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CPP KD Tree Review Fixes #100

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Merged
seanebum merged 16 commits into from
Mar 29, 2021
Merged

CPP KD Tree Review Fixes #100

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7f91251
Merge branch 'cpp-fluid-dynamics-fix' of https://github.com/StochSS/S…
seanebum Mar 8, 2021
e4cebc7
updated some pointer / loop architecture
seanebum Mar 10, 2021
649a028
Fixed several small errors
makdl Mar 19, 2021
4e8d165
still trying to compile, moved some things around including template …
seanebum Mar 22, 2021
b9130e2
Use reference instead of pointer
makdl Mar 22, 2021
624de39
undo bogus attempt to move template function definition to cpp
seanebum Mar 22, 2021
64a4c56
undoing unhelpful changes
seanebum Mar 22, 2021
ad152a9
resolved merge conflicts
seanebum Mar 23, 2021
e60b466
Resolve merge conflicts
makdl Mar 23, 2021
717255f
Merge conflict
makdl Mar 23, 2021
d19eaf0
Merge remote-tracking branch 'origin/cpp-rdme-nrm-stuff' into cpp-kd-…
makdl Mar 23, 2021
9860246
welp... it compiles now!
seanebum Mar 23, 2021
1c21abd
resolve conflicts
seanebum Mar 23, 2021
9a4df3a
Fixed bug diffusing species below 0; Changed diffusion event zero che…
makdl Mar 23, 2021
cc0f467
CylinderDemo3D works in C++
makdl Mar 23, 2021
cb1cbd8
More accurate filenames, cleanup formatting, whitespace, imports
makdl Mar 28, 2021
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undoing unhelpful changes
  • Loading branch information
@seanebum
seanebum committed Mar 22, 2021
commit 64a4c56d6a62db9ef85999ef6d6c95afe56e9dbe
1 change: 0 additions & 1 deletion spatialpy/ssa_sdpd-c-simulation-engine/include/particle.hpp
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Expand Up @@ -15,7 +15,6 @@ See the file LICENSE.txt for details.
#include "propensities.hpp"
#include <ANN/ANN.h> // ANN KD Tree

class NRMConstant_v5 ;
#include "NRMConstant_v5.hpp"

extern int debug_flag ;
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1 change: 0 additions & 1 deletion spatialpy/ssa_sdpd-c-simulation-engine/include/simulate_rdme.hpp
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Expand Up @@ -9,7 +9,6 @@ See the file LICENSE.txt for details.
#define simulate_rdme_h
#include "particle.hpp"
#include "propensities.hpp"
#include "NRMConstant_v5.hpp"
#include <random>

namespace Spatialpy{
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1 change: 0 additions & 1 deletion spatialpy/ssa_sdpd-c-simulation-engine/src/particle.cpp
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Expand Up @@ -6,7 +6,6 @@ This program is distributed under the terms of the GNU General Public License.
See the file LICENSE.txt for details.
***************************************************************************** */
#include "particle.hpp"
#include "NRMConstant_v5.hpp"
#include <stdlib.h>
#include <stdio.h>
#include <math.h>
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3 changes: 1 addition & 2 deletions spatialpy/ssa_sdpd-c-simulation-engine/src/simulate_rdme.cpp
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Expand Up @@ -2,7 +2,6 @@
#include "output.h"
#include "particle.hpp"
#include "simulate_rdme.hpp"
#include "NRMConstant_v5.hpp"
//#include "dSFMT/dSFMT.h"
#include <random>
#include <errno.h>
Expand Down Expand Up @@ -363,7 +362,7 @@ namespace Spatialpy{

// TODO: does this deallocate memory on the 2nd call? No
// TODO: make a deallocation function
system->rdme_event_q.build(system->particles, rng, propensitySum, activeChannels,
system->rdme_event_q.build(propensities, rng, propensitySum, activeChannels,
timeOffset );

}
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