Update makefile for the new entry point

Makefile

@@ -19,32 +19,32 @@ run_gui:
 
 unit_test:
 	@echo Unit tests...
-	$(CMD_PYTHON) script_mac.py -vv debug compute_macs bio_models/mini_test_publi.bcx Px --steps 10
+	$(CMD_PYTHON) cadbiom_cmd.py -vv debug compute_macs bio_models/mini_test_publi.bcx Px --steps 10
 	py.test
 	@# cluster unit tests
 	@#../.local/bin/py.test test
 
 multiprocess:
-	$(CMD_PYTHON) script_mac.py -vv debug compute_macs bio_models/pid_and_clock.bcx --input_file bio_models/input.txt --steps 7 --output run
+	$(CMD_PYTHON) cadbiom_cmd.py -vv debug compute_macs bio_models/pid_and_clock.bcx --input_file bio_models/input.txt --steps 7 --output run
 
 t1:
-	$(CMD_PYTHON) script_mac.py -vv debug compute_macs bio_models/pid_and_clock.bcx SRP9 --steps 10 --output p1
+	$(CMD_PYTHON) cadbiom_cmd.py -vv debug compute_macs bio_models/pid_and_clock.bcx SRP9 --steps 10 --output p1
 t2:
-	$(CMD_PYTHON) script_mac.py -vv debug compute_macs bio_models/pid_and_clock.bcx SRP9 --steps 7 --output p2
+	$(CMD_PYTHON) cadbiom_cmd.py -vv debug compute_macs bio_models/pid_and_clock.bcx SRP9 --steps 7 --output p2
 t3:
-	$(CMD_PYTHON) script_mac.py -vv debug compute_macs "bio_models/Whole NCI-PID database translated into CADBIOM formalism(and).bcx" SRP9 --all_macs --steps 10 --output p3
+	$(CMD_PYTHON) cadbiom_cmd.py -vv info compute_macs "bio_models/Whole NCI-PID database translated into CADBIOM formalism(and).bcx" SRP9 --all_macs --steps 10 --output bench
 t3bis:
-	$(CMD_PYTHON) script_mac.py -vv info compute_macs "bio_models/Whole NCI-PID database translated into CADBIOM formalism(and).bcx" SRP9 --steps 10 --output p3bis
+	$(CMD_PYTHON) cadbiom_cmd.py -vv info compute_macs "bio_models/Whole NCI-PID database translated into CADBIOM formalism(and).bcx" SRP9 --steps 10 --output p3bis
 t4:
-	$(CMD_PYTHON) script_mac.py -vv debug compute_macs bio_models/pid_or_clock.bcx SRP9 --steps 7 --output p4
+	$(CMD_PYTHON) cadbiom_cmd.py -vv debug compute_macs bio_models/pid_or_clock.bcx SRP9 --steps 7 --output p4
 t5:
-	$(CMD_PYTHON) script_mac.py -vv debug compute_macs bio_models/pid_and_clock.bcx CCR5 --steps 10 --output p5
+	$(CMD_PYTHON) cadbiom_cmd.py -vv debug compute_macs bio_models/pid_and_clock.bcx CCR5 --steps 10 --output p5
 t6:
-	$(CMD_PYTHON) script_mac.py -vv debug compute_macs bio_models/pid_and_clock.bcx CCR5 --steps 7 --output p6
+	$(CMD_PYTHON) cadbiom_cmd.py -vv debug compute_macs bio_models/pid_and_clock.bcx CCR5 --steps 7 --output p6
 t7:
-	$(CMD_PYTHON) script_mac.py -vv debug compute_macs bio_models/pid_or_clock.bcx CCR5 --steps 7 --output p7
+	$(CMD_PYTHON) cadbiom_cmd.py -vv debug compute_macs bio_models/pid_or_clock.bcx CCR5 --steps 7 --output p7
 real_study:
-	$(CMD_PYTHON) script_mac.py -vv info compute_macs "bio_models/Whole NCI-PID database translated into CADBIOM formalism(and).bcx" --steps 7 --all_macs --input_file bio_models/input_places.txt --combinations
+	$(CMD_PYTHON) cadbiom_cmd.py -vv info compute_macs "bio_models/Whole NCI-PID database translated into CADBIOM formalism(and).bcx" --steps 7 --all_macs --input_file bio_models/input_places.txt --combinations
 	
 	
 version: