From 1bc326cfd2b606c21e82b0ff3b7e970d1ceedabe Mon Sep 17 00:00:00 2001 From: pepijn van oort Date: Wed, 26 May 2021 10:16:29 +0200 Subject: [PATCH] Projects FarmmapsBulkSatDownload and FarmmapsDataDownload fully updated and tested Added some extra Tasks to /FarmmapsApi/Services/GeneralService.cs Added class SatelliteStatistics.cs to /FarmmapsApi/Models --- .gitignore | 3 +- FarmmapsApi/Models/SatelliteStatistics.cs | 29 ++ FarmmapsApi/Services/GeneralService.cs | 211 ++++---- .../BulkSatDownloadApplication.cs | 463 ++++++++++++++---- .../BulkSatDownloadInput.json | 285 +++-------- .../FarmmapsBulkSatDownload.csproj | 2 +- .../Models/BulkSatDownloadInput.cs | 14 +- FarmmapsBulkSatDownload/Models/DB.cs | 2 +- .../Models/GroenmonitorTable.cs | 2 +- FarmmapsBulkSatDownload/Models/Settings.cs | 13 +- FarmmapsBulkSatDownload/ShowGeotiff.r | 66 ++- .../DataDownloadApplication.cs | 116 +++-- FarmmapsDataDownload/DataDownloadInput.json | 6 +- .../Models/DataDownloadInput.cs | 5 +- 14 files changed, 738 insertions(+), 479 deletions(-) create mode 100644 FarmmapsApi/Models/SatelliteStatistics.cs diff --git a/.gitignore b/.gitignore index 6c59346..b788684 100644 --- a/.gitignore +++ b/.gitignore @@ -2,4 +2,5 @@ .vs/ bin/ obj/ -appsettings.secrets.json \ No newline at end of file +appsettings.secrets.json +FarmmapsBulkSatDownload/DBsettings.secrets.json \ No newline at end of file diff --git a/FarmmapsApi/Models/SatelliteStatistics.cs b/FarmmapsApi/Models/SatelliteStatistics.cs new file mode 100644 index 0000000..c5b160e --- /dev/null +++ b/FarmmapsApi/Models/SatelliteStatistics.cs @@ -0,0 +1,29 @@ +using System; +using System.Collections.Generic; +using System.Text; + +namespace FarmmapsApi.Models +{ + public class SatelliteStatistics + { + public string fieldName; + public DateTime satelliteDate; + public string satelliteBand; + public double max; + public double min; + public double mean; + public double mode; + public double median; + public double stddev; + public double minPlus; + public double curtosis; + public double maxMinus; + public double skewness; + public double variance; + public int populationCount; + public double variationCoefficient; + public double confidenceIntervalLow; + public double confidenceIntervalHigh; + public double confidenceIntervalErrorMargin; + } +} diff --git a/FarmmapsApi/Services/GeneralService.cs b/FarmmapsApi/Services/GeneralService.cs index 8cefac3..83f9061 100644 --- a/FarmmapsApi/Services/GeneralService.cs +++ b/FarmmapsApi/Services/GeneralService.cs @@ -6,6 +6,7 @@ using System.Threading.Tasks; using FarmmapsApi.Models; using Google.Apis.Upload; using Microsoft.Extensions.Logging; +using Newtonsoft.Json; using Newtonsoft.Json.Linq; using static FarmmapsApi.Extensions; using static FarmmapsApiSamples.Constants; @@ -348,12 +349,10 @@ namespace FarmmapsApi.Services } - public async Task FindSatelliteItem(Item cropfieldItem, string satelliteTaskCode, string FieldName = null, int selectedLayer = 0, bool allItemsStatistics = false, string DownloadFolder = null) { + public async Task FindSatelliteItem(Item cropfieldItem, string satelliteTaskCode) { var taskStatus = await _farmmapsApiService.GetTaskStatusAsync(cropfieldItem.Code, satelliteTaskCode); - - // find ndvi or wdvi satellite data geotiffs var temporalItem = await FindChildItemAsync(cropfieldItem.Code, TEMPORAL_ITEMTYPE, "Cropfield Satellite items", item => item.SourceTask == SATELLITE_TASK && taskStatus.Finished >= item.Created && @@ -367,101 +366,149 @@ namespace FarmmapsApi.Services var satelliteTiffs = await _farmmapsApiService.GetItemChildrenAsync(temporalItem.Code); - if (allItemsStatistics == false) { - _logger.LogInformation("Available satellite images:"); - var count = 0; - TimeSpan.FromSeconds(0.5); - foreach (var item in satelliteTiffs) { + _logger.LogInformation("Available satellite images:"); + var count = 0; + TimeSpan.FromSeconds(0.5); + foreach (var item in satelliteTiffs) { - Console.WriteLine($"Satellite image #{count}: {item.DataDate}"); - count++; - } - - _logger.LogInformation("Enter satellite image number for NBS application"); - int element = Int32.Parse(Console.ReadLine()); - var selectedSatelliteItem = satelliteTiffs[element]; - - if (selectedSatelliteItem == null) { - _logger.LogError("Satellite item not found"); - - return selectedSatelliteItem; - } + Console.WriteLine($"Satellite image #{count}: {item.DataDate}"); + count++; } - if (allItemsStatistics == true ) { - var count = 0; - foreach (var item in satelliteTiffs) { - var satellitetBand = item.Data["layers"][selectedLayer]["name"]; - var SatelliteImageYear = (DateTime)item.DataDate; - var SatelliteYear = SatelliteImageYear.ToString("yyyy"); - var SatelliteFile = $"{DownloadFolder}/SatelliteDataStatistics_{SatelliteYear}_{FieldName}_{satellitetBand}.csv"; - var NewLineField = $"Field,Date,Mean,Min,Max,Standard deviation, ConfidenceInterval low, ConfidenceInterval high" + Environment.NewLine; - if (count == 0) { - File.AppendAllText(SatelliteFile, NewLineField); - var numbervandersat = satelliteTiffs.Count; - Console.WriteLine($"{numbervandersat} Satellite images found"); - } + _logger.LogInformation("Enter satellite image number for NBS application"); + int element = Int32.Parse(Console.ReadLine()); + var selectedSatelliteItem = satelliteTiffs[element]; - var SatelliteStatistics = item.Data["layers"][0]["renderer"]["band"]["statistics"]; - var SatelliteImageDate = (DateTime)item.DataDate; - var satelliteDate = SatelliteImageDate.ToString("yyyy-MM-dd"); - var NewLineDate = $"\"date\":{satelliteDate}" + Environment.NewLine; - if (SatelliteStatistics == null) { - Console.WriteLine($"{satelliteDate} no statistics found"); - //Console.WriteLine($"Available data: {item.Data}"); - } else { - File.AppendAllText(SatelliteFile, $"{FieldName},{satelliteDate},{SatelliteStatistics["mean"]},{SatelliteStatistics["min"]},{SatelliteStatistics["max"]},{SatelliteStatistics["stddev"]},{SatelliteStatistics["confidenceIntervalLow"]},{SatelliteStatistics["confidenceIntervalHigh"]}" + Environment.NewLine); - } - - if (true) { - // download the geotiff of needed inputtype - var selectedSatelliteItemDate = (DateTime)item.DataDate; - var SatelliteDate = selectedSatelliteItemDate.ToString("yyyyMMdd"); - _logger.LogInformation("Downloading geotiff file"); - await _farmmapsApiService.DownloadItemAsync(item.Code, - Path.Combine(DownloadFolder, $"satelliteGeotiff_{FieldName}_{satellitetBand}_{SatelliteDate}.zip")); - } - - count++; - } - } - - var selectedSatelliteItemTemp = satelliteTiffs[0]; - - if (selectedSatelliteItemTemp == null) { + if (selectedSatelliteItem == null) + { _logger.LogError("Satellite item not found"); - - return selectedSatelliteItemTemp; } - - return selectedSatelliteItemTemp; - + + return selectedSatelliteItem; } - - public async Task> FindSatelliteItemsAll(Item cropfieldItem, string satelliteTaskCode) + public async Task> FindSatelliteItems(Item cropfieldItem, string satelliteTaskCode) { var taskStatus = await _farmmapsApiService.GetTaskStatusAsync(cropfieldItem.Code, satelliteTaskCode); - - // find ndvi or wdvi satellite data geotiffs - var temporalItem = await FindChildItemAsync(cropfieldItem.Code, TEMPORAL_ITEMTYPE, - "Cropfield Satellite items", item => item.SourceTask == SATELLITE_TASK && - taskStatus.Finished >= item.Created && - taskStatus.Finished <= item.Created.Value.AddHours(1)); - - - if (temporalItem == null) + if (taskStatus.State == ItemTaskState.Error) { - _logger.LogError("Temporal item not found"); + _logger.LogWarning(taskStatus.Message); + return null; + } + else + { + // find satellite data geotiffs + var temporalItem = await FindChildItemAsync(cropfieldItem.Code, TEMPORAL_ITEMTYPE, + "Cropfield Satellite items", item => item.SourceTask == SATELLITE_TASK && + taskStatus.Finished >= item.Created && + taskStatus.Finished <= item.Created.Value.AddHours(1)); + + if (temporalItem == null) + { + _logger.LogWarning("Temporal item not found"); + return null; + } + else + { + var satelliteTiffs = await _farmmapsApiService.GetItemChildrenAsync(temporalItem.Code); + return satelliteTiffs; + } } - - var satelliteTiffs = await _farmmapsApiService.GetItemChildrenAsync(temporalItem.Code); - - return satelliteTiffs; } + public async Task DownloadSatelliteStats(List satelliteTiffs, string fieldName = null, List satelliteBands = null, string downloadFolder = null) + { + + string satelliteDataStatisticsFile = Path.Combine(downloadFolder, $"satelliteStats_{fieldName}.csv"); + File.Delete(satelliteDataStatisticsFile); // Delete the SatelliteFile file if exists + List selectedLayers = new List(); + foreach (string satelliteBand in satelliteBands) + { + if (satelliteBand == "ndvi") selectedLayers.Add(0); + if (satelliteBand == "wdvi") selectedLayers.Add(1); + }; + string headerLineStats = $"FieldName,satelliteDate,satelliteBand,max,min,mean,mode,median,stddev,minPlus,curtosis,maxMinus,skewness,variance,populationCount,variationCoefficient,confidenceIntervalLow, confidenceIntervalHigh,confidenceIntervalErrorMargin" + Environment.NewLine; + File.AppendAllText(satelliteDataStatisticsFile, headerLineStats); + foreach (var item in satelliteTiffs) + foreach (int selectedLayer in selectedLayers) + { + { + var satelliteBand = item.Data["layers"][selectedLayer]["name"]; + var satelliteImageDate = (DateTime)item.DataDate; + var satelliteStatisticsJtoken = item.Data["layers"][selectedLayer]["renderer"]["band"]["statistics"]; + if (satelliteStatisticsJtoken == null) + { + _logger.LogWarning($"{satelliteImageDate.ToString("yyyy-MM-dd")} no statistics found"); + //Console.WriteLine($"Available data: {item.Data}"); + } + else + { + SatelliteStatistics satelliteStatistics = satelliteStatisticsJtoken.ToObject(); + satelliteStatistics.fieldName = fieldName; + satelliteStatistics.satelliteDate = satelliteImageDate; + satelliteStatistics.satelliteBand = satelliteBand.ToString(); + File.AppendAllText(satelliteDataStatisticsFile, $"" + + $"{satelliteStatistics.fieldName}," + + $"{satelliteStatistics.satelliteDate.ToString("yyyy-MM-dd")}," + + $"{satelliteStatistics.satelliteBand}," + + $"{satelliteStatistics.max}," + + $"{satelliteStatistics.min}," + + $"{satelliteStatistics.mean}," + + $"{satelliteStatistics.mode}," + + $"{satelliteStatistics.median}," + + $"{satelliteStatistics.stddev}," + + $"{satelliteStatistics.minPlus}," + + $"{satelliteStatistics.curtosis}," + + $"{satelliteStatistics.maxMinus}," + + $"{satelliteStatistics.skewness}," + + $"{satelliteStatistics.variance}," + + $"{satelliteStatistics.populationCount}," + + $"{satelliteStatistics.variationCoefficient}," + + $"{satelliteStatistics.confidenceIntervalLow}," + + $"{satelliteStatistics.confidenceIntervalHigh}," + + $"{satelliteStatistics.confidenceIntervalErrorMargin}" + + Environment.NewLine); + } + } + } + return satelliteDataStatisticsFile; + } + public async Task> ListSatelliteStatistics(Item satelliteTiff, List satelliteBands = null, string fieldName = null) + { + SatelliteStatistics satelliteStatistics; + List listSatelliteStatistics = new List(); + List selectedLayers = new List(); + foreach (string satelliteBand in satelliteBands) + { + if (satelliteBand == "ndvi") selectedLayers.Add(0); + if (satelliteBand == "wdvi") selectedLayers.Add(1); + }; + + foreach (int selectedLayer in selectedLayers) + { + var satelliteBand = satelliteTiff.Data["layers"][selectedLayer]["name"]; + var satelliteImageDate = (DateTime)satelliteTiff.DataDate; + var satelliteStatisticsJtoken = satelliteTiff.Data["layers"][selectedLayer]["renderer"]["band"]["statistics"]; + if (satelliteStatisticsJtoken == null) + { + _logger.LogWarning($"{satelliteImageDate.ToString("yyyy-MM-dd")} no statistics found"); + //Console.WriteLine($"Available data: {item.Data}"); + } + else + { + satelliteStatistics = satelliteStatisticsJtoken.ToObject(); + satelliteStatistics.fieldName = fieldName.ToString(); + satelliteStatistics.satelliteDate = satelliteImageDate; + satelliteStatistics.satelliteBand = satelliteBand.ToString(); + listSatelliteStatistics.Add(satelliteStatistics); + } + } + + return listSatelliteStatistics; + } + //VanDerSat public async Task RunVanDerSatTask(Item cropfieldItem) { _logger.LogInformation("Gathering VanDerSat information for cropfield, this might take a while!"); diff --git a/FarmmapsBulkSatDownload/BulkSatDownloadApplication.cs b/FarmmapsBulkSatDownload/BulkSatDownloadApplication.cs index 57dd71a..c6ea1a3 100644 --- a/FarmmapsBulkSatDownload/BulkSatDownloadApplication.cs +++ b/FarmmapsBulkSatDownload/BulkSatDownloadApplication.cs @@ -13,28 +13,27 @@ using Newtonsoft.Json; using Npgsql; using Newtonsoft.Json.Linq; using static FarmmapsApiSamples.Constants; +using System.Text; namespace FarmmapsBulkSatDownload { public class BulkSatDownloadApplication : IApplication { - private const string SettingsFile = "settings.json"; - private readonly ILogger _logger; private readonly FarmmapsApiService _farmmapsApiService; - private readonly BulkSatDownloadService _dataDownloadService; + private readonly BulkSatDownloadService _bulkSatDownloadService; private readonly GeneralService _generalService; + public const string settingsfile = "Settings.json"; private Settings _settings; - static DB dbparcels; public BulkSatDownloadApplication(ILogger logger, FarmmapsApiService farmmapsApiService, - GeneralService generalService, BulkSatDownloadService dataDownloadService) + GeneralService generalService, BulkSatDownloadService bulkSatDownloadService) { _logger = logger; _farmmapsApiService = farmmapsApiService; _generalService = generalService; - _dataDownloadService = dataDownloadService; + _bulkSatDownloadService = bulkSatDownloadService; } public async Task RunAsync() { @@ -42,46 +41,47 @@ namespace FarmmapsBulkSatDownload // !! this call is needed the first time an api is called with a fresh clientid and secret !! await _farmmapsApiService.GetCurrentUserCodeAsync(); var roots = await _farmmapsApiService.GetCurrentUserRootsAsync(); - // Initialize databases. Username, password etc stored in file "DBsettings.json" - dbparcels = JsonConvert.DeserializeObject(File.ReadAllText("DBsettings.json")); - //string date; - //string asterices = "*****************************************************************************"; - //string bboxtiffWithTempPath; - //string parcelshp = "parcel.shp"; - //string parcelshpWithTempPath; - //string gwoptions; //= String.Format("-overwrite -s_srs EPSG:28992 -t_srs EPSG:28992 -dstnodata 0 -cutline {0} -crop_to_cutline", parcelshp); - //string parceltiff = "parcel.tiff"; - //string parceltiffWithTempPath; - //string[] vegetationindices = { "WDVI", "NDVI" }; - //string[] sources = { "groenmonitor" }; // { "groenmonitor", "akkerwebwenr", "akkerwebneo" }; { "groenmonitor" }; + BulkSatDownloadInput bulkSatDownloadInput; + List bulkSatDownloadInputList; + // Below are two options to for bulk download: (1) from and to database or (2) inputs from json, output to csv + // For illustration we make two lists bulkSatDownloadInputListDB and bulkSatDownloadInputListCsv and then choose which one we will use + List bulkSatDownloadInputListDB; + List bulkSatDownloadInputListCsv; + DateTime lastdownloadedimagedate; + int cropYear; + + // Option 1: When using database need to (1) fill in database data in DBsettings.secrets.json; (2) write tailor made SELECT query for fieldinputs in following lines; + // (3) Write tailor made INSERT INTO query in Task Process() below; + // Initialize databases. Username, password etc stored in file "DBsettings.secrets.json". + // Crashes if "DBsettings.secrets.json" is absent or empty + DB dbparcels = JsonConvert.DeserializeObject(File.ReadAllText("DBsettings.secrets.json")); string schemaname = "bigdata"; - string parceltablename = "parcel_flowerbulbs";//"parcelsijbrandij" "parcel"; "parcel_flowerbulbs" - //string groenmonitortablename = "groenmonitor_flowerbulbs";//"groenmonitorsijbrandij" "groenmonitor" "groenmonitor_flowerbulbs" //PO20190605: "groenmonitormpt" contains groenmonitor data from multiple parcel tables (mpt) - // The view 'groenmonitorlatestviewname' contains per parcelid (arbid) the year in which it "exists" and the date of the latest image downloaded. It is used to prevent downloading images already downloaded - string groenmonitorlatestviewname = "groenmonitorlatest_flowerbulbs"; //"groenmonitorsijbrandijlatest" "groenmonitorlatest" "groenmonitorlatest_flowerbulbs" //PO20190605: "v_groenmonitorlatest" contains latest available dates from groenmonitortablename = "groenmonitormpt" + string parceltablename = "parcel_disac";//"parcelsijbrandij" "parcel"; "parcel_flowerbulbs"; "parcel_disac" + string groenmonitortablename = "groenmonitor_disac";//"groenmonitorsijbrandij" "groenmonitor" "groenmonitor_flowerbulbs" "groenmonitor_disac" + // The view 'groenmonitorlatestviewname' contains per parcelid (arbid) the year in which it "exists" and the date of the latest image downloaded. It is used to prevent unneccessary downloading of image statistics already in the database + string groenmonitorlatestviewname = "groenmonitorlatest_disac"; //"groenmonitorsijbrandijlatest" "groenmonitorlatest" "groenmonitorlatest_flowerbulbs" "groenmonitorlatest_disac" //GroenmonitorTable gmtb; - //DateTime dt; - //DateTime dtfirst; - //DateTime dtlast; - //double scalingfactor; - BulkSatDownloadInput dataDownloadInput; - List fieldsInputs = new List(); // Database query and connection. Geometry must be in WGS84 coordinate system, EPSG 4326 // Apparently the FarmmapsApi cannot handle MultiPolygon, so we need to convert to single Polygon // In case database returns a MultiPolygon use ST_NumGeometries(pt.geom) to count the number of polygons - // If necessary use WHERE T_NumGeometries(pt.geom) = 1 to use only single polygons + // If necessary use WHERE T_NumGeometries(pt.geom) = 1 to select only single polygons + // + // FarmMaps get's its satellite images from www.groenmonitor.nl through the https://agrodatacube.wur.nl/. + // Many images are available at www.groenmonitor.nl, the https://agrodatacube.wur.nl/ serves only the clean images, 10-30 per year, 2019 onwards. Possibly more images will be added for earlier years + // For other images contact www.groenmonitor.nl, gerbert.roerink@wur.nl + bulkSatDownloadInputListDB = new List(); + List satelliteBands = new List { "wdvi", "ndvi" }; string connectionString = dbparcels.GetConnectionString(); string readSql = string.Format( @" -SELECT pt.arbid, pt.crop, pt.year, gml.lastwenrdate, ST_AsGeoJSON(ST_Transform((ST_DUMP(pt.geom)).geom::geometry(Polygon),4326)) AS geojson_polygon_wgs84 +SELECT pt.arbid, pt.year, gml.lastwenrdate, ST_AsGeoJSON(ST_Transform((ST_DUMP(pt.geom)).geom::geometry(Polygon),4326)) AS geojson_polygon_wgs84, COALESCE(pt.cropfielditemcode,'') AS cropfielditemcode FROM {0}.{1} pt, {0}.{2} gml WHERE - pt.arbid = gml.arbid AND - pt.crop NOT IN('Tulp', 'Lelie') AND - pt.year = 2018 -LIMIT 10;", schemaname, parceltablename, groenmonitorlatestviewname); //LIMIT 10 for testing + pt.arbid = gml.arbid +ORDER BY pt.arbid +LIMIT 15;", schemaname, parceltablename, groenmonitorlatestviewname); //LIMIT x for testing using (NpgsqlConnection connection = new NpgsqlConnection(connectionString)) { @@ -93,47 +93,113 @@ LIMIT 10;", schemaname, parceltablename, groenmonitorlatestviewname); //LIMIT NpgsqlDataReader dr = command.ExecuteReader(); while (dr.Read()) { - dataDownloadInput = new BulkSatDownloadInput(); - dataDownloadInput.UseCreatedCropfield = false; - dataDownloadInput.DownloadFolder = "C:\\workdir\\groenmonitor\\"; - dataDownloadInput.fieldID = dr.GetInt16(0); - dataDownloadInput.fieldName = string.Format($"{parceltablename}_fld{dataDownloadInput.fieldID}"); - dataDownloadInput.cropName = dr.GetString(1); - dataDownloadInput.cropYear = dr.GetInt16(2); - dataDownloadInput.lastdownloadedimagedate = dr.GetDateTime(3); - dataDownloadInput.GeometryJson = JObject.Parse(dr.GetString(4)); - fieldsInputs.Add(dataDownloadInput); + bulkSatDownloadInput = new BulkSatDownloadInput(); + bulkSatDownloadInput.fieldID = dr.GetInt16(0); + bulkSatDownloadInput.fieldName = string.Format($"{parceltablename}_{bulkSatDownloadInput.fieldID}"); + bulkSatDownloadInput.cropYear = dr.GetInt16(1); ; + bulkSatDownloadInput.lastdownloadedimagedate = dr.GetDateTime(2); + bulkSatDownloadInput.GeometryJson = JObject.Parse(dr.GetString(3)); + bulkSatDownloadInput.SatelliteBands = satelliteBands; + bulkSatDownloadInput.cropfielditemcode = dr.GetString(4); + bulkSatDownloadInput.database = dbparcels; + bulkSatDownloadInput.schemaname = schemaname; + bulkSatDownloadInput.cropfieldtable = parceltablename; + bulkSatDownloadInput.satelllitetable = groenmonitortablename; + bulkSatDownloadInputListDB.Add(bulkSatDownloadInput); } connection.Close(); } - // For testing using json input instead of database input + // Option 2: Example without database. Comment out this part if you want to use database + // Read cropfields "BulkSatDownloadInput.json" and write all stats to a single csv file + // Write all stats for multiple fields will be written to a single csv file + string downloadFolder; + string fileNameStats; + string headerLineStats = $"FieldName,satelliteDate,satelliteBand,max,min,mean,mode,median,stddev,minPlus,curtosis,maxMinus,skewness,variance,populationCount,variationCoefficient,confidenceIntervalLow, confidenceIntervalHigh,confidenceIntervalErrorMargin" + Environment.NewLine; var fieldsInputJson = File.ReadAllText("BulkSatDownloadInput.json"); - List fieldsInputs2 = JsonConvert.DeserializeObject>(fieldsInputJson); - - // Now for each input download all images. Use fieldsInputs or fieldsInputs2 for testing - foreach (var input in fieldsInputs2) + bulkSatDownloadInputListCsv = JsonConvert.DeserializeObject>(fieldsInputJson); + for (int i = 0; i < bulkSatDownloadInputListCsv.Count; i++) { + downloadFolder = bulkSatDownloadInputListCsv[i].downloadFolder; + fileNameStats = Path.Combine(downloadFolder, bulkSatDownloadInputListCsv[i].fileNameStats); + if (!Directory.Exists(downloadFolder)) + Directory.CreateDirectory(downloadFolder); + bulkSatDownloadInputListCsv[i].fileNameStats = fileNameStats; + // Header same as in GeneralService.DownloadSatelliteStats + // Delete fileNameStats if existing. Create a new file. Add a header to csv file + File.Delete(fileNameStats); + File.AppendAllText(fileNameStats, headerLineStats); + } + + // Now choose which list you want to use + bulkSatDownloadInputList = bulkSatDownloadInputListDB; //bulkSatDownloadInputListDB; //bulkSatDownloadInputListCsv; + + // Whichever option (database or json/csv), continue here + // Delete the settingsfile + File.Delete(settingsfile); + + // For each input download all images. Keep track to time, important when doing bulk downloads + var watch = System.Diagnostics.Stopwatch.StartNew(); + TimeSpan tsSofar = new TimeSpan(); + TimeSpan tsRemaining; + TimeSpan tsTotalEstimated; + + for (int i = 0; i < bulkSatDownloadInputList.Count; i++) + { + watch.Restart(); + bulkSatDownloadInput = bulkSatDownloadInputList[i]; + if (string.IsNullOrEmpty(bulkSatDownloadInput.fileNameStats) == false) _logger.LogInformation(string.Format($"// FarmmapsBulkSatDownload: Downloading stats for field {i+1} out of {bulkSatDownloadInputList.Count} to single csv file {bulkSatDownloadInput.fileNameStats}")); + if (bulkSatDownloadInput.database != null) _logger.LogInformation(string.Format($"// FarmmapsBulkSatDownload: Downloading stats for field {i+1} out of {bulkSatDownloadInputList.Count} to database {bulkSatDownloadInput.schemaname}.{bulkSatDownloadInput.satelllitetable}")); try { - await Process(roots, input); + await Process(roots, bulkSatDownloadInput); + } catch (Exception ex) { _logger.LogError(ex.Message); } + watch.Stop(); + tsSofar = tsSofar + watch.Elapsed; + tsTotalEstimated = tsSofar / (i + 1) * bulkSatDownloadInputList.Count; + tsRemaining = tsTotalEstimated - tsSofar; + _logger.LogInformation(string.Format($"// Time (hh:mm:ss): this field: {strTime(watch.Elapsed)}. Sofar: {strTime(tsSofar)}. Total: {strTime(tsTotalEstimated)}. Remaining: {strTime(tsRemaining)}")); } + string strExeFilePath = System.Reflection.Assembly.GetExecutingAssembly().Location; + string strWorkPath = Path.GetDirectoryName(strExeFilePath); + _logger.LogInformation(string.Format($"// FarmmapsBulkSatDownload:")); + _logger.LogInformation(string.Format($"// FarmmapsBulkSatDownload: Done! List of all downloaded cropfieldItems stored in {Path.Combine(strWorkPath,settingsfile)}")); + _logger.LogInformation(string.Format($"// FarmmapsBulkSatDownload: If you plan to rerun certain fields then adding cropfielditemcode to your input can greatly speed up your application!")); + } private async Task Process(List roots, BulkSatDownloadInput input) { - string DownloadFolder = input.DownloadFolder; - if (!Directory.Exists(DownloadFolder)) - Directory.CreateDirectory(DownloadFolder); + string cropfielditemcode; + Item cropfieldItem; + bool satelliteItemsAvailable; + bool statsAvailable; + DateTime dtSatelliteDate; + string strSatelliteDate; + List satelliteItemsCropYear; + GroenmonitorTable groenmonitorTable = new GroenmonitorTable(); + List listSatelliteStatistics; + SatelliteStatistics satelliteStatistics_wdvi; + SatelliteStatistics satelliteStatistics_ndvi; + int cntDatesDownloaded; - // !!specify if you are using an already created cropfield: - bool useCreatedCropfield = input.UseCreatedCropfield; - string settingsfile = $"Settings_BulkSatDownloadApplication.json"; + string fieldName = input.fieldName; + int cropYear = input.cropYear; + List satelliteBands = input.SatelliteBands; + string downloadFolder = input.downloadFolder; + string fileNameStats = input.fileNameStats; + DB database = input.database; + string schemaname = input.schemaname; + string cropfieldtable = input.cropfieldtable; + string satelllitetable = input.satelllitetable; + DateTime lastDownloadedSatelliteDate = input.lastdownloadedimagedate; + cropfielditemcode = input.cropfielditemcode; + string insertSql = InsertSQLfromClass(schemaname, satelllitetable); LoadSettings(settingsfile); @@ -151,61 +217,195 @@ LIMIT 10;", schemaname, parceltablename, groenmonitorlatestviewname); //LIMIT return; } - // Use already created cropfield or create new one - Item cropfieldItem; - if (useCreatedCropfield == false || string.IsNullOrEmpty(_settings.CropfieldItemCode)) + if (string.IsNullOrEmpty(cropfielditemcode)) { - _logger.LogInformation(string.Format($"Creating cropfield for a field in the year {input.cropYear}")); - //string geomjson = input.GeometryJson.ToString(Formatting.None); //"{\"type\":\"Polygon\",\"coordinates\":[[[4.960707146896585,52.80058366970849],[4.960645975538824,52.80047021761092],[4.962140695752897,52.7991771471948],[4.967523821195745,52.80150240004121],[4.966336768950911,52.80254373587981],[4.96171188076433,52.80100999685643],[4.960707146896585,52.80058366970849]]]}" - string geomjson = input.GeometryJson.ToString(Formatting.None); + _logger.LogInformation(string.Format($"Creating cropfield '{fieldName}' in the year {cropYear}")); cropfieldItem = await _generalService.CreateCropfieldItemAsync(myDriveRoot.Code, - $"DataCropfield {input.cropName}", input.cropYear, input.GeometryJson.ToString(Formatting.None)); - _settings.CropfieldItemCode = cropfieldItem.Code; - SaveSettings(settingsfile); + $"DataCropfield {fieldName}", cropYear, input.GeometryJson.ToString(Formatting.None)); + cropfielditemcode = cropfieldItem.Code; + // If working with a database, add this cropfieldItem.Code to the database so that next case same cropField is requested, will be faster + if (database != null) + { + // add this CropfieldItemCode to the parceltable + using (NpgsqlConnection connection = new NpgsqlConnection(database.GetConnectionString())) + { + connection.Open(); + NpgsqlCommand updateCmd = connection.CreateCommand(); + string updateSql = string.Format($"UPDATE {schemaname}.{cropfieldtable} SET cropfielditemcode = '{cropfieldItem.Code}' WHERE arbid = {input.fieldID};"); + updateCmd.CommandText = updateSql; + //Console.WriteLine(insertCmd.CommandText); + int r = updateCmd.ExecuteNonQuery(); + if (r != 1) + throw new Exception("// FarmmapsBulkSatDownload: Insert Failed"); + connection.Close(); + } + _logger.LogInformation($"// FarmmapsBulkSatDownload: Added cropfieldItem.Code '{cropfieldItem.Code}' for parcelid {input.fieldID} to {schemaname}.{cropfieldtable} "); + } } else { - _logger.LogInformation("Cropfield already exists, trying to get it"); - cropfieldItem = await _farmmapsApiService.GetItemAsync(_settings.CropfieldItemCode); + // WOULD IT BE POSSIBLE TO GET AVAILABLE Item MEMBER VALUES FOR A GIVEN cropfielditemcode? + cropfieldItem = new Item(); + cropfieldItem.Code = cropfielditemcode; + cropfieldItem.Name = "DataCropfield " + fieldName; + _logger.LogInformation($"// FarmmapsBulkSatDownload: CropfieldItem.Code for parcelid {input.fieldID} already there in {schemaname}.{cropfieldtable}: '{cropfieldItem.Code}'"); } + _settings.cropFieldItems.Add(cropfieldItem); + SaveSettings(settingsfile); - // check if satellite task not yet done, do here and save taskcode - if (useCreatedCropfield == false || string.IsNullOrEmpty(_settings.SatelliteTaskCode)) + //Create satelliteTaskCode & save satelliteTaskCode.Code to settingsfile for retracing last call (can be useful if failed) + _logger.LogInformation(string.Format($"Running RunSatelliteTask for cropfieldItem '{cropfielditemcode}' and saving settings to {settingsfile}")); + var satelliteTaskCode = await _generalService.RunSatelliteTask(cropfieldItem); + // POSSIBLE & DESIRABLE TO ALSO LOG satelliteTaskCode? + // SaveSettings(settingsfile); + + // Getting satellite items + _logger.LogInformation(string.Format($"Running FindSatelliteItemsCropYear for cropfieldItem.Code '{cropfieldItem.Code}', SatelliteTaskCode '{satelliteTaskCode}'")); + satelliteItemsCropYear = await _generalService.FindSatelliteItems(cropfieldItem, satelliteTaskCode); + + // Checking if satellite items found + satelliteItemsAvailable = true; + if (satelliteItemsCropYear == null) { - var satelliteTaskCode = await _generalService.RunSatelliteTask(cropfieldItem); - _settings.SatelliteTaskCode = satelliteTaskCode; - SaveSettings(settingsfile); + satelliteItemsAvailable = false; + _logger.LogInformation($"No satellite tiffs found for fieldName '{fieldName}', cropYear {cropYear}"); + } + else + { + if (satelliteItemsCropYear.Count == 0) + { + satelliteItemsAvailable = false; + _logger.LogInformation($"No satellite tiffs found for fieldName '{fieldName}', cropYear {cropYear}"); + } } - // Now get the tiffs - List satelliteTiffs = await _generalService.FindSatelliteItemsAll(cropfieldItem, _settings.SatelliteTaskCode); - _logger.LogInformation(string.Format($"Downloading {satelliteTiffs.Count} geotiffs for a field in year {input.cropYear} ...")); - foreach (Item satalliteItem in satelliteTiffs) { - // download the geotiff. Returns a zip file with always these three files: - // data.dat.aux.xml - // thumbnail.jpg - // wenr.tif. Contains 5 layers: (1) ndvi, (2) wdvi, (3) Red, (4) Green and (5) Blue - DateTime SatelliteImageDate = (DateTime)satalliteItem.DataDate; - string SatelliteDate = SatelliteImageDate.ToString("yyyyMMdd"); - string fileName = string.Format($"{input.cropName}_{input.fieldName}_{SatelliteDate}"); // assuming the fieldName is good enough for an ID. One might add here _{input.fieldID} or _{input.cropName} - string fileNameZip = string.Format($"{fileName}.zip"); - string fileNameGeotiff = string.Format($"{fileName}.tif"); - await _farmmapsApiService.DownloadItemAsync(satalliteItem.Code, Path.Combine(DownloadFolder, fileNameZip)); + // Sort the list by date + if (satelliteItemsAvailable) satelliteItemsCropYear = satelliteItemsCropYear.OrderBy(x => x.DataDate).ToList(); - // Extract the file "wenr.tif" from zip, rename it, delete "wenr.tif". overwriteFiles = true - ZipFile.ExtractToDirectory(Path.Combine(DownloadFolder, fileNameZip), DownloadFolder, true); - File.Delete(Path.Combine(DownloadFolder, fileNameGeotiff)); // Delete the fileNameGeotiff file if exists - File.Move(Path.Combine(DownloadFolder, "wenr.tif"), Path.Combine(DownloadFolder, fileNameGeotiff)); // Rename the oldFileName into newFileName - - // Cleanup - string[] filesToDelete = new string[] { fileNameZip, "wenr.tif", "thumbnail.jpg", "data.dat.aux.xml" }; - foreach (string f in filesToDelete) + // Download statistics to a single csv file + if (satelliteItemsAvailable && downloadFolder != null && fileNameStats != null) + { + // Write statistics for all images for all fieldNane and cropYear to a single csv file, fileNameStats + _logger.LogInformation($"Downloading stats for field '{fieldName}' in cropyear {cropYear} to {fileNameStats}"); + string downloadedStats = await _generalService.DownloadSatelliteStats(satelliteItemsCropYear, fieldName, satelliteBands, downloadFolder); + // Add contents of this csv file to thee single large csv file + var retainedLines = File.ReadAllLines(downloadedStats).Skip(1); + File.AppendAllLines(fileNameStats, retainedLines); + File.Delete(downloadedStats); + // Optionally, also download the zipped tiffs. This can be a lot of files and increase runtime + if (false) { - File.Delete(Path.Combine(DownloadFolder, f)); + foreach (Item selectedSatelliteItem in satelliteItemsCropYear) + { + // download the geotiffs. Returns a zip file with always these three files: + // data.dat.aux.xml + // thumbnail.jpg + // wenr.tif. Contains 5 layers: (1) ndvi, (2) wdvi, (3) Red, (4) Green and (5) Blue + var SatelliteDate = selectedSatelliteItem.DataDate.Value.ToString("yyyyMMdd"); + _logger.LogInformation($"Downloading geotiff file for field {fieldName}, date {SatelliteDate}"); + string fileName = string.Format($"satelliteGeotiff_{fieldName}_{SatelliteDate}"); // no need to add satelliteBand in the name because the tif contains all bands + string fileNameZip = string.Format($"{fileName}.zip"); + string fileNameGeotiff = string.Format($"{fileName}.tif"); + await _farmmapsApiService.DownloadItemAsync(selectedSatelliteItem.Code, Path.Combine(downloadFolder, fileNameZip)); + if (false) + { + // Extract the file "wenr.tif" from zip, rename it to fileNameGeotiff + ZipFile.ExtractToDirectory(Path.Combine(downloadFolder, fileNameZip), downloadFolder, true); + File.Delete(Path.Combine(downloadFolder, fileNameGeotiff)); // Delete the fileNameGeotiff file if exists + File.Move(Path.Combine(downloadFolder, "wenr.tif"), Path.Combine(downloadFolder, fileNameGeotiff)); // Rename the oldFileName into newFileName + + // Cleanup + string[] filesToDelete = new string[] { fileNameZip, "wenr.tif", "thumbnail.jpg", "data.dat.aux.xml" }; + foreach (string f in filesToDelete) + { + File.Delete(Path.Combine(downloadFolder, f)); + } + } + } + } + } + // Download statistics to database + if (satelliteItemsAvailable && database != null) + { + // Tailormade code for writing to database + // No unnecessary intermediate step here of writing to csv and getting stats for all images in the crop year. + // Efficient is to check if there is any image for which stats are to be added to database and add only add these new stats for not yet archived dates directly to database + // A full check of downloaded dates versus available dates in the database is not made here. + // We assume only new images will be added (i.e. for later dates), assuming no historical images are added in groenmonitor (check!). + // And we assume farmMaps always nicely generates statistics, no hick-ups + // Under this assumptions, we only need to compare with the lastDownloadedSatelliteDate from the database + cntDatesDownloaded = 0; + foreach (Item satelliteItem in satelliteItemsCropYear) + { + dtSatelliteDate = satelliteItem.DataDate.Value; + strSatelliteDate = dtSatelliteDate.ToString("yyyy-MM-dd"); + listSatelliteStatistics = await _generalService.ListSatelliteStatistics(satelliteItem, satelliteBands, fieldName); + statsAvailable = true; + if (listSatelliteStatistics == null) + { + statsAvailable = false; + _logger.LogWarning($"No stats found for satellite, fielName '{fieldName}', date '{strSatelliteDate}'"); + } + else + { + if (listSatelliteStatistics.Count == 0) + { + statsAvailable = false; + _logger.LogWarning($"No stats found for satellite, fielName '{fieldName}', date '{strSatelliteDate}'"); + } + } + if (statsAvailable) + { + if (dtSatelliteDate <= input.lastdownloadedimagedate) + { + _logger.LogInformation($"// Stats for parcelid {input.fieldID}, date '{strSatelliteDate}' already there in {schemaname}.{satelllitetable}"); + } + else + { + cntDatesDownloaded++; + // Map satelliteStatistics to groenmonitorTable + satelliteStatistics_wdvi = listSatelliteStatistics.SingleOrDefault(p => p.satelliteBand == "wdvi"); + satelliteStatistics_ndvi = listSatelliteStatistics.SingleOrDefault(p => p.satelliteBand == "ndvi"); + groenmonitorTable.parcelid = input.fieldID; + groenmonitorTable.date = strSatelliteDate; + groenmonitorTable.source = "akkerwebwenr"; // Like this so SQL in bigdata.groenmonitorlatest_flowerbulbs works properly + groenmonitorTable.wdvi_pixelcount = satelliteStatistics_wdvi.populationCount; //count of pixels with data + groenmonitorTable.wdvi_max = satelliteStatistics_wdvi.max; + groenmonitorTable.wdvi_mean = satelliteStatistics_wdvi.mean; + groenmonitorTable.wdvi_min = satelliteStatistics_wdvi.min; + groenmonitorTable.wdvi_stdev = satelliteStatistics_wdvi.stddev; + groenmonitorTable.wdvi_median = satelliteStatistics_wdvi.median; + groenmonitorTable.wdvi_p90 = -99; // Example of a statistics (90% not included in satelliteStatistics + groenmonitorTable.ndvi_pixelcount = satelliteStatistics_ndvi.populationCount; //count of pixels with data + groenmonitorTable.ndvi_max = satelliteStatistics_ndvi.max; + groenmonitorTable.ndvi_mean = satelliteStatistics_ndvi.mean; + groenmonitorTable.ndvi_min = satelliteStatistics_ndvi.min; + groenmonitorTable.ndvi_stdev = satelliteStatistics_ndvi.stddev; + groenmonitorTable.ndvi_median = satelliteStatistics_ndvi.median; + groenmonitorTable.ndvi_p90 = -99; // Example of a statistics (90% not included in satelliteStatistics + + // fill the insertSql query with fieldValues from the groenmonitorTable, then run the query + using (NpgsqlConnection connection = new NpgsqlConnection(database.GetConnectionString())) + { + connection.Open(); + NpgsqlCommand insertCmd = connection.CreateCommand(); + object[] fieldValues = groenmonitorTable.GetType() + .GetFields() + .Select(field => field.GetValue(groenmonitorTable)) + .ToArray(); + insertCmd.CommandText = string.Format(insertSql, fieldValues); + //Console.WriteLine(insertCmd.CommandText); + int r = insertCmd.ExecuteNonQuery(); + if (r != 1) + throw new Exception("// FarmmapsBulkSatDownload: Insert Failed"); + connection.Close(); + } + _logger.LogInformation($"// Added stats to {schemaname}.{satelllitetable} for parcelid {input.fieldID}, date '{strSatelliteDate}'. cntDatesDownloaded: {cntDatesDownloaded}"); + } + } } } } - // Functions to save previously created cropfields private void LoadSettings(string file) { @@ -216,7 +416,9 @@ LIMIT 10;", schemaname, parceltablename, groenmonitorlatestviewname); //LIMIT } else { - _settings = new Settings(); + Settings settings = new Settings(); + settings.cropFieldItems = new List(); + _settings = settings; } } @@ -228,14 +430,67 @@ LIMIT 10;", schemaname, parceltablename, groenmonitorlatestviewname); //LIMIT var json = JsonConvert.SerializeObject(_settings); File.WriteAllText(file, json); } - private void SaveInfo(string file) + private string strTime(TimeSpan ts) + { + return String.Format("{0:00}:{1:00}:{2:00}", ts.Hours, ts.Minutes, ts.Seconds); + } + private string InsertSQLfromClass(string schemaname, string groenmonitortablename) { - if (_settings == null) - return; - - var json = JsonConvert.SerializeObject(_settings); - File.WriteAllText(file, json); - + // Generates an INSERT query for GroenmonitorTable. + // When writing to a different table structure, just make a new class for the statellite statistics table, similar to GroenmonitorTable.cs + // @" + //INSERT INTO bigdata.groenmonitor (parcelid,date,wdvi_pixelcount,wdvi_max,wdvi_mean,wdvi_min,wdvi_stdev,wdvi_median,wdvi_p90,ndvi_pixelcount,ndvi_max,ndvi_mean,ndvi_min,ndvi_stdev,ndvi_median,ndvi_p90) + //VALUES({0},'{1}',{2},{3},{4},{5},{6},{7},{8},{9},{10},{11},{12},{13},{14},{15}) + //ON CONFLICT (parcelid, date) + //DO UPDATE SET parcelid={0},date='{1}',wdvi_pixelcount={2},wdvi_max={3},wdvi_mean={4},wdvi_min={5},wdvi_stdev={6},wdvi_median={7},wdvi_p90={8},ndvi_pixelcount={9},ndvi_max={10},ndvi_mean={11},ndvi_min={12},ndvi_stdev={13},ndvi_median={14},ndvi_p90={15} + //"; + string fieldName; + var fieldNames = typeof(GroenmonitorTable).GetFields() + .Select(field => field.Name) + .ToList(); + StringBuilder sbInsertSql = new StringBuilder(); + string insertSql; + StringBuilder insertSql1 = new StringBuilder(); + insertSql1.Append(@"INSERT INTO " + schemaname + "." + groenmonitortablename + " ("); + StringBuilder insertSql2 = new StringBuilder(); + insertSql2.Append("VALUES("); + StringBuilder insertSql3 = new StringBuilder(); + insertSql3.Append("ON CONFLICT(parcelid, date, source)"); + StringBuilder insertSql4 = new StringBuilder(); + insertSql4.Append("DO UPDATE SET "); + for (int i = 0; i < fieldNames.Count; i++) + { + fieldName = fieldNames[i]; + insertSql1.Append(fieldName); + if (fieldName == "date" | fieldName == "source") + { + //add extra quotes ' for fields in the Postgress table for which we know they are date or varchar + insertSql2.Append("'{" + i + "}'"); + insertSql4.Append(fieldName + "='{" + i + "}'"); + } + else + { + insertSql2.Append("{" + i + "}"); + insertSql4.Append(fieldName + "={" + i + "}"); + } + if (i < fieldNames.Count - 1) + { + insertSql1.Append(","); + insertSql2.Append(","); + insertSql4.Append(","); + } + else + { + insertSql1.Append(")"); + insertSql2.Append(")"); + } + } + sbInsertSql.AppendLine(insertSql1.ToString()); + sbInsertSql.AppendLine(insertSql2.ToString()); + sbInsertSql.AppendLine(insertSql3.ToString()); + sbInsertSql.AppendLine(insertSql4.ToString()); + insertSql = sbInsertSql.ToString(); + return insertSql; } } diff --git a/FarmmapsBulkSatDownload/BulkSatDownloadInput.json b/FarmmapsBulkSatDownload/BulkSatDownloadInput.json index 3463e41..d045560 100644 --- a/FarmmapsBulkSatDownload/BulkSatDownloadInput.json +++ b/FarmmapsBulkSatDownload/BulkSatDownloadInput.json @@ -1,12 +1,63 @@ [ { - "UseCreatedCropfield": false, - "fieldName": "fld5641", // FarmMaps won't do without a fieldName - "DownloadFolder": "C:\\workdir\\groenmonitor\\", //"C:\\workdir\\groenmonitor\\"; // "Downloads" -> if you just put "Downloads" the program will download to somewhere in ..\FarmMapsApiClient_WURtest\FarmmapsDataDownload\bin\Debug\netcoreapp3.1\Downloads\ - "cropName": "wheat", + "fieldName": "5641", // FarmMaps minimum needs are: fieldName, cropYear & geometryJson + "cropYear": 1999, //For testing a year for which we know no satellite data available, program shouldn't crash + "fieldID": 5641, + "SatelliteBands": [ "wdvi", "ndvi" ], // ["ndvi"] or ["wdvi"] or both: [ "wdvi", "ndvi" ] + "lastdownloadedimagedate": "1999-01-01", //downloads images from this date till end of the year + "geometryJson": { + "type": "Polygon", + "coordinates": [ + [ + [ 3.37837807779104, 51.3231095796538 ], + [ 3.38065689232502, 51.3212527499355 ], + [ 3.38022924592256, 51.3210683536359 ], + [ 3.37980548452565, 51.3208801127141 ], + [ 3.37959556105776, 51.3207540143696 ], + [ 3.3793691292654, 51.3205959677371 ], + [ 3.37822219207335, 51.3215667913007 ], + [ 3.37816999925795, 51.3216109809456 ], + [ 3.37646704574705, 51.3208025481261 ], + [ 3.37646695791282, 51.3208025061493 ], + [ 3.37608401443192, 51.3206231652693 ], + [ 3.37607169507628, 51.3206173959751 ], + [ 3.37606021048754, 51.320612017601 ], + [ 3.37582728410659, 51.3205029306946 ], + [ 3.37580409779263, 51.3206502985963 ], + [ 3.37575872019649, 51.3207993094705 ], + [ 3.37575476634361, 51.3208122883487 ], + [ 3.37571181656268, 51.3208797459348 ], + [ 3.3756624532907, 51.3209415238446 ], + [ 3.37557609963811, 51.3210110142077 ], + [ 3.37541089899821, 51.3211055871218 ], + [ 3.37477516102591, 51.3214102985009 ], + [ 3.37473173914127, 51.3214311108204 ], + [ 3.37455904622072, 51.3215138815012 ], + [ 3.37415098054777, 51.3217199232877 ], + [ 3.37313700916272, 51.3222422862785 ], + [ 3.37748824689601, 51.3242852920348 ], + [ 3.37749760805371, 51.3242713084009 ], + [ 3.37811903757028, 51.3233437635596 ], + [ 3.37818758851947, 51.3232647797363 ], + [ 3.37823803668144, 51.3232236798646 ], + [ 3.37837807779104, 51.3231095796538 ] + ] + ] + }, + "cropfielditemcode": null, //BulkSatDownloadApplication returns a Settings.json file with cropfielditems.Code. After first run, you can copy-paste that here to speed up + "downloadFolder": "C:\\workdir\\groenmonitor\\", + "fileNameStats": "BulkSatDownload.csv", + "database": null, + "schemaname": null, + "cropfieldtable": null, + "satelllitetable": null + }, + { + "fieldName": "5641", // FarmMaps minimum needs are: fieldName, cropYear & geometryJson "cropYear": 2021, "fieldID": 5641, - "lastdownloadedimagedate": "2021-01-01", + "SatelliteBands": [ "wdvi", "ndvi" ], // ["ndvi"] or ["wdvi"] or both: [ "wdvi", "ndvi" ] + "lastdownloadedimagedate": "2021-01-01", //downloads images from this date till end of the year "geometryJson": { "type": "Polygon", "coordinates": [ @@ -45,65 +96,22 @@ [ 3.37837807779104, 51.3231095796538 ] ] ] - } - }, + }, + "cropfielditemcode": null, //BulkSatDownloadApplication returns a Settings.json file with cropfielditems.Code. After first run, you can copy-paste that here to speed up + "downloadFolder": "C:\\workdir\\groenmonitor\\", + "fileNameStats": "BulkSatDownload.csv", + "database": null, + "schemaname": null, + "cropfieldtable": null, + "satelllitetable": null + } + , { - "UseCreatedCropfield": false, - "fieldName": "fld5641", // FarmMaps won't do without a fieldName - "DownloadFolder": "C:\\workdir\\groenmonitor\\", //"C:\\workdir\\groenmonitor\\"; // "Downloads" -> if you just put "Downloads" the program will download to somewhere in ..\FarmMapsApiClient_WURtest\FarmmapsDataDownload\bin\Debug\netcoreapp3.1\Downloads\ - "cropName": "wheat", + "fieldName": "5641", // FarmMaps minimum needs are: fieldName, cropYear & geometryJson "cropYear": 2020, "fieldID": 5641, - "lastdownloadedimagedate": "2020-01-01", - "geometryJson": { - "type": "Polygon", - "coordinates": [ - [ - [ 3.37837807779104, 51.3231095796538 ], - [ 3.38065689232502, 51.3212527499355 ], - [ 3.38022924592256, 51.3210683536359 ], - [ 3.37980548452565, 51.3208801127141 ], - [ 3.37959556105776, 51.3207540143696 ], - [ 3.3793691292654, 51.3205959677371 ], - [ 3.37822219207335, 51.3215667913007 ], - [ 3.37816999925795, 51.3216109809456 ], - [ 3.37646704574705, 51.3208025481261 ], - [ 3.37646695791282, 51.3208025061493 ], - [ 3.37608401443192, 51.3206231652693 ], - [ 3.37607169507628, 51.3206173959751 ], - [ 3.37606021048754, 51.320612017601 ], - [ 3.37582728410659, 51.3205029306946 ], - [ 3.37580409779263, 51.3206502985963 ], - [ 3.37575872019649, 51.3207993094705 ], - [ 3.37575476634361, 51.3208122883487 ], - [ 3.37571181656268, 51.3208797459348 ], - [ 3.3756624532907, 51.3209415238446 ], - [ 3.37557609963811, 51.3210110142077 ], - [ 3.37541089899821, 51.3211055871218 ], - [ 3.37477516102591, 51.3214102985009 ], - [ 3.37473173914127, 51.3214311108204 ], - [ 3.37455904622072, 51.3215138815012 ], - [ 3.37415098054777, 51.3217199232877 ], - [ 3.37313700916272, 51.3222422862785 ], - [ 3.37748824689601, 51.3242852920348 ], - [ 3.37749760805371, 51.3242713084009 ], - [ 3.37811903757028, 51.3233437635596 ], - [ 3.37818758851947, 51.3232647797363 ], - [ 3.37823803668144, 51.3232236798646 ], - [ 3.37837807779104, 51.3231095796538 ] - - ] - ] - } - }, - { - "UseCreatedCropfield": false, - "fieldName": "fld5641", // FarmMaps won't do without a fieldName - "DownloadFolder": "C:\\workdir\\groenmonitor\\", //"C:\\workdir\\groenmonitor\\"; // "Downloads" -> if you just put "Downloads" the program will download to somewhere in ..\FarmMapsApiClient_WURtest\FarmmapsDataDownload\bin\Debug\netcoreapp3.1\Downloads\ - "cropName": "wheat", - "cropYear": 2019, - "fieldID": 5641, - "lastdownloadedimagedate": "2019-01-01", + "SatelliteBands": [ "wdvi", "ndvi" ], // ["ndvi"] or ["wdvi"] or both: [ "wdvi", "ndvi" ] + "lastdownloadedimagedate": "2020-01-01", //downloads images from this date till end of the year "geometryJson": { "type": "Polygon", "coordinates": [ @@ -142,152 +150,13 @@ [ 3.37837807779104, 51.3231095796538 ] ] ] - } - }, - { - "UseCreatedCropfield": false, - "fieldName": "fld5641", // FarmMaps won't do without a fieldName - "DownloadFolder": "C:\\workdir\\groenmonitor\\", //"C:\\workdir\\groenmonitor\\"; // "Downloads" -> if you just put "Downloads" the program will download to somewhere in ..\FarmMapsApiClient_WURtest\FarmmapsDataDownload\bin\Debug\netcoreapp3.1\Downloads\ - "cropName": "wheat", - "cropYear": 2018, - "fieldID": 5641, - "lastdownloadedimagedate": "2018-01-01", - "geometryJson": { - "type": "Polygon", - "coordinates": [ - [ - [ 3.37837807779104, 51.3231095796538 ], - [ 3.38065689232502, 51.3212527499355 ], - [ 3.38022924592256, 51.3210683536359 ], - [ 3.37980548452565, 51.3208801127141 ], - [ 3.37959556105776, 51.3207540143696 ], - [ 3.3793691292654, 51.3205959677371 ], - [ 3.37822219207335, 51.3215667913007 ], - [ 3.37816999925795, 51.3216109809456 ], - [ 3.37646704574705, 51.3208025481261 ], - [ 3.37646695791282, 51.3208025061493 ], - [ 3.37608401443192, 51.3206231652693 ], - [ 3.37607169507628, 51.3206173959751 ], - [ 3.37606021048754, 51.320612017601 ], - [ 3.37582728410659, 51.3205029306946 ], - [ 3.37580409779263, 51.3206502985963 ], - [ 3.37575872019649, 51.3207993094705 ], - [ 3.37575476634361, 51.3208122883487 ], - [ 3.37571181656268, 51.3208797459348 ], - [ 3.3756624532907, 51.3209415238446 ], - [ 3.37557609963811, 51.3210110142077 ], - [ 3.37541089899821, 51.3211055871218 ], - [ 3.37477516102591, 51.3214102985009 ], - [ 3.37473173914127, 51.3214311108204 ], - [ 3.37455904622072, 51.3215138815012 ], - [ 3.37415098054777, 51.3217199232877 ], - [ 3.37313700916272, 51.3222422862785 ], - [ 3.37748824689601, 51.3242852920348 ], - [ 3.37749760805371, 51.3242713084009 ], - [ 3.37811903757028, 51.3233437635596 ], - [ 3.37818758851947, 51.3232647797363 ], - [ 3.37823803668144, 51.3232236798646 ], - [ 3.37837807779104, 51.3231095796538 ] - ] - ] - } - }, - { - "UseCreatedCropfield": false, - "fieldName": "fld5641", // FarmMaps won't do without a fieldName - "DownloadFolder": "C:\\workdir\\groenmonitor\\", //"C:\\workdir\\groenmonitor\\"; // "Downloads" -> if you just put "Downloads" the program will download to somewhere in ..\FarmMapsApiClient_WURtest\FarmmapsDataDownload\bin\Debug\netcoreapp3.1\Downloads\ - "cropName": "wheat", - "cropYear": 2017, - "fieldID": 5641, - "lastdownloadedimagedate": "2017-01-01", - "geometryJson": { - "type": "Polygon", - "coordinates": [ - [ - [ 3.37837807779104, 51.3231095796538 ], - [ 3.38065689232502, 51.3212527499355 ], - [ 3.38022924592256, 51.3210683536359 ], - [ 3.37980548452565, 51.3208801127141 ], - [ 3.37959556105776, 51.3207540143696 ], - [ 3.3793691292654, 51.3205959677371 ], - [ 3.37822219207335, 51.3215667913007 ], - [ 3.37816999925795, 51.3216109809456 ], - [ 3.37646704574705, 51.3208025481261 ], - [ 3.37646695791282, 51.3208025061493 ], - [ 3.37608401443192, 51.3206231652693 ], - [ 3.37607169507628, 51.3206173959751 ], - [ 3.37606021048754, 51.320612017601 ], - [ 3.37582728410659, 51.3205029306946 ], - [ 3.37580409779263, 51.3206502985963 ], - [ 3.37575872019649, 51.3207993094705 ], - [ 3.37575476634361, 51.3208122883487 ], - [ 3.37571181656268, 51.3208797459348 ], - [ 3.3756624532907, 51.3209415238446 ], - [ 3.37557609963811, 51.3210110142077 ], - [ 3.37541089899821, 51.3211055871218 ], - [ 3.37477516102591, 51.3214102985009 ], - [ 3.37473173914127, 51.3214311108204 ], - [ 3.37455904622072, 51.3215138815012 ], - [ 3.37415098054777, 51.3217199232877 ], - [ 3.37313700916272, 51.3222422862785 ], - [ 3.37748824689601, 51.3242852920348 ], - [ 3.37749760805371, 51.3242713084009 ], - [ 3.37811903757028, 51.3233437635596 ], - [ 3.37818758851947, 51.3232647797363 ], - [ 3.37823803668144, 51.3232236798646 ], - [ 3.37837807779104, 51.3231095796538 ] - ] - ] - } - }, - { - "UseCreatedCropfield": false, - "fieldName": "fld5641", // FarmMaps won't do without a fieldName - "DownloadFolder": "C:\\workdir\\groenmonitor\\", //"C:\\workdir\\groenmonitor\\"; // "Downloads" -> if you just put "Downloads" the program will download to somewhere in ..\FarmMapsApiClient_WURtest\FarmmapsDataDownload\bin\Debug\netcoreapp3.1\Downloads\ - "cropName": "wheat", - "cropYear": 2016, - "fieldID": 5641, - "lastdownloadedimagedate": "2016-01-01", - "geometryJson": { - "type": "Polygon", - "coordinates": [ - [ - [ 3.37837807779104, 51.3231095796538 ], - [ 3.38065689232502, 51.3212527499355 ], - [ 3.38022924592256, 51.3210683536359 ], - [ 3.37980548452565, 51.3208801127141 ], - [ 3.37959556105776, 51.3207540143696 ], - [ 3.3793691292654, 51.3205959677371 ], - [ 3.37822219207335, 51.3215667913007 ], - [ 3.37816999925795, 51.3216109809456 ], - [ 3.37646704574705, 51.3208025481261 ], - [ 3.37646695791282, 51.3208025061493 ], - [ 3.37608401443192, 51.3206231652693 ], - [ 3.37607169507628, 51.3206173959751 ], - [ 3.37606021048754, 51.320612017601 ], - [ 3.37582728410659, 51.3205029306946 ], - [ 3.37580409779263, 51.3206502985963 ], - [ 3.37575872019649, 51.3207993094705 ], - [ 3.37575476634361, 51.3208122883487 ], - [ 3.37571181656268, 51.3208797459348 ], - [ 3.3756624532907, 51.3209415238446 ], - [ 3.37557609963811, 51.3210110142077 ], - [ 3.37541089899821, 51.3211055871218 ], - [ 3.37477516102591, 51.3214102985009 ], - [ 3.37473173914127, 51.3214311108204 ], - [ 3.37455904622072, 51.3215138815012 ], - [ 3.37415098054777, 51.3217199232877 ], - [ 3.37313700916272, 51.3222422862785 ], - [ 3.37748824689601, 51.3242852920348 ], - [ 3.37749760805371, 51.3242713084009 ], - [ 3.37811903757028, 51.3233437635596 ], - [ 3.37818758851947, 51.3232647797363 ], - [ 3.37823803668144, 51.3232236798646 ], - [ 3.37837807779104, 51.3231095796538 ] - ] - ] - } + }, + "cropfielditemcode": null, //BulkSatDownloadApplication returns a Settings.json file with cropfielditems.Code. After first run, you can copy-paste that here to speed up + "downloadFolder": "C:\\workdir\\groenmonitor\\", + "fileNameStats": "BulkSatDownload.csv", + "database": null, + "schemaname": null, + "cropfieldtable": null, + "satelllitetable": null } - - ] \ No newline at end of file diff --git a/FarmmapsBulkSatDownload/FarmmapsBulkSatDownload.csproj b/FarmmapsBulkSatDownload/FarmmapsBulkSatDownload.csproj index f8e8b08..01e90bd 100644 --- a/FarmmapsBulkSatDownload/FarmmapsBulkSatDownload.csproj +++ b/FarmmapsBulkSatDownload/FarmmapsBulkSatDownload.csproj @@ -16,7 +16,7 @@ Always - + Always diff --git a/FarmmapsBulkSatDownload/Models/BulkSatDownloadInput.cs b/FarmmapsBulkSatDownload/Models/BulkSatDownloadInput.cs index f89833f..e23b914 100644 --- a/FarmmapsBulkSatDownload/Models/BulkSatDownloadInput.cs +++ b/FarmmapsBulkSatDownload/Models/BulkSatDownloadInput.cs @@ -1,18 +1,24 @@ using System; +using System.Collections.Generic; using Newtonsoft.Json.Linq; namespace FarmmapsBulkSatDownload.Models { public class BulkSatDownloadInput { - public bool UseCreatedCropfield { get; set; } public string fieldName { get; set; } - public string DownloadFolder { get; set; } - public string cropName { get; set; } public int cropYear { get; set; } public int fieldID { get; set; } + public List SatelliteBands { get; set; } public DateTime lastdownloadedimagedate { get; set; } public JObject GeometryJson { get; set; } - //public string fieldName { get { return string.Format($"{cropName}_fld{fieldID}"); } } + public string cropfielditemcode { get; set; } + public string downloadFolder { get; set; } + public string fileNameStats { get; set; } + public DB database { get; set; } + public string schemaname { get; set; } + public string cropfieldtable { get; set; } + public string satelllitetable { get; set; } + } } \ No newline at end of file diff --git a/FarmmapsBulkSatDownload/Models/DB.cs b/FarmmapsBulkSatDownload/Models/DB.cs index 2ff705f..0cd2204 100644 --- a/FarmmapsBulkSatDownload/Models/DB.cs +++ b/FarmmapsBulkSatDownload/Models/DB.cs @@ -3,7 +3,7 @@ using System.Collections.Generic; using System.Text; using Npgsql; -namespace FarmmapsApi.Services +namespace FarmmapsBulkSatDownload.Models { public class DB { diff --git a/FarmmapsBulkSatDownload/Models/GroenmonitorTable.cs b/FarmmapsBulkSatDownload/Models/GroenmonitorTable.cs index 8b48028..9437e62 100644 --- a/FarmmapsBulkSatDownload/Models/GroenmonitorTable.cs +++ b/FarmmapsBulkSatDownload/Models/GroenmonitorTable.cs @@ -6,7 +6,7 @@ namespace FarmmapsBulkSatDownload.Models { public class GroenmonitorTable { - //public string parceltablename; //PO20190605: parceltablename added as a field (=column) in the GroenmonitorTable. The GroenmonitorTable contains data from multiple parceltables + //double? makes a member nullable public int parcelid; public string date; public string source; diff --git a/FarmmapsBulkSatDownload/Models/Settings.cs b/FarmmapsBulkSatDownload/Models/Settings.cs index 2d70cba..51d4ebb 100644 --- a/FarmmapsBulkSatDownload/Models/Settings.cs +++ b/FarmmapsBulkSatDownload/Models/Settings.cs @@ -1,11 +1,10 @@ -namespace FarmmapsBulkSatDownload +using System.Collections.Generic; +using FarmmapsApi.Models; + +namespace FarmmapsBulkSatDownload { public class Settings { - public string CropfieldItemCode { get; set; } - public string SatelliteTaskCode { get; set; } - public string VanDerSatTaskCode { get; set; } - public string WatBalTaskCode { get; set; } - + public List cropFieldItems { get; set; } } -} \ No newline at end of file +} diff --git a/FarmmapsBulkSatDownload/ShowGeotiff.r b/FarmmapsBulkSatDownload/ShowGeotiff.r index 68e010c..bd28e92 100644 --- a/FarmmapsBulkSatDownload/ShowGeotiff.r +++ b/FarmmapsBulkSatDownload/ShowGeotiff.r @@ -1,15 +1,18 @@ # ShowGeotiff.r # I downloaded and calculated the stats for the polygon defined in C:\git\FarmMapsApiClient_WURtest\FarmmapsDataDownload\DataDownloadInput.json -# in which I set "SatelliteBand": "wdvi" and in which in the console I requested image 8 for date '2020-06-14' +# in which I set "SatelliteBand": "wdvi" and in which in the console I requested the image for date '2020-09-22' +# FarmmapsBulkSatDownload generates many files. Here is what I tried when inputing the same field for a number of years using BulkSatDownloadInput.json +# see list below library(raster) library(sf) library(rgdal) -setwd("C:/workdir/groenmonitor/") -# FarmmapsDataDownload generates two files: +setwd("C:/workdir/groenmonitor/DataDownload/") + +# FarmmapsDataDownload and BulkSatDownload can be used to download zip files with inside two files: fileGeotiff <- "wenr.tif" -# fileJpg <- "thumbnail.jpg" -# FarmmapsBulkSatDownload generates many files. Here is what I tried when inputing the same field for a number of years using BulkSatDownloadInput.json +fileJpg <- "thumbnail.jpg" +# Here is what I tried when inputing the same field for a number of years: # fileGeotiff <- "wheat_fld5641_20210224.tif" # 2 files for year 2021. This file is a nice example having in upperleft corner no data # fileGeotiff <- "wheat_fld5641_20210331.tif" # 2 files for year 2021 # fileGeotiff <- "wheat_fld5641_20200321.tif" # 14 files for year 2020, earliest @@ -24,11 +27,11 @@ year <- substr(fileGeotiff,lenfilename-11,lenfilename-8) imgdate <- substr(fileGeotiff,lenfilename-11,lenfilename-4) # The thumbnail has the polygon clipped out, has 1 layer, no crs and the mean value is not the mean wdvi we are looking for -# r.thumbnail <- raster(fileJpg) -# plot(r.thumbnail) -# crs(r.thumbnail) -# CRS arguments: NA -# cellStats(r.thumbnail,'mean') #59.91667 +r.thumbnail <- raster(fileJpg) +plot(r.thumbnail) +crs(r.thumbnail) +#CRS arguments: NA +cellStats(r.thumbnail,'mean') #87.5128 # nonsense stk.wenr <- stack(x=fileGeotiff) # plot(stk.wenr) shows 5 plots (5 bands) @@ -49,11 +52,7 @@ crs(stk.wenr) r.wenr.rd.wdvi <- subset(stk.wenr,2) dev.off() plot(r.wenr.rd.wdvi,main=paste("wdvi",imgdate),xlab="RDX",ylab="RDY") -cellStats(r.wenr.rd.wdvi,'mean') #0.1654627 -# Same as in downloaded file SatelliteDataStatistics_test_satData_wdvi_2020-06-14.csv -# "mean": 0.16564258790046743 -# So FindSatelliteItem in C:\git\FarmMapsApiClient_WURtest\FarmmapsApi\Services\GeneralService.cs returns a a stacked geotiff in -# i.e. the cellstats are calculated from the rectangle +cellStats(r.wenr.rd.wdvi,'mean') #0.1350561 # Furthermore we can see # shows coordinates in RD @@ -69,6 +68,15 @@ r.wenr.wgs84.wdvi <- projectRaster(r.wenr.rd.wdvi, crs = CRS('+init=EPSG:4326')) # plot(p1,add=TRUE, col="transparent",border="black") # Draw the polygon on top of the raster # Polygon p2 from C:\git\FarmMapsApiClient_WURtest\FarmmapsDataDownload\DataDownloadInput.json +p2 <- data.frame(id = 1, wkt = gsub("\n","",'POLYGON(( + 4.960707146896585 52.800583669708487, + 4.960645975538824 52.800470217610922, + 4.962140695752897 52.799177147194797, + 4.967523821195745 52.801502400041208, + 4.966336768950911 52.802543735879809, + 4.961711880764330 52.801009996856429, + 4.960707146896585 52.800583669708487))')) +# Polygon p2 from C:\git\FarmMapsApiClient_WURtest\FarmmapsBulkSatDownload\BulkSatDownloadInput.json p2 <- data.frame(id = 1, wkt = gsub("\n","",'POLYGON(( 3.37837807779104 51.3231095796538, 3.38065689232502 51.3212527499355, @@ -123,11 +131,29 @@ dev.off() plot(r.wenr.wgs84.wdvi.pol,main=paste("wdvi",imgdate),xlab="LON",ylab="LAT") plot(p2.wgs84,add=TRUE, col="transparent",border="red") #That's what we want! Now compare the stats -cellStats(r.wenr.rd.wdvi,'mean') #0.1654627 # Stats from rectangle, RD -cellStats(r.wenr.wgs84.wdvi,'mean') #0.1656399 # Stats from rectangle, WGS84 -cellStats(r.wenr.rd.wdvi.pol,'mean') #0.1658702 # Stats from raster clipped by polygon, WGS84 -cellStats(r.wenr.wgs84.wdvi.pol,'mean') #0.1658611 # Stats from raster clipped by polygon, WGS84 -# Conclusion: in this example little difference, but can be quite different! +cellStats(r.wenr.rd.wdvi,'mean') # [1] 0.1350561 # Stats from rectangle, RD +cellStats(r.wenr.wgs84.wdvi,'mean') # [1] 0.1351411 # Stats from rectangle, WGS84 +cellStats(r.wenr.rd.wdvi.pol,'mean') # [1] 0.05723957 # Stats from raster clipped by polygon, RD +cellStats(r.wenr.wgs84.wdvi.pol,'mean') # [1] 0.05723607 # Stats from raster clipped by polygon, WGS84 +# file SatelliteDataStatistics_test_satData_wdvi_2020-09-22.csv +# "mean": 0.057430520945401985 # SatelliteDataStatistics_test_satData_wdvi_2020.csv returns stats for the clipped raster (.pol). 'mean' almost the same, maybe +# cellStats cannot return median, just a few stats. +cellStats(r.wenr.wgs84.wdvi.pol,'median') # Error in .local(x, stat, ...) : invalid 'stat'. Should be sum, min, max, sd, mean, or 'countNA' +r.wenr.wgs84.wdvi.vals <- values(r.wenr.wgs84.wdvi) +median(r.wenr.wgs84.wdvi.vals) # [1] NA +median(r.wenr.wgs84.wdvi.vals,na.rm=TRUE) # [1] 0.076 +r.wenr.wgs84.wdvi.pol.vals <- values(r.wenr.wgs84.wdvi.pol) +median(r.wenr.wgs84.wdvi.pol.vals) # [1] NA +median(r.wenr.wgs84.wdvi.pol.vals,na.rm=TRUE) # [1] 0.048 +# "median": 0.04800000041723251 # SatelliteDataStatistics_test_satData_wdvi_2020.csv returns stats for the clipped raster (.pol). +# An image may contain NA values. Check: +cellStats(r.wenr.wgs84.wdvi,'countNA') # [1] 22956 +ncell(r.wenr.wgs84.wdvi) # [1] 221696 +cellStats(r.wenr.wgs84.wdvi,'countNA') / ncell(r.wenr.wgs84.wdvi) # [1] 0.1035472 # 10% no data? doesn't show in the plot? +cellStats(r.wenr.wgs84.wdvi.pol,'countNA') # [1] 147387 +summary(r.wenr.wgs84.wdvi.pol.vals) # shows the same: NA's: 147387 +ncell(r.wenr.wgs84.wdvi.pol) # [1] 221696 +cellStats(r.wenr.wgs84.wdvi.pol,'countNA') / ncell(r.wenr.wgs84.wdvi.pol) # [1] 0.6648158 # 66% no data? doesn't show in the plot? # The project FarmmapsNbs can generate a wenr.tif file, application.tif, uptake.tif (in rtest1.uptake.zip)and shape.shp (in rtest1.taskmap.zip) r.application <- raster("C:/git/FarmMapsApiClient_WURtest/FarmmapsNbs/bin/Debug/netcoreapp3.1/Downloads/application.tif") diff --git a/FarmmapsDataDownload/DataDownloadApplication.cs b/FarmmapsDataDownload/DataDownloadApplication.cs index 6001596..c0faa10 100644 --- a/FarmmapsDataDownload/DataDownloadApplication.cs +++ b/FarmmapsDataDownload/DataDownloadApplication.cs @@ -1,6 +1,7 @@ using System; using System.Collections.Generic; using System.IO; +using System.IO.Compression; using System.Linq; using System.Threading.Tasks; using FarmmapsApi; @@ -16,7 +17,7 @@ namespace FarmmapsDataDownload { public class DataDownloadApplication : IApplication { - private const string DownloadFolder = "Downloads"; + //private const string DownloadFolder = "Downloads"; private const string SettingsFile = "settings.json"; private readonly ILogger _logger; @@ -38,10 +39,8 @@ namespace FarmmapsDataDownload public async Task RunAsync() { var fieldsInputJson = File.ReadAllText("DataDownloadInput.json"); - List fieldsInputs = JsonConvert.DeserializeObject>(fieldsInputJson); - if (!Directory.Exists(DownloadFolder)) - Directory.CreateDirectory(DownloadFolder); + List fieldsInputs = JsonConvert.DeserializeObject>(fieldsInputJson); // !! this call is needed the first time an api is called with a fresh clientid and secret !! await _farmmapsApiService.GetCurrentUserCodeAsync(); @@ -62,12 +61,23 @@ namespace FarmmapsDataDownload private async Task Process(List roots, DataDownloadInput input) { + string downloadFolder = input.DownloadFolder; + if (string.IsNullOrEmpty(downloadFolder)) { + downloadFolder = "Downloads"; + } + if (!Directory.Exists(downloadFolder)) + Directory.CreateDirectory(downloadFolder); + // !!specify if you are using an already created cropfield: bool useCreatedCropfield = input.UseCreatedCropfield; var cropYear = input.CropYear; var fieldName = input.fieldName; - bool storeSatelliteStatistics = input.StoreSatelliteStatistics; + bool storeSatelliteStatistics = input.StoreSatelliteStatisticsSingleImage; bool storeSatelliteStatisticsCropYear = input.StoreSatelliteStatisticsCropYear; + List SatelliteBands = new List(1) { input.SatelliteBand }; + string headerLineStats = $"FieldName,satelliteDate,satelliteBand,max,min,mean,mode,median,stddev,minPlus,curtosis,maxMinus,skewness,variance,populationCount,variationCoefficient,confidenceIntervalLow, confidenceIntervalHigh,confidenceIntervalErrorMargin" + Environment.NewLine; + + string settingsfile = $"Settings_{fieldName}.json"; LoadSettings(settingsfile); @@ -92,7 +102,7 @@ namespace FarmmapsDataDownload { _logger.LogInformation("Creating cropfield"); cropfieldItem = await _generalService.CreateCropfieldItemAsync(myDriveRoot.Code, - $"DataCropfield {input.OutputFileName}", cropYear.Year, input.GeometryJson.ToString(Formatting.None)); + $"DataCropfield {input.OutputFileName}", cropYear, input.GeometryJson.ToString(Formatting.None)); _settings.CropfieldItemCode = cropfieldItem.Code; SaveSettings(settingsfile); } @@ -117,12 +127,10 @@ namespace FarmmapsDataDownload _logger.LogInformation("Downloading shadow map"); await _farmmapsApiService.DownloadItemAsync(shadowItem.Code, - Path.Combine(DownloadFolder, $"{input.OutputFileName}_shadow.zip")); + Path.Combine(downloadFolder, $"{input.OutputFileName}_shadow.zip")); } - - // Get satellite data if (input.GetSatelliteData) { @@ -134,54 +142,72 @@ namespace FarmmapsDataDownload SaveSettings(settingsfile); } - int selectedLayer= 2; - if (input.SatelliteBand == "ndvi") selectedLayer = 0; - if (input.SatelliteBand == "wdvi") selectedLayer = 1; - if (input.SatelliteBand == "natural") selectedLayer = 2; - // Select a particular satellite item from satelliteTask - Item satalliteItem = await _generalService.FindSatelliteItem(cropfieldItem, _settings.SatelliteTaskCode, fieldName, selectedLayer, storeSatelliteStatisticsCropYear, DownloadFolder); + // Select all satellite items + List satelliteItemsCropYear = await _generalService.FindSatelliteItems(cropfieldItem, _settings.SatelliteTaskCode); + satelliteItemsCropYear = satelliteItemsCropYear.OrderBy(x => x.DataDate).ToList(); - - var satelliteBand = satalliteItem.Data["layers"][selectedLayer]["name"]; - - //Store satellite data to csv - if (storeSatelliteStatistics == true && (selectedLayer == 0 || selectedLayer ==1)) - { - - - var satelliteStatistics = satalliteItem.Data["layers"][selectedLayer]["renderer"]["band"]["statistics"]; - Console.WriteLine($"Satellite image date: {satalliteItem.DataDate}"); - - var SatelliteStatsFile = $"{DownloadFolder}/SatelliteDataStatistics_{fieldName}_{input.SatelliteBand}_{satalliteItem.DataDate.Value:yyyy-MM-dd}.csv"; - using var w = new StreamWriter(SatelliteStatsFile); + if (input.StoreSatelliteStatisticsSingleImage == true) { + _logger.LogInformation("Available satellite images:"); + var count = 0; + TimeSpan.FromSeconds(0.5); + foreach (var item in satelliteItemsCropYear) { - foreach (var item in satelliteStatistics) + + Console.WriteLine($"Satellite image #{count}: {item.DataDate}"); + count++; + } + + _logger.LogInformation("Enter satellite image number"); + int element = Int32.Parse(Console.ReadLine()); + var selectedSatelliteItem = satelliteItemsCropYear[element]; + + var SatelliteDate = selectedSatelliteItem.DataDate.Value.ToString("yyyyMMdd"); + string fileName = string.Format($"satelliteGeotiff_{fieldName}_{SatelliteDate}"); // no need to add satelliteBand in the name because the tif contains all bands + string fileNameZip = string.Format($"{fileName}.zip"); + string fileNameGeotiff = string.Format($"{fileName}.tif"); + await _farmmapsApiService.DownloadItemAsync(selectedSatelliteItem.Code, Path.Combine(downloadFolder, fileNameZip)); + + // Download a csv file with stats + List selectedSatalliteItems = new List(1) { selectedSatelliteItem }; + string fileNameStats = Path.Combine(downloadFolder, string.Format($"satelliteStats_{fieldName}_{SatelliteDate}.csv")); + string downloadedStats = await _generalService.DownloadSatelliteStats(selectedSatalliteItems, fieldName, SatelliteBands, downloadFolder); + //rename the csv file with stats + File.Delete(fileNameStats); + File.Move(downloadedStats, fileNameStats); + // wenr.tif. Contains 5 layers: (1) ndvi, (2) wdvi, (3) Red, (4) Green and (5) Blue + // download the geotiffs. Returns a zip file with always these three files: + // data.dat.aux.xml + // thumbnail.jpg + // wenr.tif. Contains 5 layers: (1) ndvi, (2) wdvi, (3) Red, (4) Green and (5) Blue + if (true) + { + // Extract the file "wenr.tif" from zip, rename it to fileNameGeotiff + ZipFile.ExtractToDirectory(Path.Combine(downloadFolder, fileNameZip), downloadFolder, true); + File.Delete(Path.Combine(downloadFolder, fileNameGeotiff)); // Delete the fileNameGeotiff file if exists + File.Move(Path.Combine(downloadFolder, "wenr.tif"), Path.Combine(downloadFolder, fileNameGeotiff)); // Rename the oldFileName into newFileName + + // Cleanup + string[] filesToDelete = new string[] { fileNameZip, "wenr.tif", "thumbnail.jpg", "data.dat.aux.xml" }; + foreach (string f in filesToDelete) { - var line = string.Format("{0}", item); - w.WriteLine(line); - w.Flush(); + File.Delete(Path.Combine(downloadFolder, f)); } } + _logger.LogInformation($"Downloaded files {fileNameGeotiff} and {fileNameStats} to {downloadFolder}"); - var inputType = (satalliteItem.Data["layers"] as JArray)?[selectedLayer]["name"].ToString(); - if (string.IsNullOrEmpty(inputType)) { - _logger.LogError("Could not get the input type name from the satellite item"); - return; - } - - // download the geotiff of needed inputtype - var SatelliteImageDate = (DateTime)satalliteItem.DataDate; - var SatelliteDate = SatelliteImageDate.ToString("yyyyMMdd"); - _logger.LogInformation("Downloading geotiff file"); - await _farmmapsApiService.DownloadItemAsync(satalliteItem.Code, - Path.Combine(DownloadFolder, $"satelliteGeotiff_{input.OutputFileName}_{inputType}_{SatelliteDate}.zip")); + } + if (input.StoreSatelliteStatisticsCropYear == true) { + string fileNameStats = Path.Combine(downloadFolder, string.Format($"satelliteStats_{fieldName}_{cropYear}.csv")); + File.Delete(fileNameStats); + string downloadedStats = await _generalService.DownloadSatelliteStats(satelliteItemsCropYear, fieldName, SatelliteBands, downloadFolder); + File.Move(downloadedStats, fileNameStats); + _logger.LogInformation($"Downloaded file {fileNameStats} with stats for field '{fieldName}', cropyear {cropYear}"); } } - // Get vanDerSat data if (input.GetVanDerSatData) { diff --git a/FarmmapsDataDownload/DataDownloadInput.json b/FarmmapsDataDownload/DataDownloadInput.json index 11d80ac..4081f5b 100644 --- a/FarmmapsDataDownload/DataDownloadInput.json +++ b/FarmmapsDataDownload/DataDownloadInput.json @@ -3,15 +3,15 @@ "UseCreatedCropfield": true, "outputFileName": "testSatData2", "fieldName": "test_satData2", + "DownloadFolder": "C:\\workdir\\groenmonitor\\", //"C:\\workdir\\groenmonitor\\", // "Downloads", -> if you just put "Downloads" the program will download to somewhere in ..\FarmMapsApiClient_WURtest\FarmmapsDataDownload\bin\Debug\netcoreapp3.1\Downloads\ "GetShadowData": false, "GetSatelliteData": true, "SatelliteBand": "wdvi", // "natural", "ndvi" or "wdvi" - "StoreSatelliteStatistics": false, + "StoreSatelliteStatisticsSingleImage": true, "StoreSatelliteStatisticsCropYear": true, - "GetVanDerSatData": false, "StoreVanDerSatStatistics": false, - "CropYear": "2020-01-01", + "CropYear": 2020, "geometryJson": { "type": "Polygon", "coordinates": [ diff --git a/FarmmapsDataDownload/Models/DataDownloadInput.cs b/FarmmapsDataDownload/Models/DataDownloadInput.cs index 348f95e..82d8eef 100644 --- a/FarmmapsDataDownload/Models/DataDownloadInput.cs +++ b/FarmmapsDataDownload/Models/DataDownloadInput.cs @@ -9,14 +9,15 @@ namespace FarmmapsDataDownload.Models public string File { get; set; } public string InputVariable { get; set; } public string OutputFileName { get; set; } - public DateTime CropYear { get; set; } + public string DownloadFolder { get; set; } + public int CropYear { get; set; } public JObject GeometryJson { get; set; } public string InputLayerName { get; set; } public string fieldName { get; set; } public bool GetSatelliteData { get; set; } public bool GetVanDerSatData { get; set; } public string SatelliteBand { get; set; } - public bool StoreSatelliteStatistics { get; set; } + public bool StoreSatelliteStatisticsSingleImage { get; set; } public bool StoreSatelliteStatisticsCropYear { get; set; } public bool StoreVanDerSatStatistics { get; set; } public bool GetShadowData { get; set; }