I have rewrote the patch.
Maybe with this new patch...
diff -ruN /usr/ports/graphics/gdal/files/patch-configure
gdal/files/patch-configure
--- /usr/ports/graphics/gdal/files/patch-configure 2012-05-19
12:04:43.000000000 +0200
+++ gdal/files/patch-configure 2012-05-22 19:48:35.000000000 +0200
@@ -1,6 +1,24 @@
---- configure.orig 2011-12-23 09:51:45.000000000 +0800
-+++ configure 2011-12-23 15:30:42.540316668 +0800
-@@ -21140,10 +21140,10 @@
+--- configure.orig 2012-01-04 08:03:42.000000000 +0100
++++ configure 2012-05-22 19:47:53.000000000 +0200
+@@ -8908,7 +8908,7 @@
+ LIBTOOL_DEPS="$ltmain"
+
+ # Always use our own libtool.
+-LIBTOOL='$(SHELL) $(top_builddir)/libtool'
++LIBTOOL='$(SHELL) /usr/local/bin/libtool'
+
+
+
+@@ -18694,7 +18694,7 @@
+ rm -f testiconv.*
+ echo '#include <iconv.h>' > testiconv.cpp
+ echo 'int main(int argc, char** argv) { iconv_t cd; return iconv (cd,
(const char **) 0, 0, 0, 0); } ' >> testiconv.cpp
+- if test -z "`${CXX} testiconv.cpp -c 2>&1`" ; then
++ if test -z "`${CXX} ${CPPFLAGS} testiconv.cpp -c 2>&1`" ; then
+ { $as_echo "$as_me:${as_lineno-$LINENO}: result: using
ICONV_CPP_CONST=\"const\"" >&5
+ $as_echo "using ICONV_CPP_CONST=\"const\"" >&6; }
+ ICONV_CPP_CONST="const"
+@@ -21232,10 +21232,10 @@
if { test -x "$ncdump"; }; then
{ $as_echo "$as_me:${as_lineno-$LINENO}: checking libnetcdf version
with $ncdump" >&5
$as_echo_n "checking libnetcdf version with $ncdump... " >&6; }
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