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RPG-relogo
Commit 0a383ddc by songxinkai
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.gitignore 0 → 100644
*.ncf
*.csv
*.o
.*.swp
*.log
Makefile 0 → 100755
# Repast HPC Manual Build Makefile
# VARIABLES (Supply values for these; for definitions and examples, see INSTALL)
CXX=mpicxx
CXXLD=mpicxx
BOOST_INCLUDE_DIR=/home/songxinkai/sfw/Boost/Boost_1.61/include
BOOST_LIB_DIR=/home/songxinkai/sfw/Boost/Boost_1.61/lib
BOOST_INFIX=-mt
NETCDF_INCLUDE_DIR=/home/songxinkai/sfw/NetCDF/include
NETCDF_LIB_DIR=/home/songxinkai/sfw/NetCDF/lib
NETCDF_CXX_INCLUDE_DIR=/home/songxinkai/sfw/NetCDF-cxx/include
NETCDF_CXX_LIB_DIR=/home/songxinkai/sfw/NetCDF-cxx/lib
CURL_INCLUDE_DIR=/home/songxinkai/sfw/CURL/include
CURL_LIB_DIR=/home/songxinkai/sfw/CURL/lib
INSTALL_DIR=/home/songxinkai/sfw/rpg
REPAST_HPC_INCLUDE_DIR=${HOME}/sfw/repast_hpc-2.3.0/include
REPAST_HPC_LIB_DIR=${HOME}/sfw/repast_hpc-2.3.0/lib
RELOGO_INCLUDE_DIR=${HOME}/sfw/repast_hpc-2.3.0/include
RELOGO_LIB_DIR=${HOME}/sfw/repast_hpc-2.3.0/lib
# change to true to build static libraries
STATIC=false
# DIRECTORIES
ZOMBIE_DIR=./zombie
# DERIVED VARIABLES (Do not modify)
I_REPAST_HPC=-I$(REPAST_HPC_INCLUDE_DIR)
L_REPAST_HPC=-L$(REPAST_HPC_LIB_DIR)
l_REPAST_HPC=-lrepast_hpc-2.3
I_RELOGO=-I$(RELOGO_INCLUDE_DIR)
L_RELOGO=-L$(RELOGO_LIB_DIR)
l_RELOGO=-lrelogo-2.3
I_BOOST=-I$(BOOST_INCLUDE_DIR)
L_BOOST=-L$(BOOST_LIB_DIR)
l_BOOST=-lboost_mpi$(BOOST_INFIX) -lboost_serialization$(BOOST_INFIX) -lboost_system$(BOOST_INFIX) -lboost_filesystem$(BOOST_INFIX)
I_NETCDF=-I$(NETCDF_INCLUDE_DIR) -I$(NETCDF_CXX_INCLUDE_DIR)
L_NETCDF=-L$(NETCDF_LIB_DIR) -L$(NETCDF_CXX_LIB_DIR)
l_NETCDF=-lnetcdf_c++ -lnetcdf
I_CURL=-I$(CURL_INCLUDE_DIR)
L_CURL=-L$(CURL_LIB_DIR)
l_CURL=-lcurl
RPATHS :=
ifneq ($(NETCDF_LIB_DIR),)
RPATHS += -Wl,-rpath -Wl,$(NETCDF_LIB_DIR)
endif
ifneq ($(NETCDF_CXX_LIB_DIR),)
RPATHS += -Wl,-rpath -Wl,$(NETCDF_CXX_LIB_DIR)
endif
ifneq ($(BOOST_LIB_DIR),)
RPATHS += -Wl,-rpath -Wl,$(BOOST_LIB_DIR)
endif
RELOGO_RPATHS = $(RPATHS) -Wl,-rpath -Wl,$(RELOGO_LIB_DIR)
# These are are set in the modules included below
ZOMBIE_SRC :=
ZOMBIE_SRC += $(ZOMBIE_DIR)/main.cpp
ZOMBIE_SRC += $(ZOMBIE_DIR)/Zombie.cpp
ZOMBIE_SRC += $(ZOMBIE_DIR)/Human.cpp
ZOMBIE_SRC += $(ZOMBIE_DIR)/ZombieObserver.cpp
ZOMBIE_SRC += $(ZOMBIE_DIR)/InfectionSum.cpp
# OBJECT FILES
ZOMBIE_OBJECTS=$(patsubst %.cpp,%.o,$(ZOMBIE_SRC))
LIB_I_FLAGS = $(I_BOOST) $(I_NETCDF) $(I_CURL) $(I_REPAST_HPC) $(I_RELOGO)
LIB_L_FLAGS = $(L_BOOST) $(L_NETCDF) $(L_CURL) $(L_REPAST_HPC) $(L_RELOGO)
LIB_l_FLAGS = $(l_BOOST) $(l_NETCDF) $(l_CURL) $(l_REPAST_HPC) $(l_RELOGO)
# need to able to set this to empty for the static compile
OUTPUT_FLAG = -o
EXE_FLAG =
ifeq ($(STATIC), true)
DYN_FLAG =
LIB_EXT = a
LIB_CXXLD = ar rcs
LIB_L_FLAGS =
LIB_l_FLAGS =
RELOGO_L_FLAGS =
RELOGO_l_FLAGS =
OUTPUT_FLAG =
RPATHS =
RELOGO_RPATHS =
EXE_FLAG = -static
else
UNAME := $(shell uname)
ifeq ($(UNAME), Darwin)
DYN_FLAG = -dynamiclib
LIB_EXT = dylib
endif
endif
# TARGETS
ZOMBIE_EXE=$(INSTALL_DIR)/bin/zombie/zombie_model
# Default rule makes everything
.PHONY : all
all: zombie_model
$(ZOMBIE_EXE): $(ZOMBIE_OBJECTS)
mkdir -p $(INSTALL_DIR)/bin/zombie
cp $(ZOMBIE_DIR)/config.props $(INSTALL_DIR)/bin/zombie/
cp $(ZOMBIE_DIR)/model.props $(INSTALL_DIR)/bin/zombie/
$(CXXLD) $(EXE_FLAG) -o $(ZOMBIE_EXE) $(ZOMBIE_OBJECTS) $(I_RELOGO) $(L_RELOGO) $(LIB_I_FLAGS) $(LIB_L_FLAGS) $(LIB_l_FLAGS) $(RELOGO_RPATHS)
# User-friendly names
.PHONY : zombie_model
zombie_model: $(ZOMBIE_EXE)
# Cleanup
.PHONY : zombie_clean
zombie_clean :
rm -f $(ZOMBIE_DIR)/*.o
rm -rf ${INSTALL_DIR}/bin
.PHONY : clean
clean: zombie_clean
# Object files are built from cpp files
%.o:
$(CXX) -fPIC -std=c++11 -c $(LIB_I_FLAGS) -g0 -O3 -o $@ $*.cpp
# Cancel implicit rule for name with no suffix, to avoid confusing output:
%: %.o
bin/zombie/config.props 0 → 100644
# DEBUG, INFO, WARN, ERROR
logger.root = INFO, R, stdout
logger.repast.system = DEBUG, R, stdout
appender.R = RollingFileAppender
appender.R.MaxBackupIndex = 1
appender.R.File = ./logs/repast.log
appender.R.MaxFileSize=200
bin/zombie/model.props 0 → 100644
#random.seed = 1284067381
stop.at = 100
# per process
human.count = 500;
zombie.count = 5;
# world definition props
min.x = -100
min.y = -100
max.x = 99
max.y = 99
grid.buffer = 2
# these must multiply to total number of processes
proc.per.x = 2
proc.per.y = 2
# named random number distributions
distribution.zombie_move = int_uniform, 0, 2
logs/repast_0.log 0 → 100644
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06.12.2019 10:09:30 [0] INFO root date_time.run = 06.12.2019 10:09:30
06.12.2019 10:09:30 [0] INFO root distribution.zombie_move = int_uniform, 0, 2
06.12.2019 10:09:30 [0] INFO root grid.buffer = 2
06.12.2019 10:09:30 [0] INFO root human.count = 500;
06.12.2019 10:09:30 [0] INFO root init.time = 0.01
06.12.2019 10:09:30 [0] INFO root max.x = 99
06.12.2019 10:09:30 [0] INFO root max.y = 99
06.12.2019 10:09:30 [0] INFO root min.x = -100
06.12.2019 10:09:30 [0] INFO root min.y = -100
06.12.2019 10:09:30 [0] INFO root proc.per.x = 2
06.12.2019 10:09:30 [0] INFO root proc.per.y = 2
06.12.2019 10:09:30 [0] INFO root process.count = 4.000000
06.12.2019 10:09:30 [0] INFO root random.seed = 1575598170
06.12.2019 10:09:30 [0] INFO root run.time = 0.390000
06.12.2019 10:09:30 [0] INFO root stop.at = 10
06.12.2019 10:09:30 [0] INFO root zombie.count = 5;
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06.12.2019 10:09:32 [0] INFO root TICK ENDS: 10
06.12.2019 10:09:32 [0] INFO root date_time.run = 06.12.2019 10:09:31
06.12.2019 10:09:32 [0] INFO root distribution.zombie_move = int_uniform, 0, 2
06.12.2019 10:09:32 [0] INFO root grid.buffer = 2
06.12.2019 10:09:32 [0] INFO root human.count = 500;
06.12.2019 10:09:32 [0] INFO root init.time = 0
06.12.2019 10:09:32 [0] INFO root max.x = 99
06.12.2019 10:09:32 [0] INFO root max.y = 99
06.12.2019 10:09:32 [0] INFO root min.x = -100
06.12.2019 10:09:32 [0] INFO root min.y = -100
06.12.2019 10:09:32 [0] INFO root proc.per.x = 2
06.12.2019 10:09:32 [0] INFO root proc.per.y = 2
06.12.2019 10:09:32 [0] INFO root process.count = 4.000000
06.12.2019 10:09:32 [0] INFO root random.seed = 1575598171
06.12.2019 10:09:32 [0] INFO root run.time = 0.410000
06.12.2019 10:09:32 [0] INFO root stop.at = 10
06.12.2019 10:09:32 [0] INFO root zombie.count = 5;
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06.12.2019 10:09:57 [0] INFO root date_time.run = 06.12.2019 10:09:56
06.12.2019 10:09:57 [0] INFO root distribution.zombie_move = int_uniform, 0, 2
06.12.2019 10:09:57 [0] INFO root grid.buffer = 2
06.12.2019 10:09:57 [0] INFO root human.count = 500;
06.12.2019 10:09:57 [0] INFO root init.time = 0.01
06.12.2019 10:09:57 [0] INFO root max.x = 99
06.12.2019 10:09:57 [0] INFO root max.y = 99
06.12.2019 10:09:57 [0] INFO root min.x = -100
06.12.2019 10:09:57 [0] INFO root min.y = -100
06.12.2019 10:09:57 [0] INFO root proc.per.x = 2
06.12.2019 10:09:57 [0] INFO root proc.per.y = 2
06.12.2019 10:09:57 [0] INFO root process.count = 4.000000
06.12.2019 10:09:57 [0] INFO root random.seed = 1575598196
06.12.2019 10:09:57 [0] INFO root run.time = 0.420000
06.12.2019 10:09:57 [0] INFO root stop.at = 10
06.12.2019 10:09:57 [0] INFO root zombie.count = 5;
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06.12.2019 10:23:47 [0] INFO root date_time.run = 06.12.2019 10:23:47
06.12.2019 10:23:47 [0] INFO root distribution.zombie_move = int_uniform, 0, 2
06.12.2019 10:23:47 [0] INFO root grid.buffer = 2
06.12.2019 10:23:47 [0] INFO root human.count = 500;
06.12.2019 10:23:47 [0] INFO root init.time = 0.02
06.12.2019 10:23:47 [0] INFO root max.x = 99
06.12.2019 10:23:47 [0] INFO root max.y = 99
06.12.2019 10:23:47 [0] INFO root min.x = -100
06.12.2019 10:23:47 [0] INFO root min.y = -100
06.12.2019 10:23:47 [0] INFO root proc.per.x = 2
06.12.2019 10:23:47 [0] INFO root proc.per.y = 2
06.12.2019 10:23:47 [0] INFO root process.count = 4.000000
06.12.2019 10:23:47 [0] INFO root random.seed = 1575599027
06.12.2019 10:23:47 [0] INFO root run.time = 0.470000
06.12.2019 10:23:47 [0] INFO root stop.at = 10
06.12.2019 10:23:47 [0] INFO root zombie.count = 5;
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06.12.2019 11:04:10 [0] INFO root date_time.run = 06.12.2019 11:04:10
06.12.2019 11:04:10 [0] INFO root distribution.zombie_move = int_uniform, 0, 2
06.12.2019 11:04:10 [0] INFO root grid.buffer = 2
06.12.2019 11:04:10 [0] INFO root human.count = 500;
06.12.2019 11:04:10 [0] INFO root init.time = 0.01
06.12.2019 11:04:10 [0] INFO root max.x = 99
06.12.2019 11:04:10 [0] INFO root max.y = 99
06.12.2019 11:04:10 [0] INFO root min.x = -100
06.12.2019 11:04:10 [0] INFO root min.y = -100
06.12.2019 11:04:10 [0] INFO root proc.per.x = 2
06.12.2019 11:04:10 [0] INFO root proc.per.y = 2
06.12.2019 11:04:10 [0] INFO root process.count = 4.000000
06.12.2019 11:04:10 [0] INFO root random.seed = 1575601450
06.12.2019 11:04:10 [0] INFO root run.time = 0.400000
06.12.2019 11:04:10 [0] INFO root stop.at = 10
06.12.2019 11:04:10 [0] INFO root zombie.count = 5;
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06.12.2019 11:07:06 [0] INFO root date_time.run = 06.12.2019 11:07:05
06.12.2019 11:07:06 [0] INFO root distribution.zombie_move = int_uniform, 0, 2
06.12.2019 11:07:06 [0] INFO root grid.buffer = 2
06.12.2019 11:07:06 [0] INFO root human.count = 500;
06.12.2019 11:07:06 [0] INFO root init.time = 0
06.12.2019 11:07:06 [0] INFO root max.x = 99
06.12.2019 11:07:06 [0] INFO root max.y = 99
06.12.2019 11:07:06 [0] INFO root min.x = -100
06.12.2019 11:07:06 [0] INFO root min.y = -100
06.12.2019 11:07:06 [0] INFO root proc.per.x = 2
06.12.2019 11:07:06 [0] INFO root proc.per.y = 2
06.12.2019 11:07:06 [0] INFO root process.count = 4.000000
06.12.2019 11:07:06 [0] INFO root random.seed = 1575601625
06.12.2019 11:07:06 [0] INFO root run.time = 0.410000
06.12.2019 11:07:06 [0] INFO root stop.at = 10
06.12.2019 11:07:06 [0] INFO root zombie.count = 5;
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06.12.2019 11:17:50 [0] INFO root date_time.run = 06.12.2019 11:17:50
06.12.2019 11:17:50 [0] INFO root distribution.zombie_move = int_uniform, 0, 2
06.12.2019 11:17:50 [0] INFO root grid.buffer = 2
06.12.2019 11:17:50 [0] INFO root human.count = 500;
06.12.2019 11:17:50 [0] INFO root init.time = 0.01
06.12.2019 11:17:50 [0] INFO root max.x = 99
06.12.2019 11:17:50 [0] INFO root max.y = 99
06.12.2019 11:17:50 [0] INFO root min.x = -100
06.12.2019 11:17:50 [0] INFO root min.y = -100
06.12.2019 11:17:50 [0] INFO root proc.per.x = 2
06.12.2019 11:17:50 [0] INFO root proc.per.y = 2
06.12.2019 11:17:50 [0] INFO root process.count = 4.000000
06.12.2019 11:17:50 [0] INFO root random.seed = 1575602270
06.12.2019 11:17:50 [0] INFO root run.time = 0.380000
06.12.2019 11:17:50 [0] INFO root stop.at = 10
06.12.2019 11:17:50 [0] INFO root zombie.count = 5;
06.12.2019 11:23:08 [0] INFO root TICK BEGINS: 1
06.12.2019 11:23:08 [0] INFO root TICK ENDS: 1
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06.12.2019 11:23:08 [0] INFO root TICK ENDS: 10
06.12.2019 11:23:08 [0] INFO root date_time.run = 06.12.2019 11:23:08
06.12.2019 11:23:08 [0] INFO root distribution.zombie_move = int_uniform, 0, 2
06.12.2019 11:23:08 [0] INFO root grid.buffer = 2
06.12.2019 11:23:08 [0] INFO root human.count = 500;
06.12.2019 11:23:08 [0] INFO root init.time = 0
06.12.2019 11:23:08 [0] INFO root max.x = 99
06.12.2019 11:23:08 [0] INFO root max.y = 99
06.12.2019 11:23:08 [0] INFO root min.x = -100
06.12.2019 11:23:08 [0] INFO root min.y = -100
06.12.2019 11:23:08 [0] INFO root proc.per.x = 2
06.12.2019 11:23:08 [0] INFO root proc.per.y = 2
06.12.2019 11:23:08 [0] INFO root process.count = 4.000000
06.12.2019 11:23:08 [0] INFO root random.seed = 1575602588
06.12.2019 11:23:08 [0] INFO root run.time = 0.440000
06.12.2019 11:23:08 [0] INFO root stop.at = 10
06.12.2019 11:23:08 [0] INFO root zombie.count = 5;
06.12.2019 11:23:38 [0] INFO root TICK BEGINS: 1
06.12.2019 11:23:38 [0] INFO root TICK ENDS: 1
06.12.2019 11:23:38 [0] INFO root TICK BEGINS: 2
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06.12.2019 11:23:38 [0] INFO root TICK BEGINS: 10
06.12.2019 11:23:38 [0] INFO root TICK ENDS: 10
06.12.2019 11:23:38 [0] INFO root date_time.run = 06.12.2019 11:23:38
06.12.2019 11:23:38 [0] INFO root distribution.zombie_move = int_uniform, 0, 2
06.12.2019 11:23:38 [0] INFO root grid.buffer = 2
06.12.2019 11:23:38 [0] INFO root human.count = 500;
06.12.2019 11:23:38 [0] INFO root init.time = 0.01
06.12.2019 11:23:38 [0] INFO root max.x = 99
06.12.2019 11:23:38 [0] INFO root max.y = 99
06.12.2019 11:23:38 [0] INFO root min.x = -100
06.12.2019 11:23:38 [0] INFO root min.y = -100
06.12.2019 11:23:38 [0] INFO root proc.per.x = 2
06.12.2019 11:23:38 [0] INFO root proc.per.y = 2
06.12.2019 11:23:38 [0] INFO root process.count = 4.000000
06.12.2019 11:23:38 [0] INFO root random.seed = 1575602618
06.12.2019 11:23:38 [0] INFO root run.time = 0.510000
06.12.2019 11:23:38 [0] INFO root stop.at = 10
06.12.2019 11:23:38 [0] INFO root zombie.count = 5;
06.12.2019 11:59:08 [0] INFO root TICK BEGINS: 1
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06.12.2019 11:59:13 [0] INFO root date_time.run = 06.12.2019 11:59:08
06.12.2019 11:59:13 [0] INFO root distribution.zombie_move = int_uniform, 0, 2
06.12.2019 11:59:13 [0] INFO root grid.buffer = 2
06.12.2019 11:59:13 [0] INFO root human.count = 500;
06.12.2019 11:59:13 [0] INFO root init.time = 0.01
06.12.2019 11:59:13 [0] INFO root max.x = 99
06.12.2019 11:59:13 [0] INFO root max.y = 99
06.12.2019 11:59:13 [0] INFO root min.x = -100
06.12.2019 11:59:13 [0] INFO root min.y = -100
06.12.2019 11:59:13 [0] INFO root proc.per.x = 2
06.12.2019 11:59:13 [0] INFO root proc.per.y = 2
06.12.2019 11:59:13 [0] INFO root process.count = 4.000000
06.12.2019 11:59:13 [0] INFO root random.seed = 1575604748
06.12.2019 11:59:13 [0] INFO root run.time = 4.680000
06.12.2019 11:59:13 [0] INFO root stop.at = 100
06.12.2019 11:59:13 [0] INFO root zombie.count = 5;
06.12.2019 12:01:20 [0] INFO root TICK BEGINS: 1
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06.12.2019 12:01:24 [0] INFO root date_time.run = 06.12.2019 12:01:20
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machinefile 0 → 100644
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zombie/AgentPackage.h 0 → 100644
/*
*Repast for High Performance Computing (Repast HPC)
*
* Copyright (c) 2010 Argonne National Laboratory
* All rights reserved.
*
* Redistribution and use in source and binary forms, with
* or without modification, are permitted provided that the following
* conditions are met:
*
* Redistributions of source code must retain the above copyright notice,
* this list of conditions and the following disclaimer.
*
* Redistributions in binary form must reproduce the above copyright notice,
* this list of conditions and the following disclaimer in the documentation
* and/or other materials provided with the distribution.
*
* Neither the name of the Argonne National Laboratory nor the names of its
* contributors may be used to endorse or promote products derived from
* this software without specific prior written permission.
*
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
* ``AS IS'' AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
* LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A
* PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE TRUSTEES OR
* CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
* EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
* PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
* PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
* LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
* NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE,
* EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
*/
/*
* AgentContent.h
*
* Created on: Sep 2, 2010
* Author: nick
*/
#ifndef AGENTPACKAGE_H
#define AGENTPACKAGE_H
#include "repast_hpc/AgentId.h"
struct AgentPackage {
template<class Archive>
void serialize(Archive& ar, const unsigned int version) {
ar & id;
ar & proc;
ar & type;
ar & currentProc;
ar & infectionTime;
ar & infected;
}
int id, proc, type, currentProc;
int infectionTime;
bool infected;
repast::AgentId getId() const {
return repast::AgentId(id, proc, type, currentProc);
}
};
#endif /* AGENTCONTENT_H_ */
zombie/Human.cpp 0 → 100644
/*
* Repast for High Performance Computing (Repast HPC)
*
* Copyright (c) 2010 Argonne National Laboratory
* All rights reserved.
*
* Redistribution and use in source and binary forms, with
* or without modification, are permitted provided that the following
* conditions are met:
*
* Redistributions of source code must retain the above copyright notice,
* this list of conditions and the following disclaimer.
*
* Redistributions in binary form must reproduce the above copyright notice,
* this list of conditions and the following disclaimer in the documentation
* and/or other materials provided with the distribution.
*
* Neither the name of the Argonne National Laboratory nor the names of its
* contributors may be used to endorse or promote products derived from
* this software without specific prior written permission.
*
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
* ``AS IS'' AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
* LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A
* PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE TRUSTEES OR
* CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
* EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
* PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
* PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
* LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
* NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE,
* EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
*
*
* Human.cpp
*
* Created on: Sep 1, 2010
* Author: nick
*/
#include "relogo/AgentSet.h"
#include "relogo/Patch.h"
#include "ZombieObserver.h"
#include "repast_hpc/RepastProcess.h"
#include "Human.h"
#include "Zombie.h"
using namespace repast::relogo;
using namespace repast;
struct CountZombiesOnPatch {
double operator()(const Patch* patch) const {
AgentSet<Zombie> set;
patch->turtlesOn(set);
return set.size();
}
};
void Human::infect() {
if (!_infected) {
_infected = true;
((ZombieObserver*) _observer)->incrementInfectionCount();
}
}
void Human::step() {
// if human is now dead we can't move it because
// it will be removed from the sim and the synchronization
// mechanism cannot move it.
bool alive = true;
if (_infected) {
_infectionTime++;
if (_infectionTime == 50) {
// should be safe to die here as nothing else
// will need this object, so OK to delete it
_observer->hatch<Zombie> (this);
die();
alive = false;
}
}
if (alive) {
// are there any zombies in the ngh
AgentSet<Patch> nghs = patchHere<Patch> ()->neighbors<Patch> ();
Patch* winningPatch = nghs.minOneOf(CountZombiesOnPatch());
face(winningPatch);
double distanceToMove = 1.5; // For non-toroidal worlds, need to check to make sure move is not out of bounds
while((_observer->patchAtOffset(location(), heading(), distanceToMove) == 0) && (distanceToMove > 0)) distanceToMove--;
// if(distanceToMove > 0) move(distanceToMove);
}
}
zombie/Human.h 0 → 100644
/*
* Repast for High Performance Computing (Repast HPC)
*
* Copyright (c) 2010 Argonne National Laboratory
* All rights reserved.
*
* Redistribution and use in source and binary forms, with
* or without modification, are permitted provided that the following
* conditions are met:
*
* Redistributions of source code must retain the above copyright notice,
* this list of conditions and the following disclaimer.
*
* Redistributions in binary form must reproduce the above copyright notice,
* this list of conditions and the following disclaimer in the documentation
* and/or other materials provided with the distribution.
*
* Neither the name of the Argonne National Laboratory nor the names of its
* contributors may be used to endorse or promote products derived from
* this software without specific prior written permission.
*
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
* ``AS IS'' AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
* LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A
* PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE TRUSTEES OR
* CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
* EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
* PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
* PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
* LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
* NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE,
* EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
*
*
* Human.h
*
* Created on: Sep 1, 2010
* Author: nick
*/
#ifndef HUMAN_H_
#define HUMAN_H_
#include "relogo/Turtle.h"
#include "AgentPackage.h"
class Human : public repast::relogo::Turtle {
private:
bool _infected;
int _infectionTime;
public:
Human(repast::AgentId id, repast::relogo::Observer* obs): repast::relogo::Turtle(id, obs), _infected(false), _infectionTime(0) {}
Human(repast::AgentId id, repast::relogo::Observer* obs, const AgentPackage& package): repast::relogo::Turtle(id, obs), _infected(package.infected),
_infectionTime(package.infectionTime) {}
virtual ~Human() {}
void step();
void infect();
bool infected() const {
return _infected;
}
int infectionTime() const {
return _infectionTime;
}
void set(bool infected, int infectionTime){
_infected = infected;
_infectionTime = infectionTime;
}
};
#endif /* HUMAN_H_ */
zombie/InfectionSum.cpp 0 → 100644
/*
* Repast for High Performance Computing (Repast HPC)
*
* Copyright (c) 2010 Argonne National Laboratory
* All rights reserved.
*
* Redistribution and use in source and binary forms, with
* or without modification, are permitted provided that the following
* conditions are met:
*
* Redistributions of source code must retain the above copyright notice,
* this list of conditions and the following disclaimer.
*
* Redistributions in binary form must reproduce the above copyright notice,
* this list of conditions and the following disclaimer in the documentation
* and/or other materials provided with the distribution.
*
* Neither the name of the Argonne National Laboratory nor the names of its
* contributors may be used to endorse or promote products derived from
* this software without specific prior written permission.
*
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
* ``AS IS'' AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
* LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A
* PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE TRUSTEES OR
* CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
* EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
* PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
* PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
* LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
* NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE,
* EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
*
*
* InfectionSum.cpp
*
* Created on: Oct 13, 2010
* Author: nick
*/
#include "InfectionSum.h"
#include "ZombieObserver.h"
InfectionSum::InfectionSum(ZombieObserver* zobs) : obs(zobs){}
InfectionSum::~InfectionSum() {}
int InfectionSum::getData() {
return obs->infectionCount();
}
zombie/InfectionSum.h 0 → 100644
/*
* Repast for High Performance Computing (Repast HPC)
*
* Copyright (c) 2010 Argonne National Laboratory
* All rights reserved.
*
* Redistribution and use in source and binary forms, with
* or without modification, are permitted provided that the following
* conditions are met:
*
* Redistributions of source code must retain the above copyright notice,
* this list of conditions and the following disclaimer.
*
* Redistributions in binary form must reproduce the above copyright notice,
* this list of conditions and the following disclaimer in the documentation
* and/or other materials provided with the distribution.
*
* Neither the name of the Argonne National Laboratory nor the names of its
* contributors may be used to endorse or promote products derived from
* this software without specific prior written permission.
*
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
* ``AS IS'' AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
* LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A
* PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE TRUSTEES OR
* CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
* EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
* PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
* PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
* LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
* NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE,
* EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
*
*
* InfectionSum.h
*
* Created on: Oct 13, 2010
* Author: nick
*/
#ifndef INFECTIONSUM_H_
#define INFECTIONSUM_H_
#include "repast_hpc/TDataSource.h"
class ZombieObserver;
class InfectionSum: public repast::TDataSource<int> {
private:
ZombieObserver* obs;
public:
InfectionSum(ZombieObserver* zobs);
virtual ~InfectionSum();
int getData();
};
#endif /* INFECTIONSUM_H_ */
zombie/Zombie.cpp 0 → 100644
/*
* Repast for High Performance Computing (Repast HPC)
*
* Copyright (c) 2010 Argonne National Laboratory
* All rights reserved.
*
* Redistribution and use in source and binary forms, with
* or without modification, are permitted provided that the following
* conditions are met:
*
* Redistributions of source code must retain the above copyright notice,
* this list of conditions and the following disclaimer.
*
* Redistributions in binary form must reproduce the above copyright notice,
* this list of conditions and the following disclaimer in the documentation
* and/or other materials provided with the distribution.
*
* Neither the name of the Argonne National Laboratory nor the names of its
* contributors may be used to endorse or promote products derived from
* this software without specific prior written permission.
*
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
* ``AS IS'' AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
* LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A
* PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE TRUSTEES OR
* CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
* EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
* PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
* PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
* LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
* NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE,
* EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
*
*
* Zombie.cpp
*
* Created on: Sep 1, 2010
* Author: nick
*/
#include "Zombie.h"
#include "Human.h"
#include "relogo/AgentSet.h"
#include "relogo/Patch.h"
using namespace repast::relogo;
using namespace repast;
struct CountHumansOnPatch {
double operator()(const Patch* patch) const {
AgentSet<Human> set;
patch->turtlesOn(set);
return set.size();
}
};
void Zombie::step() {
Patch* p = patchHere<Patch>();
AgentSet<Patch> nghs = patchHere<Patch>()->neighbors<Patch>();
Patch* winningPatch = nghs.maxOneOf(CountHumansOnPatch());
face(winningPatch);
move(.5);
AgentSet<Human> humans;
turtlesHere(humans);
if (humans.size() > 0) {
Human* human = humans.oneOf();
infect(human);
}
}
void Zombie::infect(Human* human) {
human->infect();
//_observer->createLink(this*, human, "Infection");
}
zombie/Zombie.h 0 → 100644
/*
* Repast for High Performance Computing (Repast HPC)
*
* Copyright (c) 2010 Argonne National Laboratory
* All rights reserved.
*
* Redistribution and use in source and binary forms, with
* or without modification, are permitted provided that the following
* conditions are met:
*
* Redistributions of source code must retain the above copyright notice,
* this list of conditions and the following disclaimer.
*
* Redistributions in binary form must reproduce the above copyright notice,
* this list of conditions and the following disclaimer in the documentation
* and/or other materials provided with the distribution.
*
* Neither the name of the Argonne National Laboratory nor the names of its
* contributors may be used to endorse or promote products derived from
* this software without specific prior written permission.
*
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
* ``AS IS'' AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
* LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A
* PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE TRUSTEES OR
* CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
* EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
* PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
* PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
* LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
* NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE,
* EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
*
*
* Zombie.h
*
* Created on: Sep 1, 2010
* Author: nick
*/
#ifndef ZOMBIE_H_
#define ZOMBIE_H_
#include "relogo/Turtle.h"
class Human;
class Zombie : public repast::relogo::Turtle {
public:
Zombie(repast::AgentId id, repast::relogo::Observer* obs) : repast::relogo::Turtle(id, obs) {}
virtual ~Zombie() {}
void step();
void infect(Human* human);
};
#endif /* ZOMBIE_H_ */
zombie/ZombieObserver.cpp 0 → 100644
/*
* Repast for High Performance Computing (Repast HPC)
*
* Copyright (c) 2010 Argonne National Laboratory
* All rights reserved.
*
* Redistribution and use in source and binary forms, with
* or without modification, are permitted provided that the following
* conditions are met:
*
* Redistributions of source code must retain the above copyright notice,
* this list of conditions and the following disclaimer.
*
* Redistributions in binary form must reproduce the above copyright notice,
* this list of conditions and the following disclaimer in the documentation
* and/or other materials provided with the distribution.
*
* Neither the name of the Argonne National Laboratory nor the names of its
* contributors may be used to endorse or promote products derived from
* this software without specific prior written permission.
*
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
* ``AS IS'' AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
* LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A
* PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE TRUSTEES OR
* CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
* EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
* PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
* PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
* LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
* NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE,
* EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
*
*
* ZombieObserver.cpp
*
* Created on: Sep 1, 2010
* Author: nick
*/
#include <sstream>
#include <iostream>
#include "relogo/RandomMove.h"
#include "relogo/grid_types.h"
#include "relogo/Patch.h"
#include "repast_hpc/AgentRequest.h"
#include "repast_hpc/SVDataSet.h"
#include "repast_hpc/SVDataSetBuilder.h"
#ifndef _WIN32
#include "repast_hpc/NCDataSetBuilder.h"
#endif
#include "ZombieObserver.h"
#include "Human.h"
#include "Zombie.h"
#include "InfectionSum.h"
using namespace std;
using namespace repast;
using namespace relogo;
const string HUMAN_COUNT_PROP = "human.count";
const string ZOMBIE_COUNT_PROP = "zombie.count";
void ZombieObserver::go() {
if (_rank == 0) {
Log4CL::instance()->get_logger("root").log(INFO, "TICK BEGINS: " + boost::lexical_cast<string>(RepastProcess::instance()->getScheduleRunner().currentTick()));
}
synchronize<AgentPackage>(*this, *this, *this, RepastProcess::USE_LAST_OR_USE_CURRENT);
AgentSet<Zombie> zombies;
get(zombies);
zombies.ask(&Zombie::step);
// AgentId id(0,0,2);
// Zombie* z = who<Zombie>(id);
AgentSet<Human> humans;
get(humans);
humans.ask(&Human::step);
if (_rank == 0) {
cout << "rank: " << _rank << ", zombies.count: " << zombies.count()
<< ", humans.count: " << humans.count()
<< endl;
cout << "zombies: " << endl;
for (int i = 0; i < zombies.size(); ++i){
cout << "(" << zombies.at(i)->xCor() << ", " << zombies.at(i)->yCor()
<< ") " << endl;
//<< ") infected: " << zombies.at(i)->infected() << endl;
}
Log4CL::instance()->get_logger("root").log(INFO, "TICK ENDS: " + boost::lexical_cast<string>(RepastProcess::instance()->getScheduleRunner().currentTick()));
}
}
void ZombieObserver::setup(Properties& props) {
// Observer::setup(props); // No longer need to call this (SimRunner calls _setup, which calls this after all initialization is done)
repast::Timer initTimer;
initTimer.start();
int humanCount = strToInt(props.getProperty(HUMAN_COUNT_PROP));
humanType = create<Human> (humanCount);
int zombieCount = strToInt(props.getProperty(ZOMBIE_COUNT_PROP));
zombieType = create<Zombie> (zombieCount);
AgentSet<Human> humans;
get(humans);
humans.apply(RandomMove(this));
AgentSet<Zombie> zombies;
get(zombies);
zombies.apply(RandomMove(this));
SVDataSetBuilder svbuilder("./output/data.csv", ",", repast::RepastProcess::instance()->getScheduleRunner().schedule());
InfectionSum* iSum = new InfectionSum(this);
svbuilder.addDataSource(repast::createSVDataSource("number_infected", iSum, std::plus<int>()));
addDataSet(svbuilder.createDataSet());
#ifndef _WIN32
// no netcdf under windows
NCDataSetBuilder builder("./output/data.ncf", RepastProcess::instance()->getScheduleRunner().schedule());
InfectionSum* infectionSum = new InfectionSum(this);
builder.addDataSource(repast::createNCDataSource("number_infected", infectionSum, std::plus<int>()));
addDataSet(builder.createDataSet());
#endif
long double t = initTimer.stop();
std::stringstream ss;
ss << t;
props.putProperty("init.time", ss.str());
}
RelogoAgent* ZombieObserver::createAgent(const AgentPackage& content) {
if (content.type == zombieType) {
return new Zombie(content.getId(), this);
} else if (content.type == humanType) {
return new Human(content.getId(), this, content);
} else {
// it's a patch.
return new Patch(content.getId(), this);
}
}
void ZombieObserver::provideContent(const repast::AgentRequest& request, std::vector<AgentPackage>& out) {
const vector<AgentId>& ids = request.requestedAgents();
for (int i = 0, n = ids.size(); i < n; i++) {
AgentId id = ids[i];
AgentPackage content = { id.id(), id.startingRank(), id.agentType(), id.currentRank(), 0, false };
if (id.agentType() == humanType) {
Human* human = who<Human> (id);
content.infected = human->infected();
content.infectionTime = human->infectionTime();
}
out.push_back(content);
}
}
void ZombieObserver::provideContent(RelogoAgent* agent, std::vector<AgentPackage>& out) {
AgentId id = agent->getId();
AgentPackage content = { id.id(), id.startingRank(), id.agentType(), id.currentRank(), 0, false };
if (id.agentType() == humanType) {
Human* human = static_cast<Human*> (agent);
content.infected = human->infected();
content.infectionTime = human->infectionTime();
}
out.push_back(content);
}
void ZombieObserver::createAgents(std::vector<AgentPackage>& contents, std::vector<RelogoAgent*>& out) {
for (size_t i = 0, n = contents.size(); i < n; ++i) {
AgentPackage content = contents[i];
if (content.type == zombieType) {
out.push_back(new Zombie(content.getId(), this));
} else if (content.type == humanType) {
out.push_back(new Human(content.getId(), this, content));
} else {
// it's a patch.
out.push_back(new Patch(content.getId(), this));
}
}
}
void ZombieObserver::updateAgent(AgentPackage package){
repast::AgentId id(package.id, package.proc, package.type);
if (id.agentType() == humanType) {
Human * human = who<Human> (id);
human->set(package.infected, package.infectionTime);
}
}
zombie/ZombieObserver.h 0 → 100644
/*
* Repast for High Performance Computing (Repast HPC)
*
* Copyright (c) 2010 Argonne National Laboratory
* All rights reserved.
*
* Redistribution and use in source and binary forms, with
* or without modification, are permitted provided that the following
* conditions are met:
*
* Redistributions of source code must retain the above copyright notice,
* this list of conditions and the following disclaimer.
*
* Redistributions in binary form must reproduce the above copyright notice,
* this list of conditions and the following disclaimer in the documentation
* and/or other materials provided with the distribution.
*
* Neither the name of the Argonne National Laboratory nor the names of its
* contributors may be used to endorse or promote products derived from
* this software without specific prior written permission.
*
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
* ``AS IS'' AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
* LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A
* PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE TRUSTEES OR
* CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
* EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
* PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
* PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
* LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
* NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE,
* EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
*
*
* ZombieObserver.h
*
* Created on: Sep 1, 2010
* Author: nick
*/
#ifndef ZOMBIEOBSERVER_H_
#define ZOMBIEOBSERVER_H_
#include "relogo/Observer.h"
#include "repast_hpc/AgentRequest.h"
#include "repast_hpc/Properties.h"
#include "AgentPackage.h"
class ZombieObserver : public repast::relogo::Observer {
private:
repast::Properties props;
int zombieType, humanType;
int _infectionCount;
public:
ZombieObserver() : _infectionCount(0) {}
virtual ~ZombieObserver() {}
void go();
virtual void setup(repast::Properties& props); // NOTE: 'virtual' needed by some compilers
// create and provide for agents moving between processes
repast::relogo::RelogoAgent* createAgent(const AgentPackage& content);
void provideContent(const repast::AgentRequest& request, std::vector<AgentPackage>& out);
// create and provide for buffer sync
void createAgents(std::vector<AgentPackage>& content, std::vector<repast::relogo::RelogoAgent*>& out);
void provideContent(repast::relogo::RelogoAgent* agent, std::vector<AgentPackage>& out);
void updateAgent(AgentPackage package);
void incrementInfectionCount() {
_infectionCount++;
}
int infectionCount() const {
return _infectionCount;
}
};
#endif /* ZOMBIEOBSERVER_H_ */
zombie/config.props 0 → 100644
# DEBUG, INFO, WARN, ERROR
logger.root = INFO, R, stdout
logger.repast.system = DEBUG, R, stdout
appender.R = RollingFileAppender
appender.R.MaxBackupIndex = 1
appender.R.File = ./logs/repast.log
appender.R.MaxFileSize=200
zombie/main.cpp 0 → 100644
/*
* Repast for High Performance Computing (Repast HPC)
*
* Copyright (c) 2010 Argonne National Laboratory
* All rights reserved.
*
* Redistribution and use in source and binary forms, with
* or without modification, are permitted provided that the following
* conditions are met:
*
* Redistributions of source code must retain the above copyright notice,
* this list of conditions and the following disclaimer.
*
* Redistributions in binary form must reproduce the above copyright notice,
* this list of conditions and the following disclaimer in the documentation
* and/or other materials provided with the distribution.
*
* Neither the name of the Argonne National Laboratory nor the names of its
* contributors may be used to endorse or promote products derived from
* this software without specific prior written permission.
*
* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
* ``AS IS'' AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
* LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A
* PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE TRUSTEES OR
* CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
* EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
* PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
* PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
* LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
* NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE,
* EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
*
*
*/
#include <boost/mpi.hpp>
#include "repast_hpc/io.h"
#include "repast_hpc/RepastProcess.h"
#include "relogo/SimulationRunner.h"
#include "relogo/Patch.h"
//#include "repast_hpc/initialize_random.h"
#include "ZombieObserver.h"
using namespace repast;
using namespace relogo;
void usage() {
std::cerr << "usage: X string string" << std::endl;
std::cerr << " first string: string is the path to the Repast HPC \n\tconfiguration properties file"
<< std::endl;
std::cerr << " second string: string is the path to the model properties file" << std::endl;
}
void runZombies(std::string propsFile, int argc, char ** argv) {
boost::mpi::communicator world;
Properties props(propsFile, argc, argv, &world);
std::string time;
repast::timestamp(time);
props.putProperty("date_time.run", time);
props.putProperty("process.count", world.size());
SimulationRunner runner(&world);
if(world.rank() == 0) std::cout << " Starting... " << std::endl;
repast::Timer timer;
timer.start();
runner.run<ZombieObserver, Patch>(props);
props.putProperty("run.time", timer.stop());
if(world.rank() == 0){
std::vector<std::string> keysToWrite;
keysToWrite.push_back("run.number");
keysToWrite.push_back("date_time.run");
keysToWrite.push_back("process.count");
keysToWrite.push_back("random.seed");
keysToWrite.push_back("human.count");
keysToWrite.push_back("zombie.count");
keysToWrite.push_back("min.x");
keysToWrite.push_back("min.y");
keysToWrite.push_back("max.x");
keysToWrite.push_back("max.y");
keysToWrite.push_back("proc.per.x");
keysToWrite.push_back("proc.per.y");
keysToWrite.push_back("grid.buffer");
keysToWrite.push_back("init.time");
keysToWrite.push_back("stop.at");
keysToWrite.push_back("run.time");
props.log("root");
props.writeToSVFile("Zombies.csv", keysToWrite);
}
}
int main(int argc, char **argv) {
boost::mpi::environment env(argc, argv);
std::string config, props;
boost::mpi::communicator world;
if (argc >= 3) {
config = argv[1];
props = argv[2];
} else {
if (world.rank() == 0) usage();
return 0;
}
if (config.size() > 0 && props.size() > 0) {
RepastProcess::init(config, &world);
runZombies(props, argc, argv);
} else {
if (world.rank() == 0) usage();
return 0;
}
RepastProcess::instance()->done();
return 0;
}
zombie/model.props 0 → 100644
#random.seed = 1284067381
stop.at = 100
# per process
human.count = 500;
zombie.count = 5;
# world definition props
min.x = -100
min.y = -100
max.x = 99
max.y = 99
grid.buffer = 2
# these must multiply to total number of processes
proc.per.x = 2
proc.per.y = 2
# named random number distributions
distribution.zombie_move = int_uniform, 0, 2
zombie/module.mk 0 → 100644
DIR := zombie
ZOMBIE_SRC += $(DIR)/main.cpp
ZOMBIE_SRC += $(DIR)/Zombie.cpp
ZOMBIE_SRC += $(DIR)/Human.cpp
ZOMBIE_SRC += $(DIR)/ZombieObserver.cpp
ZOMBIE_SRC += $(DIR)/InfectionSum.cpp
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