made get.oturep more memory efficient by breaking the work into 2 pieces.

[mothur.git] / makefile

diff --git a/makefile b/makefile
index d62f0290e5c9dce0b4d8100a6e92940ccca2e1df..b7bb8d04798f870be5f84d925323b9a79be08ca4 100644 (file)
--- a/makefile
+++ b/makefile
@@ -26,7 +26,8 @@ ifeq  ($(strip $(USEREADLINE)),yes)
       -L../readline-6.0\r
 endif\r
 \r
-USEMPI ?= yes\r
+USEMPI ?= no
+\r
 \r
 ifeq  ($(strip $(USEMPI)),yes)\r
     CC_OPTIONS += -DUSE_MPI\r
@@ -219,7 +220,8 @@ mothur : \
                ./parsesffcommand.o\\r
                ./classify.o\\r
                ./phylotree.o\\r
-               ./bayesian.o\\r
+               ./bayesian.o\
+               ./phylosummary.o\\r
                ./alignmentdb.o\\r
                ./knn.o\\r
                ./distancedb.o\\r
@@ -238,7 +240,8 @@ mothur : \
                ./qstat.o\\r
                ./shen.o\\r
                ./logsd.o\\r
-               ./geom.o\r
+               ./geom.o\
+               ./setlogfilecommand.o\r
        $(CC) $(LNK_OPTIONS) \\r
                ./sharedutilities.o\\r
                ./treegroupscommand.o\\r
@@ -416,7 +419,8 @@ mothur : \
                ./parsesffcommand.o\\r
                ./classify.o\\r
                ./phylotree.o\\r
-               ./bayesian.o\\r
+               ./bayesian.o\
+               ./phylosummary.o\\r
                ./alignmentdb.o\\r
                ./knn.o\\r
                ./distancedb.o\\r
@@ -435,7 +439,8 @@ mothur : \
                ./qstat.o\\r
                ./shen.o\\r
                ./logsd.o\\r
-               ./geom.o\\r
+               ./geom.o\
+               ./setlogfilecommand.o\\r
                -o ../Release/mothur\r
 \r
 clean : \r
@@ -616,7 +621,8 @@ clean :
                ./parsesffcommand.o\\r
                ./classify.o\\r
                ./phylotree.o\\r
-               ./bayesian.o\\r
+               ./bayesian.o\
+               ./phylosummary.o\\r
                ./alignmentdb.o\\r
                ./knn.o\\r
                ./distancedb.o\\r
@@ -635,7 +641,8 @@ clean :
                ./qstat.o\\r
                ./shen.o\\r
                ./logsd.o\\r
-               ./geom.o\\r
+               ./geom.o\
+               ./setlogfilecommand.o\\r
                mothur\r
 \r
 install : mothur\r
@@ -1619,6 +1626,15 @@ install : mothur
 # Item # 196 -- chimerabellerophoncommand --\r
 ./chimerabellerophoncommand.o : chimerabellerophoncommand.cpp\r
        $(CC) $(CC_OPTIONS) chimerabellerophoncommand.cpp -c $(INCLUDE) -o ./chimerabellerophoncommand.o\r
+
+# Item # 197 -- phylosummary --\r
+./phylosummary.o : phylosummary.cpp\r
+       $(CC) $(CC_OPTIONS) phylosummary.cpp -c $(INCLUDE) -o ./phylosummary.o\r
+
+# Item # 198 -- setlogfilecommand --\r
+./setlogfilecommand.o : setlogfilecommand.cpp\r
+       $(CC) $(CC_OPTIONS) setlogfilecommand.cpp -c $(INCLUDE) -o ./setlogfilecommand.o\r
+\r
 \r
 \r
 ##### END RUN ####\r