Tons of fixes in python binder. Loadgadget slightly more verbose

python/_cosmotool.pyx

@@ -42,25 +42,28 @@ cdef extern from "loadRamses.hpp" namespace "CosmoTool":
 
 class PySimulationBase(object):
   def getPositions(self):
-    raise NotImplemented("getPositions is not implemented")
+    raise NotImplementedError("getPositions is not implemented")
     
   def getVelocities(self):
-    raise NotImplemented("getVelocities is not implemented")
+    raise NotImplementedError("getVelocities is not implemented")
     
   def getIdentifiers(self):
-    raise NotImplemented("getIdentifiers is not implemented")
+    raise NotImplementedError("getIdentifiers is not implemented")
 
   def getOmega_M(self):
-    raise NotImplemented("getOmega_M is not implemented")
+    raise NotImplementedError("getOmega_M is not implemented")
   
   def getOmega_Lambda(self):
-    raise NotImplemented("getOmega_Lambda is not implemented")
+    raise NotImplementedError("getOmega_Lambda is not implemented")
 
   def getTime(self):
-    raise NotImplemented("getTime is not implemented")
+    raise NotImplementedError("getTime is not implemented")
 
   def getHubble(self):
-    raise NotImplemented("getHubble is not implemented")
+    raise NotImplementedError("getHubble is not implemented")
+
+  def getBoxsize(self):
+    raise NotImplementedError("getBoxsize is not implemented")
 
 cdef class Simulation:
 
@@ -86,6 +89,10 @@ cdef class Simulation:
     def __get__(Simulation self):
         return self.data.Omega_M
         
+  property Omega_Lambda:
+    def __get__(Simulation self):
+        return self.data.Omega_Lambda
+        
   property positions:
     def __get__(Simulation self):
         return self.positions
@@ -94,6 +101,10 @@ cdef class Simulation:
     def __get__(Simulation self):
         return self.velocities
 
+  property identifiers:
+    def __get__(Simulation self):
+        return self.identifiers
+        
   property numParticles:
     def __get__(Simulation self):
         return self.data.NumPart
@@ -126,7 +137,13 @@ class _PySimulationAdaptor(PySimulationBase):
     return self.simu.time
     
   def getHubble(self):
-    return self.simul.Hubble
+    return self.simu.Hubble
+    
+  def getOmega_M(self):
+    return self.simu.Omega_M
+    
+  def getOmega_Lambda(self):
+    return self.simu.Omega_Lambda
 
 cdef class ArrayWrapper:
     cdef void* data_ptr
@@ -180,7 +197,7 @@ cdef object wrap_array(void *p, np.uint64_t s, int typ):
 
 
 cdef object wrap_float_array(float *p, np.uint64_t s):
-    return wrap_array(<void *>p, s, np.NPY_FLOAT)
+    return wrap_array(<void *>p, s, np.NPY_FLOAT32)
 
 cdef object wrap_int64_array(np.int64_t* p, np.uint64_t s):
     return wrap_array(<void *>p, s, np.NPY_INT64)
@@ -192,10 +209,18 @@ cdef object wrap_simudata(SimuData *data, int flags):
   simu.data = data
   if flags & NEED_POSITION:
      simu.positions = [wrap_float_array(data.Pos[i], data.NumPart) for i in xrange(3)]
+  else:
+     simu.positions = None
+
   if flags & NEED_VELOCITY:
      simu.velocities = [wrap_float_array(data.Vel[i], data.NumPart) for i in xrange(3)]
+  else:
+     simu.velocities = None
+
   if flags & NEED_GADGET_ID:
      simu.identifiers = wrap_int64_array(data.Id, data.NumPart)
+  else:
+     simu.identifiers = None
   return simu
 
 def loadGadget(str filename, int snapshot_id, bool loadPosition = True, bool loadVelocity = False, bool loadId = False):
@@ -221,8 +246,10 @@ def loadGadget(str filename, int snapshot_id, bool loadPosition = True, bool loa
 def writeGadget(str filename, object simulation):
 
   cdef SimuData simdata
-  cdef np.ndarray[np.float_t, ndim=1] pos, vel
+  cdef np.ndarray[np.float32_t, ndim=1] pos, vel
+  cdef np.ndarray[np.int64_t, ndim=1] ids
   cdef np.int64_t NumPart
+  cdef int j
   
   if not isinstance(simulation,PySimulationBase):
     raise TypeError("Second argument must be of type SimulationBase")
@@ -240,7 +267,9 @@ def writeGadget(str filename, object simulation):
     simdata.Pos[j] = <float *>pos.data
     simdata.Vel[j] = <float *>vel.data
   
-  simdata.BoxSize = simulation.getBoxSize()
+  ids = simulation.getIdentifiers()
+  simdata.Id = <np.int64_t *>ids.data
+  simdata.BoxSize = simulation.getBoxsize()
   simdata.time = simulation.getTime()
   simdata.Hubble = simulation.getHubble()
   simdata.Omega_M = simulation.getOmega_M()

python/cosmotool/__init__.py

@@ -1,2 +1,57 @@
 from _cosmotool import *
 from borg import read_borg_vol
+
+
+class SimulationBare(PySimulationBase):
+
+  def __init__(self):
+    pass
+        
+  def getPositions(self):
+    return self.positions
+    
+  def getVelocities(self):
+    return self.velocities
+    
+  def getIdentifiers(self):
+    return self.identifiers
+
+  def getTime(self):
+    return self.time
+    
+  def getHubble(self):
+    return self.Hubble
+
+  def getBoxsize(self):
+    return self.boxsize
+
+  def getOmega_M(self):
+    return self.Omega_M
+
+  def getOmega_Lambda(self):
+    return self.Omega_Lambda
+
+
+def simpleWriteGadget(filename, positions, boxsize=1.0, Hubble=100, Omega_M=0.30, time=1, velocities=None, identifiers=None):
+
+  s = SimulationBare()
+  
+  s.positions = positions
+  
+  if velocities:
+    s.velocities = velocities
+  else:
+    s.velocities = [np.zeros(positions[0].size,dtype=np.float32)]*3
+    
+  if identifiers:
+    s.identifiers = identifiers
+  else:
+    s.identifiers = np.arange(positions[0].size, dtype=np.int64)
+    
+  s.Hubble = Hubble
+  s.time = time
+  s.Omega_M = Omega_M
+  s.Omega_Lambda = 1-Omega_M
+  s.boxsize = boxsize
+    
+  writeGadget(filename, s)

python/cosmotool/borg.py

@@ -11,16 +11,8 @@ import glob
 class BorgVolume(object):
 
     def __init__(self, density, ranges):
-        self._density = density
+        self.density = density
-        self._ranges = ranges
+        self.ranges = ranges
-
-    property density:
-        def __get__(self):
-            return self._density
-
-    property ranges:
-        def __get__(self):
-            return self._ranges
 
 def build_filelist(fdir):
     #builds list of all borg density fields which may be distributed over several directories

src/loadGadget.cpp

@@ -274,12 +274,16 @@ void CosmoTool::writeGadget(const std::string& fname, SimuData *data, int Gadget
   int npart[6], npartTotal[6];
   float mass[6];
 
-  if (data->Pos[0] == 0 || data->Vel[0] == 0 || data->Id == 0)
+  if (data->Pos[0] == 0 || data->Vel[0] == 0 || data->Id == 0) {
+    cerr << "Invalid simulation data array" << endl;
     return;
+  }
 
   f = new UnformattedWrite(fname);
-  if (f == 0)
+  if (f == 0) {
+    cerr << "Cannot create file" << endl;
     return;
+  }
 
   for (int i = 0; i < 6; i++)
     {