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/***********************************************************************************/
/*  Copyright 2012 WSL Institute for Snow and Avalanche Research    SLF-DAVOS      */
/***********************************************************************************/
/* This file is part of MeteoIO.
    MeteoIO is free software: you can redistribute it and/or modify
    it under the terms of the GNU Lesser General Public License as published by
    the Free Software Foundation, either version 3 of the License, or
    (at your option) any later version.

    MeteoIO is distributed in the hope that it will be useful,
    but WITHOUT ANY WARRANTY; without even the implied warranty of
    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
    GNU Lesser General Public License for more details.

    You should have received a copy of the GNU Lesser General Public License
    along with MeteoIO.  If not, see <http://www.gnu.org/licenses/>.
*/
#include "GRIBIO.h"

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#include <meteoio/meteolaws/Atmosphere.h>
#include <meteoio/meteolaws/Meteoconst.h> //for PI
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#include <meteoio/DEMObject.h>
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#include <meteoio/MathOptim.h>
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#include <cmath>
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#include <errno.h>
#include <grib_api.h>

using namespace std;

namespace mio {
/**
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 * @page gribio GRIBIO
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 * @section gribio_format Format and limitations
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 * This plugin reads GRIB (https://en.wikipedia.org/wiki/GRIB) files as produced by meteorological models.
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 * Being based on GRIB API (https://software.ecmwf.int/wiki/display/GRIB/Home), it should support both version 1 and 2 of the format (please note that grib_api must be compiled with Position Independent Code ("fPIC" flag)).
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 * Fields are read based on their marsParam code (this is built as {grib parameter number}.{grib table number} the table being preferably table 2, the parameter being preferably WMO standardized, as in http://rda.ucar.edu/docs/formats/grib/gribdoc/params.html) and levels
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 * (levels description is available at http://www.nco.ncep.noaa.gov/pmb/docs/on388/). Standard COSMO grids are listed at http://zephyr.ucd.ie/mediawiki/index.php/COSMO_GRIB .
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 *
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 * Several assumptions/approximations are held/made when reading grids:
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 * - since models usually use rotated latitude/longitude (see http://www.cosmo-model.org/content/model/documentation/core/default.htm , part I, chapter 3.3), the center of the domain can be approximated by a tangential cartesian coordinate system. We therefore don't re-project the lat/lon grid and use it "as is".
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 * - however, no correction for grid rotation is currently performed. If a grid rotation is specified on top of the rotated coordinate system, an error message will be given
 * - the cell size is computed at the center of the domain. This is performed by retrieving the latitude and longitude increments in the rotated coordinates, computing the point at center+increment in geographic coordinates and computing the equivalent geographic latitude and longitude increment. These increments are then converted to distances along the parallel and meridian at the true center latitude (see https://en.wikipedia.org/wiki/Latitude#The_length_of_a_degree_of_latitude).
 * - the average cell size (ie: average between x and y) is used to move the center point to the lower left corner. This will be returned as lower left corner geolocalization of the grid.
 *
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 * This means that close to the center of the grid, coordinates and distances will work as expected, but the distortion will increase when moving away from the center and can become significant. As examples for domain size, cone can look at the MeteoSwiss domain definition at http://www.cosmo-model.org/content/tasks/operational/meteoSwiss/default.htm .
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 *
 * As a side note, when calling read2DGrid(grid, filename), it will returns the first grid that is found.
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 *
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 * @section cosmo_partners COSMO Group
 * This plugin has been developed primarily for reading GRIB files produced by COSMO (http://www.cosmo-model.org/) at MeteoSwiss.
 * COSMO (COnsortium for Small scale MOdelling) represents a non-hydrostatic limited-area atmospheric model, to be used both for operational and for research applications by the members of the consortium. The Consortium has the following members:
 *  - Germany, DWD, Deutscher Wetterdienst
 *  - Switzerland, MCH, MeteoSchweiz
 *  - Italy, USAM, Ufficio Generale Spazio Aereo e Meteorologia
 *  - Greece, HNMS, Hellenic National Meteorological Service
 *  - Poland, IMGW, Institute of Meteorology and Water Management
 *  - Romania, NMA, National Meteorological Administration
 *  - Russia, RHM, Federal Service for Hydrometeorology and Environmental Monitoring
 *  - Germany, AGeoBw, Amt für GeoInformationswesen der Bundeswehr
 *  - Italy, CIRA, Centro Italiano Ricerche Aerospaziali
 *  - Italy, ARPA-SIMC, ARPA Emilia Romagna Servizio Idro Meteo Clima
 *  - Italy, ARPA Piemonte, Agenzia Regionale per la Protezione Ambientale Piemonte
 *
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 * @section gribio_units Units
 * As specified by WMO.
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 *
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 * @section gribio_keywords Keywords
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 * This plugin uses the following keywords:
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 * - COORDSYS: coordinate system (see Coords)
 * - COORDPARAM: extra coordinates parameters (see Coords)
 * - GRID2DPATH: path where to find the grids
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 * - GRID2DPREFIX: prefix to append when generating a file name for reading (ie: something like "laf" for Cosmo-Analysis-full domain), optional
 * - GRID2DEXT: grib file extension, or <i>none</i> for no file extension (default: .grb)
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 * - GRIB_DEM_UPDATE: recompute slope/azimuth from the elevations when reading a DEM (default=false,
 * that is we use the slope and azimuth included in the GRIB file)
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 * - METEOPATH: path where to find the grids for extracting time series at special points
 * - METEOEXT: file extension, or <i>none</i> for no file extension (default: .grb)
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 * - STATION#: coordinates for virtual stations (if using GRIB as METEO plugin). Each station is given by its coordinates and the closest
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 * grid point will be chosen. Coordinates are given one one line as "lat lon" or "xcoord ycoord epsg_code". If a point leads to duplicate grid points,
 * it will be removed from the list.
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 *
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 */

const double GRIBIO::plugin_nodata = -999.; //plugin specific nodata value. It can also be read by the plugin (depending on what is appropriate)
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const double GRIBIO::tz_in = 0.; //GRIB time zone, always UTC
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const std::string GRIBIO::default_ext=".grb"; //filename extension
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GRIBIO::GRIBIO(const std::string& configfile)
        : cfg(configfile), grid2dpath_in(), meteopath_in(), vecPts(), cache_meteo_files(),
          meteo_ext(default_ext), grid2d_ext(default_ext), grid2d_prefix(), idx_filename(), coordin(), coordinparam(),
          VW(), DW(), wind_date(), llcorner(), fp(NULL), idx(NULL),
          latitudeOfNorthernPole(IOUtils::nodata), longitudeOfNorthernPole(IOUtils::nodata), bearing_offset(IOUtils::nodata),
          cellsize_x(IOUtils::nodata), cellsize_y(IOUtils::nodata),
          indexed(false), meteo_initialized(false), update_dem(false)
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{
	setOptions();
}

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GRIBIO::GRIBIO(const Config& cfgreader)
        : cfg(cfgreader), grid2dpath_in(), meteopath_in(), vecPts(), cache_meteo_files(),
          meteo_ext(default_ext), grid2d_ext(default_ext), grid2d_prefix(), idx_filename(), coordin(), coordinparam(),
          VW(), DW(), wind_date(), llcorner(), fp(NULL), idx(NULL),
          latitudeOfNorthernPole(IOUtils::nodata), longitudeOfNorthernPole(IOUtils::nodata), bearing_offset(IOUtils::nodata),
          cellsize_x(IOUtils::nodata), cellsize_y(IOUtils::nodata),
          indexed(false), meteo_initialized(false), update_dem(false)
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{
	setOptions();
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}

GRIBIO& GRIBIO::operator=(const GRIBIO& source) {
	if(this != &source) {
		fp = NULL;
		idx = NULL;
		grid2dpath_in = source.grid2dpath_in;
		meteopath_in = source.meteopath_in;
		vecPts = source.vecPts;
		cache_meteo_files = source.cache_meteo_files;
		meteo_ext = source.meteo_ext;
		grid2d_ext = source.grid2d_ext;
		grid2d_prefix = source.grid2d_prefix;
		idx_filename = source.idx_filename;
		coordin = source.coordin;
		coordinparam = source.coordinparam;
		VW = source.VW;
		DW = source.DW;
		wind_date = source.wind_date;
		llcorner = source.llcorner;
		latitudeOfNorthernPole = source.latitudeOfNorthernPole;
		longitudeOfNorthernPole = source.longitudeOfNorthernPole;
		bearing_offset = source.bearing_offset;
		cellsize_x = source.cellsize_x;
		cellsize_y = source.cellsize_y;
		indexed = source.indexed;
		meteo_initialized = source.meteo_initialized;
		update_dem = source.update_dem;
	}
	return *this;
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}

GRIBIO::~GRIBIO() throw()
{
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	cleanup();
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}

void GRIBIO::setOptions()
{
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	std::string coordout, coordoutparam;
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	IOUtils::getProjectionParameters(cfg, coordin, coordinparam, coordout, coordoutparam);
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	string tmp;
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	cfg.getValue("GRID2D", "Input", tmp, IOUtils::nothrow);
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	if (tmp == "GRIB") { //keep it synchronized with IOHandler.cc for plugin mapping!!
		cfg.getValue("GRID2DPATH", "Input", grid2dpath_in);
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		cfg.getValue("GRIB_DEM_UPDATE", "Input", update_dem, IOUtils::nothrow);
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	}
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	cfg.getValue("GRID2DPREFIX", "Input", grid2d_prefix, IOUtils::nothrow);
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	cfg.getValue("METEOEXT", "Input", meteo_ext, IOUtils::nothrow);
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	if(meteo_ext=="none") meteo_ext.clear();
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	cfg.getValue("GRID2DEXT", "Input", grid2d_ext, IOUtils::nothrow);
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	if(grid2d_ext=="none") grid2d_ext.clear();
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}
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void GRIBIO::readStations(std::vector<Coords> &vecPoints)
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{
	cfg.getValue("METEOPATH", "Input", meteopath_in);
	size_t current_stationnr = 1;
	string current_station;
	do {
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		current_station.clear();
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		ostringstream ss;
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		ss << "STATION" << current_stationnr;
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		cfg.getValue(ss.str(), "Input", current_station, IOUtils::nothrow);
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		IOUtils::stripComments(current_station);
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		if (!current_station.empty()) {
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			addStation(current_station, vecPoints);
			std::cerr <<  "\tRead virtual station " << vecPoints.back().printLatLon() << "\n";
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		}
		current_stationnr++;
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	} while (!current_station.empty());
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}

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void GRIBIO::addStation(const std::string& coord_spec, std::vector<Coords> &vecPoints)
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{
	std::istringstream iss(coord_spec);
	double coord1=IOUtils::nodata, coord2=IOUtils::nodata;
	int epsg=IOUtils::inodata;

	iss >> std::skipws >> coord1;
	iss >> std::skipws >> coord2;
	iss >> std::skipws >> epsg;

	if(coord1!=IOUtils::nodata && coord2!=IOUtils::nodata && epsg!=IOUtils::inodata) {
		Coords point;
		point.setEPSG(epsg);
		point.setXY(coord1, coord2, IOUtils::nodata);
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		vecPoints.push_back(point);
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		return;
	}
	if(coord1!=IOUtils::nodata && coord2!=IOUtils::nodata) {
		Coords point(coordin, coordinparam);
		point.setLatLon(coord1, coord2, IOUtils::nodata);
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		vecPoints.push_back(point);
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		return;
	}

	throw InvalidArgumentException("Coordinate specification \""+coord_spec+"\" is invalid!", AT);
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}

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void GRIBIO::listKeys(grib_handle** h, const std::string& filename)
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{
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	const unsigned int MAX_VAL_LEN = 1024; //max value string length in GRIB
	unsigned long key_iterator_filter_flags = GRIB_KEYS_ITERATOR_ALL_KEYS;
	char* name_space = NULL;
	grib_keys_iterator* kiter = grib_keys_iterator_new(*h,key_iterator_filter_flags,name_space);
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	if (!kiter) {
		cleanup();
		throw IOException("Unable to create keys iterator for \""+filename+"\"", AT);
	}
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	//Iterating over all keys
	while(grib_keys_iterator_next(kiter)) {
		const char* name = grib_keys_iterator_get_name(kiter);
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		char value[MAX_VAL_LEN];
		size_t vlen = MAX_VAL_LEN;
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		bzero(value,vlen);
		GRIB_CHECK(grib_get_string(*h,name,value,&vlen),name);
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		std::cerr << name << " = " << value << "\n";
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	}

	grib_keys_iterator_delete(kiter);
}

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void  GRIBIO::listFields(const std::string& filename)
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{
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	grib_handle* h=NULL;
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	int err=0;
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	//loop over the messages
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	while((h = grib_handle_new_from_file(0,fp,&err)) != NULL) {
		if(!h) {
			cleanup();
			throw IOException("Unable to create grib handle for \""+filename+"\"", AT);
		}

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		double marsParam;
		GRIB_CHECK(grib_get_double(h,"marsParam",&marsParam),0);

		size_t len=500;
		char name[500], shortname[500];
		GRIB_CHECK(grib_get_string(h,"name",name, &len),0);
		len=500; //this has been reset by the previous call... no comments
		GRIB_CHECK(grib_get_string(h,"shortName",shortname, &len),0);
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		long levelType;
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		GRIB_CHECK(grib_get_long(h,"indicatorOfTypeOfLevel", &levelType),0);
		long level=0;
		if(levelType!=1) GRIB_CHECK(grib_get_long(h,"level", &level),0);
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		std::cerr << marsParam << " " << shortname << " " << name << " type " << levelType << " level " << level << "\n";
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		grib_handle_delete(h);
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	}
}
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void GRIBIO::getDate(grib_handle* h, Date &base, double &d1, double &d2) {
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	long dataDate, dataTime;
	GRIB_CHECK(grib_get_long(h,"dataDate",&dataDate),0);
	GRIB_CHECK(grib_get_long(h,"dataTime",&dataTime),0);

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	const int year=static_cast<int>(dataDate/10000), month=static_cast<int>(dataDate/100-year*100), day=static_cast<int>(dataDate-month*100-year*10000);
	const int hour=static_cast<int>(dataTime/100), minutes=static_cast<int>(dataTime-hour*100);
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	base.setDate(year, month, day, hour, minutes, tz_in);

	//reading offset to base date/time, as used for forecast, computed at time t for t+offset
	long stepUnits, startStep, endStep;
	GRIB_CHECK(grib_get_long(h,"stepUnits",&stepUnits),0);
	GRIB_CHECK(grib_get_long(h,"startStep",&startStep),0);
	GRIB_CHECK(grib_get_long(h,"endStep",&endStep),0);

	double step_units; //in julian, ie. in days
	switch(stepUnits) {
		case 0: //minutes
			step_units = 1./(24.*60.);
			break;
		case 1: //hours
			step_units = 1./24.;
			break;
		case 2: //days
			step_units = 1.;
			break;
		case 10: //3 hours
			step_units = 3./24.;
			break;
		case 11: //6 hours
			step_units = 6./24.;
			break;
		case 12: //12 hours
			step_units = 12./24.;
			break;
		case 13: //seconds
			step_units = 1./(24.*3600.);
			break;
		case 14: //15 minutes
			step_units = 15./(24.*60.);
			break;
		case 15: //30 minutes
			step_units = 30./(24.*60.);
			break;
		default:
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			std::ostringstream ss;
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			ss << "GRIB file using stepUnits=" << stepUnits << ", which is not supported";
			throw InvalidFormatException(ss.str(), AT);
	}

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	d1 = static_cast<double>(startStep*step_units);
	d2 = static_cast<double>(endStep*step_units);
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}

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Coords GRIBIO::getGeolocalization(grib_handle* h, double &cell_x, double &cell_y)
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{
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	//getting transformation parameters
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	double angleOfRotationInDegrees;
	GRIB_CHECK(grib_get_double(h,"angleOfRotationInDegrees",&angleOfRotationInDegrees),0);
	if(angleOfRotationInDegrees!=0.) {
		throw InvalidArgumentException("Rotated grids not supported!", AT);
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	}
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	double latitudeOfSouthernPole, longitudeOfSouthernPole;
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	GRIB_CHECK(grib_get_double(h,"latitudeOfSouthernPoleInDegrees",&latitudeOfSouthernPole),0);
	GRIB_CHECK(grib_get_double(h,"longitudeOfSouthernPoleInDegrees",&longitudeOfSouthernPole),0);
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	latitudeOfNorthernPole = -latitudeOfSouthernPole;
	longitudeOfNorthernPole = longitudeOfSouthernPole+180.;
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	//determining llcorner, urcorner and center coordinates
	double ll_latitude, ll_longitude, ll_lat, ll_lon;
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	GRIB_CHECK(grib_get_double(h,"latitudeOfFirstGridPointInDegrees",&ll_latitude),0);
	GRIB_CHECK(grib_get_double(h,"longitudeOfFirstGridPointInDegrees",&ll_longitude),0);
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	Coords::rotatedToTrueLatLon(latitudeOfNorthernPole, longitudeOfNorthernPole, ll_latitude, ll_longitude, ll_lat, ll_lon);
	double ur_latitude, ur_longitude, ur_lat, ur_lon;
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	GRIB_CHECK(grib_get_double(h,"latitudeOfLastGridPointInDegrees",&ur_latitude),0);
	GRIB_CHECK(grib_get_double(h,"longitudeOfLastGridPointInDegrees",&ur_longitude),0);
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	Coords::rotatedToTrueLatLon(latitudeOfNorthernPole, longitudeOfNorthernPole, ur_latitude, ur_longitude, ur_lat, ur_lon);
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	double cntr_lat, cntr_lon; //geographic coordinates
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	Coords::rotatedToTrueLatLon(latitudeOfNorthernPole, longitudeOfNorthernPole, .5*(ll_latitude+ur_latitude), .5*(ll_longitude+ur_longitude), cntr_lat, cntr_lon);
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	//determining cell size
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	long Ni, Nj;
	GRIB_CHECK(grib_get_long(h,"Ni",&Ni),0);
	GRIB_CHECK(grib_get_long(h,"Nj",&Nj),0);
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	double bearing;
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	cell_x = Coords::VincentyDistance(cntr_lat, ll_lon, cntr_lat, ur_lon, bearing) / (double)Ni;
	cell_y = Coords::VincentyDistance(cntr_lon, ll_lat, cntr_lon, ur_lat, bearing) / (double)Nj;

	//determining bearing offset
	double delta_lat, delta_lon; //geographic coordinates
	Coords::rotatedToTrueLatLon(latitudeOfNorthernPole, longitudeOfNorthernPole, .5*(ll_latitude+ur_latitude)+1., .5*(ll_longitude+ur_longitude), delta_lat, delta_lon);
	Coords::VincentyDistance(cntr_lat, cntr_lon, delta_lat, delta_lon, bearing_offset);
	bearing_offset = fmod( bearing_offset + 180., 360.) - 180.; // turn into [-180;180)
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	//computing lower left corner by using the center point as reference
	Coords cntr(coordin, coordinparam);
	cntr.setLatLon(cntr_lat, cntr_lon, IOUtils::nodata);
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	const double cellsize=.5*(cell_x+cell_y);
	cntr.moveByXY(-.5*(double)Ni*cellsize, -.5*(double)Nj*cellsize);
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	//checking that cellsize does not vary too much across the grid
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	/*const double cellsize_x_ll = Coords::lon_degree_lenght(ll_latitude)*d_j;
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	const double cellsize_x_ur = Coords::lon_degree_lenght(ur_latitude)*d_j;
	if( fabs(cellsize_x_ll-cellsize_x_ur)/cellsize_x > 1./100.) {
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		ostringstream ss;
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		ss << "Cell size varying too much in the x direction between lower left and upper right corner: ";
		ss << cellsize_x_ll << "m to " << cellsize_x_ur << "m";
		throw IOException(ss.str(), AT);
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	}*/
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	return cntr; //this is now the ll corner
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}

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void GRIBIO::read2Dlevel(grib_handle* h, Grid2DObject& grid_out, const bool& read_geolocalization)
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{
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	long Ni, Nj;
	GRIB_CHECK(grib_get_long(h,"Ni",&Ni),0);
	GRIB_CHECK(grib_get_long(h,"Nj",&Nj),0);

	size_t values_len= 0;
	GRIB_CHECK(grib_get_size(h,"values",&values_len),0);
	if(values_len!=(unsigned)(Ni*Nj)) {
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		ostringstream ss;
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		ss << "Declaring grid of size " << Ni << "x" << Nj << "=" << Ni*Nj << " ";
		ss << "but containing " << values_len << " values. This is inconsistent!";
		throw InvalidArgumentException(ss.str(), AT);
	}
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	double *values = (double*)calloc(values_len, sizeof(double));
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	GRIB_CHECK(grib_get_double_array(h,"values",values,&values_len),0);
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	if(read_geolocalization) {
		llcorner = getGeolocalization(h, cellsize_x, cellsize_y);
		if( fabs(cellsize_x-cellsize_y)/cellsize_x > 1./100.) {
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			free(values);
			throw InvalidArgumentException("Unsupported geometry: cells can not be represented by square cells!", AT);
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		}
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	}
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	grid_out.set(static_cast<size_t>(Ni), static_cast<size_t>(Nj), .5*(cellsize_x+cellsize_y), llcorner);
	size_t i=0;
	for(size_t jj=0; jj<(unsigned)Nj; jj++) {
		for(size_t ii=0; ii<(unsigned)Ni; ii++)
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			grid_out(ii,jj) = values[i++];
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	}
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	free(values);
}
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bool GRIBIO::read2DGrid_indexed(const double& in_marsParam, const long& i_levelType, const long& i_level, const Date i_date, Grid2DObject& grid_out)
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{
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	GRIB_CHECK(grib_index_select_double(idx,"marsParam",in_marsParam),0);
	GRIB_CHECK(grib_index_select_long(idx,"indicatorOfTypeOfLevel", i_levelType),0);

419
420
	grib_handle* h=NULL;
	int err=0;
421
	while((h = grib_handle_new_from_index(idx,&err)) != NULL) {
422
423
		if(!h) {
			cleanup();
424
			throw IOException("Unable to create grib handle from index", AT);
425
426
		}

427
428
429
430
431
432
433
434
		Date base_date;
		double P1, P2;
		getDate(h, base_date, P1, P2);

		//see WMO code table5 for definitions of timeRangeIndicator. http://dss.ucar.edu/docs/formats/grib/gribdoc/timer.html
		long timeRange;
		GRIB_CHECK(grib_get_long(h,"timeRangeIndicator", &timeRange),0);

435
		long level=0;
436
		if(i_level!=0) GRIB_CHECK(grib_get_long(h,"level", &level),0);
437
438
439
440
441
442
443
444
445
446
		if(level==i_level) {
			//geolocalization has been initialized when indexing the file, so we don't need to redo it
			if( (i_date.isUndef()) ||
			    (timeRange==0 && i_date==base_date+P1) ||
			    (timeRange==1 && i_date==base_date) ||
			    ((timeRange==2 || timeRange==3) && i_date>=base_date+P1 && i_date<=base_date+P2) ||
			    ((timeRange==4 || timeRange==5) && i_date==base_date+P2) ) {
				read2Dlevel(h, grid_out, false);
				return true;
			}
447
		}
448
		grib_handle_delete(h);
449
	}
450
	return false;
451
452
}

453
void GRIBIO::read2DGrid(Grid2DObject& grid_out, const std::string& i_name)
454
{
455
456
457
	const std::string filename = grid2dpath_in+"/"+i_name;
	fp = fopen(filename.c_str(),"r");
	if(fp==NULL) {
458
		ostringstream ss;
459
460
461
462
463
464
465
466
467
468
469
470
		ss << "Error openning file \"" << filename << "\", possible reason: " << strerror(errno);
		throw FileAccessException(ss.str(), AT);
	}

	grib_handle* h=NULL;
	int err=0;
	if((h = grib_handle_new_from_file(0,fp,&err)) != NULL) {
		if(!h) {
			cleanup();
			throw IOException("Unable to create grib handle for \""+filename+"\"", AT);
		}

471
		read2Dlevel(h, grid_out, true);
472
473
474
475
476
477
478
		grib_handle_delete(h);
	} else {
		cleanup();
		throw IOException("No grid found in file \""+filename+"\"", AT);
	}

	cleanup();
479
480
}

481
void GRIBIO::indexFile(const std::string& filename)
482
{
483
484
	fp = fopen(filename.c_str(),"r");
	if(fp==NULL) {
485
		ostringstream ss;
486
487
488
489
		ss << "Error openning file \"" << filename << "\", possible reason: " << strerror(errno);
		throw FileAccessException(ss.str(), AT);
	}

490
	int err=0;
491
	const std::string keys("marsParam:d,indicatorOfTypeOfLevel:l"); //indexing keys
492
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494
495
	char *c_filename = (char *)filename.c_str();
	idx = grib_index_new_from_file(0, c_filename, keys.c_str(), &err);
	if(err!=0) {
		cleanup();
496
		throw IOException("Failed to index GRIB file \""+filename+"\". Is it a valid GRIB file?", AT);
497
498
499
	}
	indexed=true;
	idx_filename=filename;
500
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502
503
504
505
506
507
508
509

	//read geolocalization of the first grid we find
	grib_handle* h=NULL;
	err=0;
	if((h = grib_handle_new_from_file(0,fp,&err)) != NULL) {
		if(!h) {
			cleanup();
			throw IOException("Unable to create grib handle for \""+filename+"\"", AT);
		}

510
		//llcorner = getGeolocalization(h, cellsize_x, cellsize_y); //this sets llcorner, cellsize and bearing_offset
511
512
513
514
515
516
517
518
519
		if( fabs(cellsize_x-cellsize_y)/cellsize_x > 1./100.) {
			throw InvalidArgumentException("Cells can not be represented by square cells. This is not supported!", AT);
		}
		grib_handle_delete(h);
	} else {
		cleanup();
		throw IOException("No grid found in file \""+filename+"\"", AT);
	}

520
}
521

522
void GRIBIO::read2DGrid(Grid2DObject& grid_out, const MeteoGrids::Parameters& parameter, const Date& date)
523
{
524
525
	Date UTC_date = date;
	UTC_date.setTimeZone(tz_in);
526

527
	const std::string filename = grid2dpath_in+"/"+grid2d_prefix+UTC_date.toString(Date::NUM).substr(0,10)+grid2d_ext;
528
529

	read2DGrid(filename, grid_out, parameter, UTC_date);
530
531
}

532
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534
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536
537
538
539
540
541
542
543
544
545
void GRIBIO::readWind(const std::string& filename, const Date& date)
{
	if(wind_date==date) return; //wind fields are already up to date

	if(read2DGrid_indexed(32.2, 105, 10, date, VW)) { //FF_10M
		if(!read2DGrid_indexed(31.2, 105, 10, date, DW)) //DD_10M
			throw NoAvailableDataException("Can not read wind direction in file \""+filename+"\"", AT);
	} else {
		Grid2DObject U,V;
		read2DGrid_indexed(33.2, 105, 10, date, U); //U_10M, also in 110, 10 as U
		read2DGrid_indexed(34.2, 105, 10, date, V); //V_10M, also in 110, 10 as V

		VW.set(U.ncols, U.nrows, U.cellsize, U.llcorner);
		DW.set(U.ncols, U.nrows, U.cellsize, U.llcorner);
546
547
		for(size_t jj=0; jj<VW.nrows; jj++) {
			for(size_t ii=0; ii<VW.ncols; ii++) {
548
				VW(ii,jj) = sqrt( Optim::pow2(U(ii,jj)) + Optim::pow2(V(ii,jj)) );
549
				DW(ii,jj) = fmod( atan2( U(ii,jj), V(ii,jj) ) * Cst::to_deg + 360. + bearing_offset, 360.); // turn into degrees [0;360)
550
551
552
553
554
555
556
			}
		}
	}

	wind_date = date;
}

557
void GRIBIO::read2DGrid(const std::string& filename, Grid2DObject& grid_out, const MeteoGrids::Parameters& parameter, const Date& date)
558
{ //Parameters should be read in table 2 if available since this table is the one standardized by WMO
559
	if(!indexed || idx_filename!=filename) {
560
561
562
563
		cleanup();
		indexFile(filename);
	}

564
	//Basic meteo parameters
565
	if(parameter==MeteoGrids::P) read2DGrid_indexed(1.2, 1, 0, date, grid_out); //PS
566
	if(parameter==MeteoGrids::TA) read2DGrid_indexed(11.2, 105, 2, date, grid_out); //T_2M
567
	if(parameter==MeteoGrids::RH) {
568
		if(!read2DGrid_indexed(52.2, 105, 2, date, grid_out)) { //RELHUM_2M
569
			Grid2DObject ta;
570
571
			read2DGrid_indexed(11.2, 105, 2, date, ta); //T_2M
			read2DGrid_indexed(17.2, 105, 2, date, grid_out); //TD_2M
572
573
			for(size_t jj=0; jj<grid_out.nrows; jj++) {
				for(size_t ii=0; ii<grid_out.ncols; ii++) {
574
575
576
577
578
					grid_out(ii,jj) = Atmosphere::DewPointtoRh(grid_out(ii,jj), ta(ii,jj), true);
				}
			}
		}
	}
579
580
	if(parameter==MeteoGrids::TSS) read2DGrid_indexed(197.201, 111, 0, date, grid_out); //T_SO
	if(parameter==MeteoGrids::TSG) read2DGrid_indexed(11.2, 1, 0, date, grid_out); //T_G
581
582

	//hydrological parameters
583
584
585
586
	if(parameter==MeteoGrids::HNW) read2DGrid_indexed(61.2, 1, 0, date, grid_out); //tp
	if(parameter==MeteoGrids::ROT) read2DGrid_indexed(90.2, 112, 0, date, grid_out); //RUNOFF
	if(parameter==MeteoGrids::SWE) read2DGrid_indexed(65.2, 1, 0, date, grid_out); //W_SNOW
	if(parameter==MeteoGrids::HS) {
587
588
589
590
591
592
		if(!read2DGrid_indexed(66.2, 1, 0, date, grid_out)) {
			Grid2DObject snow_density;
			read2DGrid_indexed(133.201, 1, 0, date, snow_density); //RHO_SNOW
			read2DGrid_indexed(65.2, 1, 0, date, grid_out); //W_SNOW
			grid_out.grid2D /= snow_density.grid2D;
		}
593
	}
594
595

	//radiation parameters
596
597
598
599
	if(parameter==MeteoGrids::ALB) {
		read2DGrid_indexed(84.2, 1, 0, date, grid_out); //ALB_RAD
		grid_out.grid2D /= 100.;
	}
600
601
602
603
604
	if(parameter==MeteoGrids::ILWR) {
		if(read2DGrid_indexed(115.2, 1, 0, date, grid_out)) { //long wave
			grid_out.grid2D *= -1.;
		} else read2DGrid_indexed(25.201, 1, 0, date, grid_out); //ALWD_S
	}
605
	/*if(parameter==MeteoGrids::CLD) { //cloudiness
606
607
608
609
		if(read2DGrid_indexed(74.2, 1, 0, date, grid_out)) //CLCM
		grid_out.grid2D /= 100.;
	}*/

610
	if(parameter==MeteoGrids::ISWR) {
611
612
		if(read2DGrid_indexed(116.2, 1, 0, date, grid_out)) { //short wave
			grid_out.grid2D *= -1.;
613
		} else if(!read2DGrid_indexed(111.250, 1, 0, date, grid_out)) { //GLOB
614
			Grid2DObject diff;
615
616
			read2DGrid_indexed(23.201, 1, 0, date, diff); //diffuse rad, ASWDIFD_S
			read2DGrid_indexed(22.201, 1, 0, date, grid_out); //direct rad, ASWDIR_S
617
618
619
620
621
			grid_out.grid2D += diff.grid2D;
		}
	}

	//DEM parameters
622
	if(parameter==MeteoGrids::DEM) read2DGrid_indexed(8.2, 1, 0, date, grid_out); //HSURF
623
624
	if(parameter==MeteoGrids::SLOPE) {
		read2DGrid_indexed(98.202, 1, 0, date, grid_out); //SLO_ANG
625
		grid_out.grid2D *= Cst::to_deg;
626
627
628
	}
	if(parameter==MeteoGrids::AZI) {
		read2DGrid_indexed(99.202, 1, 0, date, grid_out); //SLO_ASP
629
630
		for(size_t jj=0; jj<grid_out.nrows; jj++) {
			for(size_t ii=0; ii<grid_out.ncols; ii++) {
631
				grid_out(ii,jj) = fmod( grid_out(ii,jj)*Cst::to_deg + 360. + bearing_offset, 360.); // turn into degrees [0;360)
632
633
			}
		}
634
	}
635

636
	//Wind parameters
637
	if(parameter==MeteoGrids::VW_MAX) read2DGrid_indexed(187.201, 105, 10, date, grid_out); //VMAX_10M 10m
638
639
640
641
	if(parameter==MeteoGrids::W) read2DGrid_indexed(40.2, 109, 10, date, grid_out); //W, 10m
	 //we need to use VW, DW, correct for re-projection and recompute U,V
	if(parameter==MeteoGrids::U) {
		readWind(filename, date);
642
643
		for(size_t jj=0; jj<grid_out.nrows; jj++) {
			for(size_t ii=0; ii<grid_out.ncols; ii++) {
644
				grid_out(ii,jj) = VW(ii,jj)*sin(DW(ii,jj)*Cst::to_rad);
645
646
647
			}
		}
	}
648
649
	if(parameter==MeteoGrids::V) {
		readWind(filename, date);
650
651
		for(size_t jj=0; jj<grid_out.nrows; jj++) {
			for(size_t ii=0; ii<grid_out.ncols; ii++) {
652
				grid_out(ii,jj) = VW(ii,jj)*cos(DW(ii,jj)*Cst::to_rad);
653
654
655
			}
		}
	}
656
657
658
659
660
661
662
663
	if(parameter==MeteoGrids::DW) {
		readWind(filename, date);
		grid_out = DW;
	}
	if(parameter==MeteoGrids::VW) {
		readWind(filename, date);
		grid_out = VW;
	}
664
665

	if(grid_out.isEmpty()) {
666
		ostringstream ss;
667
668
669
670
671
672
		ss << "No suitable data found for parameter " << MeteoGrids::getParameterName(parameter) << " ";
		ss << "at time step " << date.toString(Date::ISO) << " in file \"" << filename << "\"";
		throw NoAvailableDataException(ss.str(), AT);
	}

	//correcting wind speeds
673
674
	/*if(parameter==MeteoGrids::U || parameter==MeteoGrids::V || parameter==MeteoGrids::W || parameter==MeteoGrids::VW || parameter==MeteoGrids::VW_MAX) {
		//we need to compute the wind at 7.5m
675
		Grid2DObject Z0;
676
		if(read2DGrid_indexed(83.2, 1, 0, date, Z0)) { //Z0
677
678
			for(size_t jj=0; jj<grid_out.nrows; jj++) {
				for(size_t ii=0; ii<grid_out.ncols; ii++) {
679
					grid_out(ii,jj) = Atmosphere::windLogProfile(grid_out(ii,jj), 10., 7.5, Z0(ii,jj));
680
681
				}
			}
682
		} else {
683
			const double wind_factor = Atmosphere::windLogProfile(1., 10., 7.5, 0.03);
684
			grid_out.grid2D *= wind_factor;
685
		}
686
	}*/
687
688
}

689
void GRIBIO::readDEM(DEMObject& dem_out)
690
{
691
	const Date d(2012,9,19,0,0,0); //ie: undef. This will be caught when reading the GRIB file
692
693
694
695
696
697
698
699
700
701
702
703
704
705
706
707
708
709
710
711
712
713
714
715
716
717
718
719
	std::string filename;

	cfg.getValue("DEMFILE", "Input", filename);
	read2DGrid(filename, dem_out, MeteoGrids::DEM, d);
	if(update_dem) {
		dem_out.update();
	} else {
		const int dem_ppt=dem_out.getUpdatePpt();
		if(dem_ppt&DEMObject::SLOPE) {
			Grid2DObject slope;
			read2DGrid(filename, slope, MeteoGrids::SLOPE, d);
			dem_out.slope=slope.grid2D;
			Grid2DObject azi;
			read2DGrid(filename, azi, MeteoGrids::AZI, d);
			dem_out.azi=azi.grid2D;
		}
		if(dem_ppt&DEMObject::NORMAL || dem_ppt&DEMObject::CURVATURE) {
			//we will only update the normals and/or curvatures, then revert update properties
			if(dem_ppt&DEMObject::NORMAL && dem_ppt&DEMObject::CURVATURE) dem_out.setUpdatePpt((DEMObject::update_type)(DEMObject::NORMAL|DEMObject::CURVATURE));
			else if(dem_ppt&DEMObject::NORMAL) dem_out.setUpdatePpt(DEMObject::NORMAL);
			else if(dem_ppt&DEMObject::CURVATURE) dem_out.setUpdatePpt(DEMObject::CURVATURE);

			dem_out.update();
			dem_out.setUpdatePpt((DEMObject::update_type)dem_ppt);
		}

		dem_out.updateAllMinMax();
	}
720
721
722
723
724
725
726
727
728
729
730
731
732
733
734
735
736
737
738
739
}

void GRIBIO::readLanduse(Grid2DObject& /*landuse_out*/)
{
	//Nothing so far
	throw IOException("Nothing implemented here", AT);
}

void GRIBIO::readAssimilationData(const Date& /*date_in*/, Grid2DObject& /*da_out*/)
{
	//Nothing so far
	throw IOException("Nothing implemented here", AT);
}

void GRIBIO::readStationData(const Date&, std::vector<StationData>& /*vecStation*/)
{
	//Nothing so far
	throw IOException("Nothing implemented here", AT);
}

740
741
742
void GRIBIO::scanMeteoPath()
{
	std::list<std::string> dirlist;
743
	IOUtils::readDirectory(meteopath_in, dirlist, meteo_ext);
744
745
746
747
748
749
750
751
	dirlist.sort();

	//Check date in every filename and cache it
	std::list<std::string>::iterator it = dirlist.begin();
	while ((it != dirlist.end())) {
		const std::string& filename = *it;
		std::string::size_type spos = filename.find_first_of("0123456789");
		Date date;
752
		IOUtils::convertString(date, filename.substr(spos,10), tz_in);
753
754
755
756
757
758
759
		std::pair<Date,std::string> tmp(date, filename);

		cache_meteo_files.push_back(tmp);
		it++;
	}
}

760
761
void GRIBIO::readMeteoData(const Date& dateStart, const Date& dateEnd,
                             std::vector< std::vector<MeteoData> >& vecMeteo,
762
763
                             const size_t&)
{
764
	if(!meteo_initialized) {
765
		readStations(vecPts);
766
767
768
		scanMeteoPath();
		meteo_initialized=true;
	}
769

770
	vecMeteo.clear();
771

772
773
	double *lats = (double*)malloc(vecPts.size()*sizeof(double));
	double *lons = (double*)malloc(vecPts.size()*sizeof(double));
774
775
776
777
	std::vector<StationData> meta; //metadata for meteo time series
	bool meta_ok=false; //set to true once the metadata have been read

	//find index of first time step
778
	size_t idx_start;
779
780
781
782
783
784
785
786
787
	bool start_found=false;
	for(idx_start=0; idx_start<cache_meteo_files.size(); idx_start++) {
		if(dateStart<cache_meteo_files[idx_start].first) {
			start_found=true;
			break;
		}
	}
	if(start_found==false) return;
	if(idx_start>0) idx_start--; //start with first element before dateStart (useful for resampling)
788
789

	try {
790
		for(size_t ii=idx_start; ii<cache_meteo_files.size(); ii++) {
791
792
793
			const Date& date = cache_meteo_files[ii].first;
			if(date>dateEnd) break;
			const std::string filename = meteopath_in+"/"+cache_meteo_files[ii].second;
794
795
796

			if(!indexed || idx_filename!=filename) {
				cleanup();
797
				indexFile(filename); //this will also read geolocalization
798
799
			}
			if(!meta_ok) {
800
				if(readMeteoMeta(vecPts, meta, lats, lons)==false) {
801
802
803
804
					//some points have been removed vecPts has been changed -> re-reading
					free(lats); free(lons);
					lats = (double*)malloc(vecPts.size()*sizeof(double));
					lons = (double*)malloc(vecPts.size()*sizeof(double));
805
					readMeteoMeta(vecPts, meta, lats, lons);
806
				}
807
				vecMeteo.insert(vecMeteo.begin(), vecPts.size(), std::vector<MeteoData>()); //allocation for the vectors now that we know how many true stations we have
808
				meta_ok=true;
809
810
811
812
			}

			std::vector<MeteoData> Meteo;
			readMeteoStep(meta, lats, lons, date, Meteo);
813
			for(size_t jj=0; jj<vecPts.size(); jj++)
814
815
816
817
				vecMeteo[jj].push_back(Meteo[jj]);
		}
	} catch(...) {
		free(lats); free(lons);
818
		cleanup();
819
		throw;
820
821
	}

822
	free(lats); free(lons);
823
824
}

825
bool GRIBIO::removeDuplicatePoints(std::vector<Coords>& vecPoints, double *lats, double *lons)
826
{ //remove potential duplicates. Returns true if some have been removed
827
	const size_t npoints = vecPoints.size();
828
829
	std::vector<size_t> deletions;
	deletions.reserve(npoints);
830
	for(size_t ii=0; ii<npoints; ii++) {
831
832
		const double lat = lats[ii];
		const double lon = lons[ii];
833
		for(size_t jj=ii+1; jj<npoints; jj++) {
834
835
836
			if(lat==lats[jj] && lon==lons[jj]) {
				deletions.push_back(jj);
			}
837
838
839
840
		}
	}

	//we need to erase from the end in order to keep the index unchanged...
841
842
	for(size_t ii=deletions.size(); ii>0; ii--) {
		const size_t index=deletions[ii-1];
843
		vecPoints.erase(vecPoints.begin()+index);
844
845
	}

846
	if(!deletions.empty()) return true;
847
848
849
	return false;
}

850
851
bool GRIBIO::readMeteoMeta(std::vector<Coords>& vecPoints, std::vector<StationData> &stations, double *lats, double *lons)
{//return true if the metadata have been read, false if it needs to be re-read (ie: some points were leading to duplicates -> vecPoints has been changed)
852
853
	stations.clear();

854
855
856
857
	GRIB_CHECK(grib_index_select_double(idx,"marsParam",8.2),0); //This is the DEM
	GRIB_CHECK(grib_index_select_long(idx,"indicatorOfTypeOfLevel", 1),0);

	int err=0;
858
859
860
861
862
	grib_handle* h = grib_handle_new_from_index(idx,&err);
	if(h==NULL) {
		cleanup();
		throw IOException("Can not find DEM grid in GRIB file!", AT);
	}
863

864
	const size_t npoints = vecPoints.size();
865
	double latitudeOfSouthernPole, longitudeOfSouthernPole;
866
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	GRIB_CHECK(grib_get_double(h,"latitudeOfSouthernPoleInDegrees",&latitudeOfSouthernPole),0);
	GRIB_CHECK(grib_get_double(h,"longitudeOfSouthernPoleInDegrees",&longitudeOfSouthernPole),0);
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	latitudeOfNorthernPole = -latitudeOfSouthernPole;
	longitudeOfNorthernPole = longitudeOfSouthernPole+180.;
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	long Ni;
	GRIB_CHECK(grib_get_long(h,"Ni",&Ni),0);
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	//build GRIB local coordinates for the points
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	for(size_t ii=0; ii<npoints; ii++) {
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		Coords::trueLatLonToRotated(latitudeOfNorthernPole, longitudeOfNorthernPole, vecPoints[ii].getLat(), vecPoints[ii].getLon(), lats[ii], lons[ii]);
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	}
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	//retrieve nearest points
	double *outlats = (double*)malloc(npoints*sizeof(double));
	double *outlons = (double*)malloc(npoints*sizeof(double));
	double *values = (double*)malloc(npoints*sizeof(double));
	double *distances = (double*)malloc(npoints*sizeof(double));
	int *indexes = (int *)malloc(npoints*sizeof(int));
	if(grib_nearest_find_multiple(h, 0, lats, lons, npoints, outlats, outlons, values, distances, indexes)!=0) {
		grib_handle_delete(h);
		cleanup();
		throw IOException("Errro when searching for nearest points in DEM", AT);
	}
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	//remove potential duplicates
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	if(removeDuplicatePoints(vecPoints, outlats, outlons)==true) {
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		free(outlats); free(outlons); free(values); free(distances); free(indexes);
		grib_handle_delete(h);
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		return false;
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	}
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	//fill metadata
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	for(size_t ii=0; ii<npoints; ii++) {
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		StationData sd;
		sd.position.setProj(coordin, coordinparam);
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		double true_lat, true_lon;
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		Coords::rotatedToTrueLatLon(latitudeOfNorthernPole, longitudeOfNorthernPole, outlats[ii], outlons[ii], true_lat, true_lon);
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		sd.position.setLatLon(true_lat, true_lon, values[ii]);
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		ostringstream ss;
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		ss << "Point_" << indexes[ii];
		sd.stationID=ss.str();
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		ostringstream ss2;
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		ss2 << "GRIB point (" << indexes[ii] % Ni << "," << indexes[ii] / Ni << ")";
		sd.stationName=ss2.str();
		stations.push_back(sd);
	}

	free(outlats); free(outlons); free(values); free(distances); free(indexes);
	grib_handle_delete(h);
	return true;
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}

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bool GRIBIO::readMeteoValues(const double& marsParam, const long& levelType, const long& i_level, const Date& i_date, const size_t& npoints, double *lats, double *lons, double *values)
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{
	GRIB_CHECK(grib_index_select_double(idx,"marsParam",marsParam),0);
	GRIB_CHECK(grib_index_select_long(idx,"indicatorOfTypeOfLevel", levelType),0);
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	grib_handle* h=NULL;
	int err=0;
	while((h = grib_handle_new_from_index(idx,&err)) != NULL) {
		if(!h) {
			cleanup();
			throw IOException("Unable to create grib handle from index", AT);
		}

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		Date base_date;
		double P1, P2;
		getDate(h, base_date, P1, P2);

		//see WMO code table5 for definitions of timeRangeIndicator. http://dss.ucar.edu/docs/formats/grib/gribdoc/timer.html
		long timeRange;
		GRIB_CHECK(grib_get_long(h,"timeRangeIndicator", &timeRange),0);

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		long level=0;
		if(i_level!=0) GRIB_CHECK(grib_get_long(h,"level", &level),0);
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		if(level==i_level) {
			if( (i_date.isUndef()) ||
			    (timeRange==0 && i_date==base_date+P1) ||
			    (timeRange==1 && i_date==base_date) ||
			    ((timeRange==2 || timeRange==3) && i_date>=base_date+P1 && i_date<=base_date+P2) ||
			    ((timeRange==4 || timeRange==5) && i_date==base_date+P2) ) {
				double *outlats = (double*)malloc(npoints*sizeof(double));
				double *outlons = (double*)malloc(npoints*sizeof(double));
				double *distances = (double*)malloc(npoints*sizeof(double));
				int *indexes = (int *)malloc(npoints*sizeof(int));
				if(grib_nearest_find_multiple(h, 0, lats, lons, npoints, outlats, outlons, values, distances, indexes)!=0) {
					grib_handle_delete(h);
					cleanup();
					throw IOException("Errro when searching for nearest points in DEM", AT);
				}

				free(outlats); free(outlons); free(distances); free(indexes);
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				grib_handle_delete(h);
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				return true;
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			}
		}
		grib_handle_delete(h);
	}
	return false;
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}

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void GRIBIO::fillMeteo(double *values, const MeteoData::Parameters& param, const size_t& npoints, std::vector<MeteoData> &Meteo) {
	for(size_t ii=0; ii<npoints; ii++) {
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		Meteo[ii](param) = values[ii];
	}
}

void GRIBIO::readMeteoStep(std::vector<StationData> &stations, double *lats, double *lons, const Date i_date, std::vector<MeteoData> &Meteo)
{
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