "r": "4.6.0", "os": "linux", "version": "0.2.3", "date": "2026-05-23T09:25:44.000Z", "distro": "noble", "commit": "5675f8e6915dafded1263038b1a0f757cec38e33", "fileid": "5180ceeef9184bcb7f6206a808f7d3b19557e2a0498984ed2db006ca2f568bfc", "status": "success", "check": "OK", "buildurl": "https://github.com/r-universe/cran/actions/runs/26329094271" }, { "r": "4.6.0", "os": "wasm", "version": "0.2.3", "date": "2026-05-23T09:25:50.000Z", "commit": "5675f8e6915dafded1263038b1a0f757cec38e33", "fileid": "efcc6e2715e852550b72026c897d88918557395930e373040a95de132b24f41d", "status": "success", "buildurl": "https://github.com/r-universe/cran/actions/runs/26329094271" } ] }