Original AutoMix by David Hastie

Makefile

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+#############################################################################
+# Make file for AutoMix sampler
+# Written by: David Hastie, University of Bristol
+# Last edited: 14/11/04
+# 
+# If you use the AutoMix sampler please reference the author and work
+# as instructed on the website http://www.davidhastie.me.uk/AutoMix
+# Initially this reference is likely to be the Ph.D. thesis that introduces 
+# the AutoMix sampler. However, this will hopefully change to be a published
+# paper in the not too distant future.
+#
+# All code has only been tested using the GNU compiler gcc.
+#############################################################################
+
+# The file contains commands for compiling programs using optimisation and 
+# no debugging. Also included are commands for compiling with debugging.
+# The executables and object files for the debugging are identified by 
+# the final letter "d". For example, amtoy1.exe is the AutoMix sampler for the
+# toy problem (see Ph.D. thesis section 5.5.1 for details) and amtoy1d.exe is 
+# the version that allows debugging using a debugger such as gdb
+# Flags and compiler names should be changed as necessary.
+
+# C compiler
+CC=gcc
+
+# Normal optimised flags
+CFLAGS=-O3 -o
+
+# Debugging flags
+CFLAGSD=-g -o
+
+# Dependency flags
+DEPFLAGS=-c
+
+# Dependency flags with debugging
+DEPFLAGSD=-g -c
+
+# Libraries
+LIB=-lm
+
+# Compiler flags:
+#       -g      -- Enable debugging through gdb
+#       -O3     -- Optimise progs 
+#       -Wall   -- Turn on all warnings
+#       -lm     -- Use the maths library
+#       -c      -- Compile flag for dependencies
+
+
+###### Type "make all" to make all files in the folder #####
+
+all: amtoy1 amtoy2 amcpt amcptrs amrb9 amddi amtoy1d amtoy2d amcptd amcptrsd amrb9d amddid
+
+###### Normal (already debugged) progs ############
+
+# Toy example 1
+amtoy1: automix.c usertoy1.o sd.o gammafns.o sokal.o
+	$(CC) $(CFLAGS) amtoy1 automix.c usertoy1.o sd.o gammafns.o sokal.o $(LIB)
+
+# Toy example 2
+amtoy2: automix.c usertoy2.o sd.o gammafns.o sokal.o
+	$(CC) $(CFLAGS) amtoy2 automix.c usertoy2.o sd.o gammafns.o sokal.o $(LIB)
+
+# Change point problem
+amcpt: automix.c usercpt.o gammafns.o sd.o sokal.o
+	$(CC) $(CFLAGS) amcpt automix.c usercpt.o sd.o gammafns.o sokal.o $(LIB)
+
+# Rescaled change point problem
+amcptrs: automix.c usercptrs.o gammafns.o sd.o sokal.o
+	$(CC) $(CFLAGS) amcptrs automix.c usercptrs.o sd.o gammafns.o sokal.o $(LIB)
+
+# Rb9 problem
+amrb9: automix.c userrb9.o gammafns.o sd.o sokal.o 
+	$(CC) $(CFLAGS) amrb9 automix.c userrb9.o sd.o gammafns.o sokal.o $(LIB)
+
+# DDI Clinical trial problem
+amddi: automix.c ddidata.h userddi.o gammafns.o sd.o sokal.o 
+	$(CC) $(CFLAGS) amddi automix.c userddi.o sd.o gammafns.o sokal.o $(LIB)
+
+### AutoMix dependencies (already debugged)
+
+# Calculates loggamma function
+gammafns.o: gammafns.c 
+	$(CC) $(DEPFLAGS) gammafns.c
+
+# Random number generator
+sd.o: sd.c
+	$(CC) $(DEPFLAGS) sd.c -DDOUB -DRETS
+
+# Calculates autocorrelation using Sokal's method (Green and Han,92)
+sokal.o: sokal.c
+	$(CC) $(DEPFLAGS) sokal.c
+
+### User supplied functions (already debugged)
+
+# Toy example 1
+usertoy1.o: usertoy1.c
+	$(CC) $(DEPFLAGS) usertoy1.c
+
+# Toy example 2
+usertoy2.o: usertoy2.c
+	$(CC) $(DEPFLAGS) usertoy2.c
+
+# Change point problem
+usercpt.o: usercpt.c
+	$(CC) $(DEPFLAGS) usercpt.c
+
+# Rescaled change point problem
+usercptrs.o: usercptrs.c
+	$(CC) $(DEPFLAGS) usercptrs.c
+
+# Rb9 problem
+userrb9.o: userrb9.c
+	$(CC) $(DEPFLAGS) userrb9.c
+
+# DDI clinical trial problem
+userddi.o: userddi.c
+	$(CC) $(DEPFLAGS) userddi.c
+
+###### Progs to be debugged ############
+
+# Toy example 1
+amtoy1d: automix.c usertoy1d.o sdd.o gammafnsd.o sokald.o
+	$(CC) $(CFLAGSD) amtoy1d automix.c usertoy1d.o sdd.o gammafnsd.o sokald.o $(LIB)
+
+# Toy example 2
+amtoy2d: automix.c usertoy2d.o sdd.o gammafnsd.o sokald.o
+	$(CC) $(CFLAGSD) amtoy2d automix.c usertoy2d.o sdd.o gammafnsd.o sokald.o $(LIB)
+
+# Change point problem
+amcptd: automix.c usercptd.o gammafnsd.o sdd.o sokald.o
+	$(CC) $(CFLAGSD) amcptd automix.c usercptd.o sdd.o gammafnsd.o sokald.o $(LIB)
+
+# Rescaled change point problem
+amcptrsd: automix.c usercptrsd.o gammafnsd.o sdd.o sokald.o
+	$(CC) $(CFLAGSD) amcptrsd automix.c usercptrsd.o sdd.o gammafnsd.o sokald.o $(LIB)
+
+# Rb9 problem
+amrb9d: automix.c userrb9d.o gammafnsd.o sdd.o sokald.o 
+	$(CC) $(CFLAGSD) amrb9d automix.c userrb9d.o sdd.o gammafnsd.o sokald.o $(LIB)
+
+# DDI Clinical trial problem
+amddid: automix.c ddidata.h userddid.o gammafnsd.o sdd.o sokald.o 
+	$(CC) $(CFLAGSD) amddid automix.c userddid.o sdd.o gammafnsd.o sokald.o $(LIB)
+
+# (Old) Toy problems compiled with automix2.c program, implementing
+# adaptation through regeneration (automix2.c not included in distribution) 
+
+### AutoMix dependencies (to be debugged)
+
+# Calculates loggamma function
+gammafnsd.o: gammafns.c
+	cp gammafns.c gammafnsd.c 
+	$(CC) $(DEPFLAGSD) gammafnsd.c
+
+# Random number generator
+sdd.o: sd.c
+	cp sd.c sdd.c
+	$(CC) $(DEPFLAGSD) sdd.c -DDOUB -DRETS
+
+# Calculates autocorrelation using Sokal's method (Green and Han,92)
+sokald.o: sokal.c
+	cp sokal.c sokald.c
+	$(CC) $(DEPFLAGSD) sokald.c
+
+### User supplied functions (to be debugged)
+
+# Toy example 1
+usertoy1d.o: usertoy1.c
+	cp usertoy1.c usertoy1d.c
+	$(CC) $(DEPFLAGSD) usertoy1d.c
+
+# Toy example 2
+usertoy2d.o: usertoy2.c
+	cp usertoy2.c usertoy2d.c
+	$(CC) $(DEPFLAGSD) usertoy2d.c
+
+# Change point problem
+usercptd.o: usercpt.c
+	cp usercpt.c usercptd.c
+	$(CC) $(DEPFLAGSD) usercptd.c
+
+# Rescaled change point problem
+usercptrsd.o: usercptrs.c
+	cp usercptrs.c usercptrsd.c
+	$(CC) $(DEPFLAGSD) usercptrsd.c
+
+# Rb9 problem
+userrb9d.o: userrb9.c
+	cp userrb9.c userrb9d.c
+	$(CC) $(DEPFLAGSD) userrb9d.c
+
+# DDI clinical trial problem
+userddid.o: userddi.c
+	cp userddi.c userddid.c
+	$(CC) $(DEPFLAGSD) userddid.c
+
+###### Type "make clean" to remove all executables and object files ####
+
+clean:
+	rm *.o
+	rm am*