Updated MaBoSS version in setup script

README.md

@@ -1,4 +1,4 @@
-<img align="right" height="200" src="https://github.com/sysbio-curie/MaBoSS-env-2.0/assets/22156824/b1b9a843-a203-42e6-8f8f-1acd2e2f5285">
+<img align="right" height="200" src="https://github.com/sysbio-curie/MaBoSS/assets/22156824/b1b9a843-a203-42e6-8f8f-1acd2e2f5285">
 
 # PhysiBoSS 2: a sustainable integration of stochastic Boolean and agent-based modelling frameworks
 **Version:** 2.2.2

documentation-deprecated/PhysiBoSS_User_Guide.tex

@@ -383,7 +383,7 @@ \section{PhysiBoSS Makefile}
    MABOSS_MAX_NODES = 64
 endif
 
-MABOSS_DIR = addons/PhysiBoSS/MaBoSS-env-2.0/engine
+MABOSS_DIR = addons/PhysiBoSS/MaBoSS/engine
 CUR_DIR = $(shell pwd)
 
 ifneq ($(OS), Windows_NT)

sample_projects_intracellular/boolean/prostate/Makefile

@@ -22,7 +22,7 @@ MABOSS_MAX_NODES = 64
 endif
 
 # MaBoSS directory
-MABOSS_DIR = addons/PhysiBoSS/MaBoSS-env-2.0/engine
+MABOSS_DIR = addons/PhysiBoSS/MaBoSS/engine
 CUR_DIR = $(shell pwd)
 
 ifneq ($(OS), Windows_NT)
@@ -84,7 +84,7 @@ PhysiCell_module_OBJECTS := PhysiCell_SVG.o PhysiCell_pathology.o PhysiCell_Mult
 PhysiCell_pugixml.o PhysiCell_settings.o PhysiCell_geometry.o
 
 # put your custom objects here (they should be in the custom_modules directory)  
-MaBoSS := ./addons/PhysiBoSS/MaBoSS-env-2.0/engine/src/BooleanNetwork.h
+MaBoSS := ./addons/PhysiBoSS/MaBoSS/engine/src/BooleanNetwork.h
 
 PhysiBoSS_OBJECTS := maboss_network.o maboss_intracellular.o drug_sensitivity.o boolean_model_interface.o
 
@@ -200,8 +200,8 @@ PhysiCell_geometry.o: ./modules/PhysiCell_geometry.cpp
 
 # user-defined PhysiCell modules
 
-Compile_MaBoSS: ./addons/PhysiBoSS/MaBoSS-env-2.0/engine/src/BooleanNetwork.h
-	cd ./addons/PhysiBoSS/MaBoSS-env-2.0/engine/src;make CXX=$(CC) MAXNODES=$(MABOSS_MAX_NODES) install_alib;make clean; cd ../../../../..
+Compile_MaBoSS: ./addons/PhysiBoSS/MaBoSS/engine/src/BooleanNetwork.h
+	cd ./addons/PhysiBoSS/MaBoSS/engine/src;make CXX=$(CC) MAXNODES=$(MABOSS_MAX_NODES) install_alib;make clean; cd ../../../../..
 
 $(MaBoSS): 
 ifeq ($(OS), Windows_NT)
@@ -240,7 +240,7 @@ reset:
 	rm -rf ./scripts
 
 MaBoSS-clean:
-	rm -fr addons/PhysiBoSS/MaBoSS-env-2.0
+	rm -fr addons/PhysiBoSS/MaBoSS
 
 clean:
 	rm -f *.o

sample_projects_intracellular/boolean/spheroid_tnf_model/Makefile

@@ -18,7 +18,7 @@ MABOSS_MAX_NODES = 64
 endif
 
 # MaBoSS directory
-MABOSS_DIR = addons/PhysiBoSS/MaBoSS-env-2.0/engine
+MABOSS_DIR = addons/PhysiBoSS/MaBoSS/engine
 CUR_DIR = $(shell pwd)
 
 ifneq ($(OS), Windows_NT)
@@ -80,7 +80,7 @@ PhysiCell_module_OBJECTS := PhysiCell_SVG.o PhysiCell_pathology.o PhysiCell_Mult
 PhysiCell_pugixml.o PhysiCell_settings.o PhysiCell_geometry.o
 
 # put your custom objects here (they should be in the custom_modules directory)  
-MaBoSS := ./addons/PhysiBoSS/MaBoSS-env-2.0/engine/src/BooleanNetwork.h
+MaBoSS := ./addons/PhysiBoSS/MaBoSS/engine/src/BooleanNetwork.h
 
 PhysiBoSS_OBJECTS := maboss_network.o maboss_intracellular.o
 
@@ -192,8 +192,8 @@ PhysiCell_geometry.o: ./modules/PhysiCell_geometry.cpp
 
 # user-defined PhysiCell modules
 
-Compile_MaBoSS: ./addons/PhysiBoSS/MaBoSS-env-2.0/engine/src/BooleanNetwork.h
-	cd ./addons/PhysiBoSS/MaBoSS-env-2.0/engine/src;make CXX=$(CC) install_alib;make clean; cd ../../../../..
+Compile_MaBoSS: ./addons/PhysiBoSS/MaBoSS/engine/src/BooleanNetwork.h
+	cd ./addons/PhysiBoSS/MaBoSS/engine/src;make CXX=$(CC) install_alib;make clean; cd ../../../../..
 
 $(MaBoSS):  
 ifeq ($(OS), Windows_NT)
@@ -238,7 +238,7 @@ reset:
 	cp ./config/PhysiCell_settings-backup.xml ./config/PhysiCell_settings.xml
 
 MaBoSS-clean:
-	rm -fr addons/PhysiBoSS/MaBoSS-env-2.0
+	rm -fr addons/PhysiBoSS/MaBoSS
 
 clean: MaBoSS-clean
 	rm -f *.o