Man pages for WorldFishCenter/peskas.timor.data.pipeline
Functions to Implement the Timor Small Scale Fisheries Data Pipeline
| add_version | Add timestamp and sha string to a file name |
| air_get_records | Get records from an Airtable table |
| air_records_to_tibble | Format Airtable records to a data frame (tibble) |
| air_tibble_to_records | Format a data frame (tibble) as Airtable records |
| air_upload_records | Upload and create Airtable records to a base |
| alert_outlier | Generate an alert vector based on the 'univOutl::LocScaleB()'... |
| authenticate_google_drive | Authenticate to Google Drive |
| calculate_weights | Add weight of species to merged landings |
| clean_catches | Clean SFF landings' catches table |
| clean_legacy_landings | Clean SFF landings data |
| clean_updated_landings | Clean Updated (Peskas 2) landings data |
| cloud_object_name | Get the full name of a versioned cloud object |
| cloud_storage_authenticate | Authenticate to a storage cloud provider |
| coalist | Coalesce vectors |
| convert_taxa_names | Convert taxa codes to common names |
| delete_dataset | Delete a dataset of a dataverse collection |
| delete_dataverse | Delete a dataverse collection |
| download_cloud_file | Download an object from a cloud storage bucket to a local... |
| estimate_fishery_indicators | Estimate fisheries indicators |
| fill_missing_regions | Fill missing regions |
| format_public_data | Format public data |
| generate_description | Generate data description |
| generate_metadata | Generate a list of metadata |
| get_catch_types | Download metadata catch types |
| get_distance | Estimate distance between consecutive trips |
| get_fao_composition | Get FAO Food Composition Data |
| get_fish_length | Download species body-length parameters |
| get_full_tracks | Download tracks data in a single file |
| get_full_trips | Get trips from single-file tracks data. |
| get_kobo_data | Retrieve Data from Kobotoolbox API |
| get_merged_landings | Download merged landings |
| get_merged_trips | Download Peskas surveys and PDS data |
| get_models | Download models estimates |
| get_nutrients_table | Get taxa nutritional values |
| get_preprocessed_metadata | Download Peskas metadata |
| get_preprocessed_sheets | Download Peskas metadata |
| get_sync_tracks | Download and synchronize tracks data in a single file |
| get_timor_boundaries | Extract Timor Geographical Boundaries |
| get_tracks_descriptors | Extract summaries from pds tracks |
| get_tracks_ids | Get pds IDs |
| get_tracks_map | Get map of Timor pds tracks. |
| get_validated_landings | Download Peskas validated landings |
| get_validation_sheet | Get peskas validation sheet |
| ingest_complete_tracks | Ingest tracks data as a single file |
| ingest_kepler_tracks | Ingest a Kepler.gl map |
| ingest_landings_v1v3 | Ingest Landings Survey data |
| ingest_landings_v2 | Ingest V2 Landings Survey data |
| ingest_metadata_tables | Ingest metadata tables |
| ingest_pds_map | Generate and ingest Timor maps |
| ingest_pds_matched_trips | Ingest PDS matched trip |
| ingest_pds_tracks | Ingest Pelagic Data System tracks data |
| ingest_pds_trips | Ingest Pelagic Data System trips data |
| ingest_rfish_table | Ingest species weight-length info |
| ingest_validation_tables | Ingest flags tables |
| insistent_download_cloud_file | Insistent version of 'download_cloud_file()' |
| insistent_upload_cloud_file | Insistent version of 'upload_cloud_file()' |
| join_weights | Join length-weights and nutritional parameters info to... |
| kepler_mapper | Generate a Kepler.gl map |
| merge_consecutive_trips | Merge short intervalled trips |
| merge_landings | Merge recent and legacy pre-processed landings |
| merge_trips | Merge trips |
| model_indicators | Model fisheries indicators |
| model_landings | Model number of landings per unit |
| model_value | Model landing value |
| pipe | Pipe operator |
| preprocess_landings_step_1 | Pre-process Timor Landings Survey data (step 1) |
| preprocess_landings_step_2 | Pre-process Timor Landings Survey data (step 2) |
| preprocess_legacy_landings | Preprocess Timor legacy Landings Survey data |
| preprocess_metadata_tables | Preprocess metadata tables |
| preprocess_pds_tracks | Pre-process Pelagic Data System tracks |
| preprocess_pds_trips | Pre-process Pelagic Data System trips |
| preprocess_updated_landings | Pre-process Timor Updated Landings Survey |
| pt_nest_attachments | Nest attachment columns |
| pt_nest_species | Nest species columns |
| pt_validate_boats | Parse and validate boats table |
| pt_validate_catch_types | Parse and validate catch types table |
| pt_validate_centro_pescas | Parse and validate centro de pescas table |
| pt_validate_devices | Parse and validate devices table |
| pt_validate_fao_catch | Parse and validate fao catch table |
| pt_validate_flags | Validate flags from metadata tables |
| pt_validate_morphometric_table | Parse and validate morphometric table |
| pt_validate_vms_installs | Parse and validate vms_installs table |
| publish_dataverse | Publish a Dataverse repository |
| publish_last_dataset | Publish latest dataset created |
| read_config | Read configuration file |
| retrieve_lengths | Retrieve weight-length parameters |
| retrieve_pds_tracks | Download pelagic data system tracks |
| retrieve_pds_tracks_data | Download pelagic data system tracks in as csv |
| retrieve_pds_trips | Download pelagic data system trips |
| retrieve_pds_trips_data | Download pelagic data system trips in as csv or json |
| send_sites_report | Send sites report email |
| send_validation_mail | Send validation summary email |
| tidyeval | Tidy eval helpers |
| upload_cloud_file | Upload a local file to a cloud storage bucket |
| upload_dataverse | Upload and publish a dataset on Dataverse |
| upload_files | Upload files to Dataverse |
| validate_catch_params | Validate surveys' catch parameters |
| validate_catch_price | Validate surveys' total catch values |
| validate_landings | Validate landings |
| validate_pds_data | Validate pds trips duration and distance |
| validate_pds_trips | Validate Pelagic Data System trips |
| validate_price_weight | Outlier identification based on Cook's distance |
| validate_surveys_time | Validate surveys' temporal parameters |
