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/usr/src/gcc-6/debian/patches/gdc-cross-install-location.diff is in gcc-6-source 6.4.0-17ubuntu1.

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--- a/src/libphobos/configure.ac
+++ b/src/libphobos/configure.ac
@@ -119,6 +119,8 @@
 AC_SUBST([DRUNTIME_SOVERSION])
 AC_SUBST([PHOBOS_SOVERSION])
 
+# trigger rebuild of the configure file
+
 # Set default flags (after DRUNTIME_WERROR!)
 if test -z "$DFLAGS"; then
     DFLAGS="-Wall $WERROR_FLAG -g -frelease -O2"
--- a/src/libphobos/m4/druntime.m4
+++ b/src/libphobos/m4/druntime.m4
@@ -78,7 +78,7 @@ AC_DEFUN([DRUNTIME_INSTALL_DIRECTORIES],
   AC_SUBST(toolexeclibdir)
 
   # Default case for install directory for D sources files.
-  gdc_include_dir='${libdir}/gcc/${target_alias}'/${d_gcc_ver}/include/d
+  gdc_include_dir='${libdir}/gcc-cross/${target_alias}'/${d_gcc_ver}/include/d
   AC_SUBST(gdc_include_dir)
 ])