Imported Healpix, cfitsio, cosmotool. Added cmake tool to build dependencies (cfitsio, hdf5, netcdf, boost, healpix, gsl, ..). Adjusted CMakeLists.txt

external/cosmotool/src/loadFlash.cpp

@@ -0,0 +1,104 @@
+/* Reads in FLASH v3 files in HDF5 format */
+
+#include <iostream>
+#include <assert.h>
+#include <stdio.h>
+#include <stdlib.h>
+#include "load_data.hpp"
+#include "loadFlash.hpp"
+#include "h5_readFlash.hpp"
+#include "H5Cpp.h"
+
+using namespace CosmoTool;
+using namespace std;
+using namespace H5;
+
+SimuData *CosmoTool::loadFlashMulti(const char *fname, int id, int loadflags)
+{
+  SimuData *data;
+  int p, n;
+  H5File *fileID;
+  H5std_string filename;
+  //char filename[81];
+  double lbox, time, hubble, omegam, omegalambda, redshift;
+  int npart;
+
+  const double kpc2cm = 3.08568025e21;
+  const double km2cm = 1.e5;
+  const double hubble2cm = 3.240779270005e-18;
+
+  if (id != 0)
+    throw NoSuchFileException();
+
+  data = new SimuData;
+  if (data == 0) {
+    return 0;
+  }
+
+  filename = fname;
+  try {
+    H5File file (filename, H5F_ACC_RDONLY);
+
+    // simulation info
+    h5_read_flash3_header_info(&file, &time, &redshift);
+    data->time    = 1/(1+redshift);    
+
+    h5_read_runtime_parameters(&file, &lbox, &npart, &hubble, &omegam, &omegalambda);
+    data->TotalNumPart = data->NumPart = npart;
+    data->Hubble = hubble/hubble2cm;
+    data->BoxSize = lbox/kpc2cm*data->Hubble;
+    data->Omega_M = omegam;
+    data->Omega_Lambda = omegalambda;
+
+    // particle data
+    if (loadflags& NEED_POSITION) {
+      for (int i = 0; i < 3; i++) {
+        data->Pos[i] = new float[data->NumPart];
+        if (data->Pos[i] == 0) {
+	  delete data;
+	return 0;
+      }
+    } }
+
+
+    if (loadflags &NEED_VELOCITY) {
+    for (int i = 0; i < 3; i++) {
+      data->Vel[i] = new float[data->NumPart];
+      if (data->Vel[i] == 0) {
+	delete data;
+	return 0;
+      }
+    } }
+ 
+    if (loadflags & NEED_GADGET_ID) {
+    data->Id = new int[data->NumPart];
+    if (data->Id == 0) {
+      delete data;
+      return 0;
+    }
+    }
+
+    int offset = 0;
+
+    if (loadflags &(NEED_GADGET_ID|NEED_POSITION|NEED_VELOCITY))
+    h5_read_flash3_particles(&file, &npart, &npart, &offset, 
+			     data->Pos[0], data->Pos[1], data->Pos[2], 
+			     data->Vel[0], data->Vel[1], data->Vel[2],
+			     data->Id); 
+
+    for (int i = 0; i < 3; i++) {
+      for (int n = 0; n < data->NumPart; n++) {
+	if (loadflags& NEED_POSITION) data->Pos[i][n] = data->Pos[i][n] * data->Hubble / kpc2cm;
+	if (loadflags&NEED_VELOCITY) data->Vel[i][n] = data->Vel[i][n] * data->Hubble / km2cm;
+      }
+    }
+
+    file.close();
+  } catch (const FileIException& e) {
+    throw NoSuchFileException();
+  }
+
+  return data;
+}
+
+