--- MITgcm/tools/genmake2	2012/11/17 20:04:10	1.245
+++ MITgcm/tools/genmake2	2013/04/05 21:10:55	1.250
@@ -1,6 +1,6 @@
 #! /usr/bin/env bash
 #
-# $Header: /home/ubuntu/mnt/e9_copy/MITgcm/tools/genmake2,v 1.245 2012/11/17 20:04:10 jmc Exp $
+# $Header: /home/ubuntu/mnt/e9_copy/MITgcm/tools/genmake2,v 1.250 2013/04/05 21:10:55 jmc Exp $
 # $Name:  $
 #
 # Makefile generator for MITgcm UV codes
@@ -324,15 +324,14 @@
     #
     #    1) a makedepend implementation shipped with the cyrus-imapd
     #       package:  ftp://ftp.andrew.cmu.edu/pub/cyrus-mail/
-    #
-    #    2) a known-buggy xmakedpend shell script
+    #    2) a local tools/xmakedepend shell script
     #
     #  So the choices are, in order:
-    #
     #    1) use the user-specified program
-    #    2) use a system-wide default
-    #    3) locally build and use the cyrus implementation
-    #    4) fall back to the buggy local xmakedpend script
+    #    2) use the local xmakedepend script (get all dependencies, but slower)
+    #    3) use a system-wide default
+    #    4) locally build and use the cyrus makedepend
+    #             (faster, but can miss some dependencies)
     #
     echo >> $LOGFILE
     echo "running: look_for_makedepend()" >> $LOGFILE
@@ -343,7 +342,7 @@
 	    build_cyrus_makedepend
 	    RETVAL=$?
 	    if test "x$RETVAL" != x0 ; then
-		echo "WARNING: unable to build cyrus-makedepend. Try 'makedepend'"
+		echo "WARNING: unable to build cyrus-makedepend. Try other 'makedepend'"
 		MAKEDEPEND=
 	    fi
 	else
@@ -356,8 +355,6 @@
 	fi
     fi
     if test "x${MAKEDEPEND}" = x ; then
-	which makedepend > /dev/null 2>&1
-	RV0=$?
 	test -f $MAKEFILE  &&  mv -f $MAKEFILE $MAKEFILE".tst"
 	#  echo 'MAKEFILE="'$MAKEFILE'"'
 	cat <<EOF >> $MAKEFILE
@@ -373,22 +370,39 @@
       stop
       end
 EOF
-	makedepend -f $MAKEFILE genmake_tc.f > /dev/null 2>&1
+	$ROOTDIR/tools/xmakedepend -f $MAKEFILE genmake_tc.f > /dev/null 2>&1
 	RV1=$?
+	which makedepend > /dev/null 2>&1
+	RV2=$?
+	if test "x${RV2}" = x0 ; then
+	    makedepend -f $MAKEFILE genmake_tc.f > /dev/null 2>&1
+	    RV3=$? ; loc_msg='not working.'
+	else RV3=$RV2 ; loc_msg='not found.'
+	fi
 	test -f $MAKEFILE  &&  rm -f $MAKEFILE
 	test -f $MAKEFILE".tst"  &&  mv -f $MAKEFILE".tst" $MAKEFILE
-	if test "x${RV0}${RV1}" = x00 ; then
+	echo "  check makedepend (local: $RV1, system: $RV2, $RV3)"
+	if test "x${RV1}" = x0 ; then
+	    MAKEDEPEND='$(TOOLSDIR)/xmakedepend'
+	    echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
+	elif test "x${RV3}" = x0 ; then
+	    echo "    local tools/xmakedepend not working. Use system-default makedepend"
 	    MAKEDEPEND=makedepend
 	    echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
 	else
-	    echo "    system-default makedepend not found. Try to build cyrus-makedepend"
+	    echo "    local tools/xmakedepend not working; system-default makedepend $loc_msg"
+	    echo -n "    Try to build cyrus-makedepend ..."
 	    #  Try to build the cyrus implementation
 	    build_cyrus_makedepend
 	    RETVAL=$?
-	    if test "x$RETVAL" != x0 ; then
-		echo "WARNING: unable to build cyrus-makedepend. Use local xmakedepend"
-		MAKEDEPEND='$(TOOLSDIR)/xmakedepend'
-		echo " --> set MAKEDEPEND=${MAKEDEPEND}" >> $LOGFILE
+	    if test "x$RETVAL" = x0 ; then
+		echo "  Works"
+	    else
+		echo "  Fails" ; echo "" >> $LOGFILE
+		echo "ERROR: no working makedepend found ; look_for_makedepend FAILED" | tee -a $LOGFILE
+		echo ""
+		exit -1
+		return
 	    fi
 	fi
     fi
@@ -1188,6 +1202,9 @@
 DEVEL=
 HAVE_TEST_L=
 
+# comment this line out to enable lapack test
+SKIP_LAPACK_CHECK=t
+
 # DEFINES checked by test compilation or command-line
 HAVE_SYSTEM=
 HAVE_FDATE=
@@ -1699,6 +1716,8 @@
 if test ! "x$MPI" = x ; then
       echo "  Turning on MPI cpp macros"
       DEFINES="$DEFINES -DALLOW_USE_MPI"
+#- To compile code older than checkpoint63s (2012/09/05), un-comment the following line:
+#     DEFINES="$DEFINES -DALWAYS_USE_MPI"
 fi
 if test ! "x$OMP" = x ; then
       echo "  Add OMPFLAG and turn on OpenMP cpp macros"
@@ -2764,6 +2783,9 @@
     echo "EMBEDDED_FILES = " >>$MAKEFILE
 fi
 
+# extract default cpp search path so we can pass it to makedepend
+CPPINCLUDES=`cat /dev/null | $CPP -v 2>&1 | awk '/^End of search/{f=0}!/^\#/{if(f){printf " -I%s", $1;}}/^\#include "..." search start/{f=1}'`
+
 cat >>$MAKEFILE <<EOF
 # Unix ln (link)
 LN = ${LN}
@@ -2784,6 +2806,8 @@
 DEFINES = ${DEFINES}
 # Includes for CPP
 INCLUDES = ${INCLUDES}
+# default CPP includes for makedepend
+CPPINCLUDES = ${CPPINCLUDES}
 # Flags for KPP
 KFLAGS1 = ${KFLAGS1}
 KFLAGS2 = ${KFLAGS2}
@@ -2849,7 +2873,7 @@
 
 depend:
 	@\$(MAKE) -f \$(MAKEFILE) links
-	\$(MAKEDEPEND) -f \$(MAKEFILE) -o .$FS \$(DEFINES) \$(INCLUDES) \$(F77_SRC_FILES)
+	\$(MAKEDEPEND) -f \$(MAKEFILE) -o .$FS \$(DEFINES) \$(INCLUDES) \$(CPPINCLUDES) \$(F77_SRC_FILES)
 	\$(TOOLSDIR)/f90mkdepend >> \$(MAKEFILE)
 	-rm -f makedepend.out
 
@@ -3214,7 +3238,8 @@
 OAD_active.F90 \
 OAD_cp.F90 \
 OAD_rev.F90 \
-OAD_tape.F90
+OAD_tape.F90 \
+revolve.F90
 
 OPENAD_SUPPORT_C_SRC_FILES = \
 iaddr.c \