michael_ul
/
odm
1
0
Fork 0
Code Issues Pull Requests Projects Releases Wiki Activity
Browse Source

More variables. 

Update NEMO code.
interpolate
Michael Uleysky 2 years ago
parent
fc68616153
commit
4f6782ea09
4 changed files with 139 additions and 101 deletions
Whitespace
Show all changes Ignore whitespace when comparing lines Ignore changes in amount of whitespace Ignore changes in whitespace at EOL
Split View
Diff Options
Show Stats Download Patch File Download Diff File
  1. 189
      include/NEMO.h
  2. 19
      include/vartype.h
  3. 2
      src/actiontsc.cpp
  4. 6
      src/odm.cpp

189
include/NEMO.h
Unescape View File

@ -27,7 +27,7 @@ class NEMOData
TYPE_NRT6
};
NCFileA nc, nct, ncs;
std::vector<NCFileA> nc;
size_t xb, yb, xe, ye, layer;
std::vector<real> depths;
std::vector<MDateTime> times;
@ -73,15 +73,22 @@ class NEMOData
public:
using Data = Simple2DData;
Data ReadVar(const NCFileA& f, const MString& name, size_t i) const
private:
template<class DataType> Data ReadVarRaw(const NCFileA& f, const MString& name, size_t i, bool nodepth) const
{
using DataType = int2;
constexpr DataType fill = -32767;
real unitmul = 1.0;
DataType fill;
real offset = 0.0, scale = 1.0;
auto offset = f.A<double>(name, "add_offset");
auto scale = f.A<double>(name, "scale_factor");
if(!offset || !scale) return Data();
{
auto a_fill = f.A<DataType>(name, "_FillValue");
auto a_offset = f.A<double>(name, "add_offset");
auto a_scale = f.A<double>(name, "scale_factor");
if(!a_fill) return Data();
fill = a_fill;
if(a_offset) offset = a_offset;
if(a_scale) scale = a_scale;
}
auto unit = f.A<MString>(name, "units");
if(unit && unit.Get() == "m s-1") unitmul = 100.0;
@ -90,7 +97,8 @@ class NEMOData
if(xb < xe)
{
auto var = f.V<DataType>(name, {"longitude", xb, xe - xb + 1}, {"latitude", yb, ye - yb + 1}, {"time", i, 1}, {"depth", layer, 1});
auto var = nodepth ? f.V<DataType>(name, {"longitude", xb, xe - xb + 1}, {"latitude", yb, ye - yb + 1}, {"time", i, 1})
: f.V<DataType>(name, {"longitude", xb, xe - xb + 1}, {"latitude", yb, ye - yb + 1}, {"time", i, 1}, {"depth", layer, 1});
if(!var) return Data();
if(var.DimLen(0) != data.Nx() || var.DimLen(1) != data.Ny()) return Data();
@ -103,8 +111,10 @@ class NEMOData
}
else
{
auto var1 = f.V<DataType>(name, {"longitude", xb}, {"latitude", yb, ye - yb + 1}, {"time", i, 1}, {"depth", layer, 1});
auto var2 = f.V<DataType>(name, {"longitude", 0, xe + 1}, {"latitude", yb, ye - yb + 1}, {"time", i, 1}, {"depth", layer, 1});
auto var1 = nodepth ? f.V<DataType>(name, {"longitude", xb}, {"latitude", yb, ye - yb + 1}, {"time", i, 1})
: f.V<DataType>(name, {"longitude", xb}, {"latitude", yb, ye - yb + 1}, {"time", i, 1}, {"depth", layer, 1});
auto var2 = nodepth ? f.V<DataType>(name, {"longitude", 0, xe + 1}, {"latitude", yb, ye - yb + 1}, {"time", i, 1})
: f.V<DataType>(name, {"longitude", 0, xe + 1}, {"latitude", yb, ye - yb + 1}, {"time", i, 1}, {"depth", layer, 1});
if(!(var1 && var2)) return Data();
if((var1.DimLen(0) + var2.DimLen(0)) != data.Nx() || var1.DimLen(1) != data.Ny() || var2.DimLen(1) != data.Ny()) return Data();
for(size_t ix = 0; ix < var1.DimLen(0); ix++)
@ -123,15 +133,35 @@ class NEMOData
return data;
}
Data ReadVar(const NCFileA& f, const MString& name, const std::vector<size_t>& tindex) const
public:
Data ReadVar(const MString& name, size_t i) const
{
if(!isOk()) return Data();
bool nodepth = false;
for(const auto& f: nc)
{
auto head = f.Header();
for(const auto& v: head.Variables())
if(v.Name() == name)
{
if(v.Dimensions().size() == 3) nodepth = true;
if(v.Type().Id() == NC_SHORT) return ReadVarRaw<int2>(f, name, i, nodepth);
if(v.Type().Id() == NC_FLOAT) return ReadVarRaw<float>(f, name, i, nodepth);
}
}
return Data();
}
Data ReadVar(const MString& name, const std::vector<size_t>& tindex) const
{
Data out;
if(tindex.size() == 0) return out;
if(tindex.size() == 0 || !isOk()) return out;
std::vector<size_t> count;
for(size_t i = 0; i < tindex.size(); i++)
{
Data dat = ReadVar(f, name, tindex[i]);
Data dat = ReadVar(name, tindex[i]);
if(!dat) return Data();
out.Add(dat, count);
}
@ -145,76 +175,69 @@ class NEMOData
// TODO: RetVal
bool Open(const MString& stype, const MString& cred, const MString& proxyurl = "")
{
nc.clear();
if(proxyurl.Exist()) proxy.Activate("all_proxy", proxyurl);
MString url, urlt, urls;
if(stype == "DT")
{
url = "https://" + cred + "@my.cmems-du.eu/thredds/dodsC/cmems_mod_glo_phy_my_0.083_P1D-m";
NCFileA newnc;
newnc.Reset("https://" + cred + "@my.cmems-du.eu/thredds/dodsC/cmems_mod_glo_phy_my_0.083_P1D-m");
if(!newnc) return false;
nc.push_back(std::move(newnc));
type = TYPE_DT;
}
if(stype == "NRT")
{
url = "https://" + cred + "@nrt.cmems-du.eu/thredds/dodsC/global-analysis-forecast-phy-001-024";
type = TYPE_NRT;
}
if(stype == "NRT6")
std::vector<MString> urls{"https://" + cred + "@nrt.cmems-du.eu/thredds/dodsC/cmems_mod_glo_phy-cur_anfc_0.083deg_P1D-m",
"https://" + cred + "@nrt.cmems-du.eu/thredds/dodsC/cmems_mod_glo_phy-thetao_anfc_0.083deg_P1D-m",
"https://" + cred + "@nrt.cmems-du.eu/thredds/dodsC/cmems_mod_glo_phy-so_anfc_0.083deg_P1D-m",
"https://" + cred + "@nrt.cmems-du.eu/thredds/dodsC/cmems_mod_glo_phy_anfc_0.083deg_P1D-m",
"https://" + cred + "@nrt.cmems-du.eu/thredds/dodsC/cmems_mod_glo_phy-wcur_anfc_0.083deg_P1D-m"};
for(const auto& url: urls)
{
url = "https://" + cred + "@nrt.cmems-du.eu/thredds/dodsC/global-analysis-forecast-phy-001-024-3dinst-uovo";
urlt = "https://" + cred + "@nrt.cmems-du.eu/thredds/dodsC/global-analysis-forecast-phy-001-024-3dinst-thetao";
urls = "https://" + cred + "@nrt.cmems-du.eu/thredds/dodsC/global-analysis-forecast-phy-001-024-3dinst-so";
type = TYPE_NRT6;
}
nc.Reset(url);
if(!nc) return false;
NCFileA newnc;
newnc.Reset(url);
if(!newnc)
{
auto nx_ = nc.D("longitude");
if(!nx_)
{
nc.Reset();
nc.clear();
return false;
}
nx = nx_;
}
if(urlt.Exist())
{
nct.Reset(urlt);
if(!nct)
{
nc.Reset();
return false;
nc.push_back(std::move(newnc));
}
type = TYPE_NRT;
}
if(urls.Exist())
if(stype == "NRT6")
{
std::vector<MString> urls{"https://" + cred + "@nrt.cmems-du.eu/thredds/dodsC/cmems_mod_glo_phy-cur_anfc_0.083deg_PT6H-i",
"https://" + cred + "@nrt.cmems-du.eu/thredds/dodsC/cmems_mod_glo_phy-thetao_anfc_0.083deg_PT6H-i",
"https://" + cred + "@nrt.cmems-du.eu/thredds/dodsC/cmems_mod_glo_phy-so_anfc_0.083deg_PT6H-i"};
for(const auto& url: urls)
{
ncs.Reset(urls);
if(!ncs)
NCFileA newnc;
newnc.Reset(url);
if(!newnc)
{
nc.Reset();
nct.Reset();
nc.clear();
return false;
}
nc.push_back(std::move(newnc));
}
type = TYPE_NRT6;
}
auto rdepths = nc.V<float>("depth");
auto rdepths = nc[0].V<float>("depth");
if(!rdepths)
{
nc.Reset();
nct.Reset();
ncs.Reset();
nc.clear();
return false;
}
depths.resize(rdepths.DimLen(0));
for(size_t i = 0; i < depths.size(); i++) depths[i] = rdepths(i);
auto timeD = nc.V<double>("time");
auto timeF = nc.V<float>("time");
auto timeD = nc[0].V<double>("time");
auto timeF = nc[0].V<float>("time");
if(!(timeD || timeF))
{
nc.Reset();
nct.Reset();
ncs.Reset();
nc.clear();
return false;
}
MDateTime refdate("1950-01-01");
@ -253,7 +276,7 @@ class NEMOData
bool SetRegion(real lonbin, real lonein, real latb, real late, real depth)
{
if(!nc) return false;
if(!isOk()) return false;
real lonb = ToGeoDomainNeg(lonbin), lone = ToGeoDomainNeg(lonein);
size_t xb_, xe_, yb_, ye_, layer_ = 0;
@ -286,28 +309,28 @@ class NEMOData
return true;
}
real Lonb() const { return nc ? (-180.0 + xb / 12.0) : -1000.0; }
real Lone() const { return nc ? (-180.0 + xe / 12.0) : -1000.0; }
real Latb() const { return nc ? (-80.0 + yb / 12.0) : -1000.0; }
real Late() const { return nc ? (-80.0 + ye / 12.0) : -1000.0; }
size_t Xb() const { return nc ? xb : 0; }
size_t Xe() const { return nc ? xe : 0; }
size_t Yb() const { return nc ? yb : 0; }
size_t Ye() const { return nc ? ye : 0; }
size_t Nx() const { return nc ? ((xb < xe) ? (xe - xb + 1) : (nx + xe - xb + 1)) : 0; }
size_t Ny() const { return nc ? (ye - yb + 1) : 0; }
real Depth(size_t l) const { return nc ? depths[l] : -1000.0; }
real Lonb() const { return isOk() ? (-180.0 + xb / 12.0) : -1000.0; }
real Lone() const { return isOk() ? (-180.0 + xe / 12.0) : -1000.0; }
real Latb() const { return isOk() ? (-80.0 + yb / 12.0) : -1000.0; }
real Late() const { return isOk() ? (-80.0 + ye / 12.0) : -1000.0; }
size_t Xb() const { return isOk() ? xb : 0; }
size_t Xe() const { return isOk() ? xe : 0; }
size_t Yb() const { return isOk() ? yb : 0; }
size_t Ye() const { return isOk() ? ye : 0; }
size_t Nx() const { return isOk() ? ((xb < xe) ? (xe - xb + 1) : (nx + xe - xb + 1)) : 0; }
size_t Ny() const { return isOk() ? (ye - yb + 1) : 0; }
real Depth(size_t l) const { return isOk() ? depths[l] : -1000.0; }
real Depth() const { return Depth(layer); }
size_t Layer() const { return layer; }
time_t Timestep() const { return nc ? (times[1] - times[0]) : 0; }
time_t Timestep() const { return isOk() ? (times[1] - times[0]) : 0; }
MDateTime Time(size_t i) const
{
if((!nc) || i >= times.size()) return MDateTime();
if(!isOk() || i >= times.size()) return MDateTime();
return times[i];
}
bool isOk() const { return nc; }
explicit operator bool() const { return nc; }
bool isOk() const { return nc.size() > 0; }
explicit operator bool() const { return nc.size() > 0; }
size_t NDepths() const { return depths.size(); }
size_t NTimes() const { return times.size(); }
@ -330,14 +353,20 @@ class NEMOData
static real Fillval() { return Data::Fillval(); }
};
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::U>(size_t it) const { return ReadVar(nc, "uo", it); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::V>(size_t it) const { return ReadVar(nc, "vo", it); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::TEMP>(size_t it) const { return ReadVar(nct ? nct : nc, "thetao", it); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::SAL>(size_t it) const { return ReadVar(ncs ? ncs : nc, "so", it); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::U>(const std::vector<size_t>& tindex) const { return ReadVar(nc, "uo", tindex); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::V>(const std::vector<size_t>& tindex) const { return ReadVar(nc, "vo", tindex); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::TEMP>(const std::vector<size_t>& tindex) const { return ReadVar(nct ? nct : nc, "thetao", tindex); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::SAL>(const std::vector<size_t>& tindex) const { return ReadVar(ncs ? ncs : nc, "so", tindex); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::U>(size_t it) const { return ReadVar("uo", it); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::V>(size_t it) const { return ReadVar("vo", it); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::TEMP>(size_t it) const { return ReadVar("thetao", it); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::SAL>(size_t it) const { return ReadVar("so", it); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::MLD>(size_t it) const { return ReadVar("mlotst", it); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::SSH>(size_t it) const { return ReadVar("zos", it); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::W>(size_t it) const { return ReadVar("wo", it); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::U>(const std::vector<size_t>& tindex) const { return ReadVar("uo", tindex); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::V>(const std::vector<size_t>& tindex) const { return ReadVar("vo", tindex); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::TEMP>(const std::vector<size_t>& tindex) const { return ReadVar("thetao", tindex); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::SAL>(const std::vector<size_t>& tindex) const { return ReadVar("so", tindex); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::MLD>(const std::vector<size_t>& tindex) const { return ReadVar("mlotst", tindex); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::SSH>(const std::vector<size_t>& tindex) const { return ReadVar("zos", tindex); }
template<> inline NEMOData::Data NEMOData::Read<vartype::Vartype::W>(const std::vector<size_t>& tindex) const { return ReadVar("wo", tindex); }
#endif

19
include/vartype.h
Unescape View File

@ -15,7 +15,10 @@ enum class Vartype
V,
TEMP,
SAL,
CHL
CHL,
MLD,
SSH,
W
};
template<Vartype vt_> struct VartypeCarrier
@ -23,12 +26,12 @@ template<Vartype vt_> struct VartypeCarrier
static const Vartype vt = vt_;
};
using VartypeUnion = std::variant<VartypeCarrier<Vartype::NONE>, VartypeCarrier<Vartype::U>, VartypeCarrier<Vartype::V>, VartypeCarrier<Vartype::TEMP>,
VartypeCarrier<Vartype::SAL>, VartypeCarrier<Vartype::CHL>>;
using VartypeUnion =
std::variant<VartypeCarrier<Vartype::NONE>, VartypeCarrier<Vartype::U>, VartypeCarrier<Vartype::V>, VartypeCarrier<Vartype::TEMP>, VartypeCarrier<Vartype::SAL>,
VartypeCarrier<Vartype::CHL>, VartypeCarrier<Vartype::MLD>, VartypeCarrier<Vartype::SSH>, VartypeCarrier<Vartype::W>>;
template<class T, Vartype vt>
concept HasVar = requires(T t)
{
concept HasVar = requires(T t) {
{
t.template Read<vt>(0)(0, 0)
} -> std::convertible_to<real>;
@ -59,6 +62,9 @@ class VarType: public vartype::VartypeUnion
if(str == "t" || str == "temp" || str == "temperature") *this = vartype::VartypeCarrier<vartype::Vartype::TEMP>();
if(str == "s" || str == "sal" || str == "salinity") *this = vartype::VartypeCarrier<vartype::Vartype::SAL>();
if(str == "c" || str == "chl" || str == "chlorophyll") *this = vartype::VartypeCarrier<vartype::Vartype::CHL>();
if(str == "mld") *this = vartype::VartypeCarrier<vartype::Vartype::MLD>();
if(str == "ssh") *this = vartype::VartypeCarrier<vartype::Vartype::SSH>();
if(str == "w") *this = vartype::VartypeCarrier<vartype::Vartype::W>();
}
MString Name() const
@ -71,6 +77,9 @@ class VarType: public vartype::VartypeUnion
case(vartype::Vartype::TEMP): return "Temperature";
case(vartype::Vartype::SAL): return "Salinity";
case(vartype::Vartype::CHL): return "Chlorophyll";
case(vartype::Vartype::MLD): return "Mixed layer depth";
case(vartype::Vartype::SSH): return "Sea surface height";
case(vartype::Vartype::W): return "W";
}
return "none";
}

2
src/actiontsc.cpp
Unescape View File

@ -89,7 +89,7 @@ int actiontsc(const CLArgs& args)
}
BFileW fw;
MString name = args.at("out");
MString name = args.contains("out") ? args.at("out") : "";
if(!name.Exist()) name = "out.bin";
fw.Create(name, 3);

6
src/odm.cpp
Unescape View File

@ -11,14 +11,14 @@ inline void Usage(const MString& arg0)
message(" dataset. Can be DT, NRT or NRT6. Default: DT");
message(" Keys for action=tsc. Get temperature, salinity, chlorofill from dataset.");
message(" source. Required. May be: NEMO");
message(" var. Required. May be: temp, sal or chl");
message(" var. Required. May be: temp, sal, chl, mld, ssh or w.");
message(" time. Time moment or regular expression. If present, timeb and timee must be absent");
message(" timeb, timee. Time interval. If present, time must be absent");
message(" out. Output file. Default: out.bin");
message(" Keys for source=NEMO");
message(" var can be only temp or sal");
message(" var can be temp, sal, mld, ssh or w. Mld is not available for dataset=NRT6.");
message(" dataset. Can be DT, NRT or NRT6. Default: DT");
message(" layer and/or depth. Layer or depth of NEMO dataset. If depth is specified, layer is ignored. Default: layer=0");
message(" layer and/or depth. Layer or depth of NEMO dataset. If depth is specified, layer is ignored. Both ignored, if var=mld. Default: layer=0");
message(" lonb, lone, latb, late. Required. Region of interest");
}

Write Preview
Loading…
Cancel
Save