Adding R port.

ports/r/nacl.patch

+diff --git a/configure b/configure
+index adab221..f925f57 100755
+--- a/configure
++++ b/configure
+@@ -9547,7 +9547,8 @@ irix5* | irix6* | nonstopux*)
+   ;;
+ 
+ # This must be Linux ELF.
+-linux* | k*bsd*-gnu)
++# Patched by naclports using patch_configure.py
++linux* | k*bsd*-gnu | nacl*)
+   lt_cv_deplibs_check_method=pass_all
+   ;;
+ 
+@@ -14374,6 +14375,18 @@ uts4*)
+   shlibpath_var=LD_LIBRARY_PATH
+   ;;
+ 
++nacl)
++  # Patched by naclports using patch_configure.py
++  if libc_so=`$CC -print-file-name=libc.so` && [ "$libc_so" != libc.so ]; then
++    dynamic_linker="GNU/NaCl ld.so"
++    version_type=linux
++    library_names_spec='${libname}${release}${shared_ext}$versuffix ${libname}${release}${shared_ext}${major} ${libname}${shared_ext}'
++    soname_spec='${libname}${release}${shared_ext}$major'
++  else
++    dynamic_linker=no
++  fi
++  ;;
++
+ *)
+   dynamic_linker=no
+   ;;
+@@ -17820,6 +17833,18 @@ uts4*)
+   shlibpath_var=LD_LIBRARY_PATH
+   ;;
+ 
++nacl)
++  # Patched by naclports using patch_configure.py
++  if libc_so=`$CC -print-file-name=libc.so` && [ "$libc_so" != libc.so ]; then
++    dynamic_linker="GNU/NaCl ld.so"
++    version_type=linux
++    library_names_spec='${libname}${release}${shared_ext}$versuffix ${libname}${release}${shared_ext}${major} ${libname}${shared_ext}'
++    soname_spec='${libname}${release}${shared_ext}$major'
++  else
++    dynamic_linker=no
++  fi
++  ;;
++
+ *)
+   dynamic_linker=no
+   ;;
+@@ -20292,6 +20317,18 @@ uts4*)
+   shlibpath_var=LD_LIBRARY_PATH
+   ;;
+ 
++nacl)
++  # Patched by naclports using patch_configure.py
++  if libc_so=`$CC -print-file-name=libc.so` && [ "$libc_so" != libc.so ]; then
++    dynamic_linker="GNU/NaCl ld.so"
++    version_type=linux
++    library_names_spec='${libname}${release}${shared_ext}$versuffix ${libname}${release}${shared_ext}${major} ${libname}${shared_ext}'
++    soname_spec='${libname}${release}${shared_ext}$major'
++  else
++    dynamic_linker=no
++  fi
++  ;;
++
+ *)
+   dynamic_linker=no
+   ;;
+@@ -20896,7 +20933,7 @@ fi
+ done
+ 
+   r_save_LIBS="${LIBS}"
+-  LIBS=
++#  LIBS=
+   ## don't use the cached value as we need to rebuild LIBS
+   unset ac_cv_lib_readline_rl_callback_read_char
+   { $as_echo "$as_me:${as_lineno-$LINENO}: checking for rl_callback_read_char in -lreadline" >&5
+@@ -23603,6 +23640,7 @@ for arg in ${FLIBS}; do
+ done
+ FLIBS="${flibs}"
+ fi
++FLIBS=-lgfortran
+ 
+ if test -z "$FLIBS_IN_SO"; then
+   FLIBS_IN_SO=${FLIBS}
+@@ -23619,7 +23657,7 @@ if ${ac_cv_f77_dummy_main+:} false; then :
+   $as_echo_n "(cached) " >&6
+ else
+   ac_f77_dm_save_LIBS=$LIBS
+- LIBS="$LIBS $FLIBS"
++ LIBS="$FLIBS $LIBS"
+  ac_fortran_dm_var=F77_DUMMY_MAIN
+  ac_ext=c
+ ac_cpp='$CPP $CPPFLAGS'
+@@ -38391,6 +38429,18 @@ uts4*)
+   shlibpath_var=LD_LIBRARY_PATH
+   ;;
+ 
++nacl)
++  # Patched by naclports using patch_configure.py
++  if libc_so=`$CC -print-file-name=libc.so` && [ "$libc_so" != libc.so ]; then
++    dynamic_linker="GNU/NaCl ld.so"
++    version_type=linux
++    library_names_spec='${libname}${release}${shared_ext}$versuffix ${libname}${release}${shared_ext}${major} ${libname}${shared_ext}'
++    soname_spec='${libname}${release}${shared_ext}$major'
++  else
++    dynamic_linker=no
++  fi
++  ;;
++
+ *)
+   dynamic_linker=no
+   ;;
+diff --git a/src/include/Defn.h b/src/include/Defn.h
+index 6806957..ae813bc 100644
+--- a/src/include/Defn.h
++++ b/src/include/Defn.h
+@@ -194,6 +194,9 @@ extern void R_WaitEvent(void);
+ # include <limits.h>
+ #endif
+ 
++#if defined(__native_client__)
++# define HAVE_DECL_SIZE_MAX 1
++#endif
+ #if defined HAVE_DECL_SIZE_MAX && HAVE_DECL_SIZE_MAX
+   typedef size_t R_size_t;
+ # define R_SIZE_T_MAX SIZE_MAX
+diff --git a/src/library/Makefile.in b/src/library/Makefile.in
+index 0fc2c27..43e918f 100644
+--- a/src/library/Makefile.in
++++ b/src/library/Makefile.in
+@@ -15,7 +15,8 @@ DISTFILES = Makefile.in Makefile.win
+ 
+ SUBDIRS = profile $(R_PKGS_BASE) translations Recommended
+ 
+-R_EXE = $(top_builddir)/bin/R --vanilla --slave
++#R_EXE = $(top_builddir)/bin/R --vanilla --slave
++R_EXE = R --vanilla --slave
+ 
+ .SUFFIXES: .inn .Rdts .Rdh
+ 
+@@ -38,7 +39,7 @@ R:
+          (cd $${pkg} && $(MAKE) all) || exit 1; \
+        done
+        @if test -z "$(R_NO_BASE_COMPILE)"; then \
+-         for pkg in base tools; do \
++         for pkg in tools; do \
+            (cd $${pkg} && $(MAKE) mklazycomp) || exit 1; \
+          done; \
+        else \
+@@ -49,7 +50,7 @@ R:
+        @for pkg in $(R_PKGS_BASE1); do \
+          (cd $${pkg} && $(MAKE) all) || exit 1; \
+        done
+-       @(cd base && $(MAKE) mkdesc)
++       #@(cd base && $(MAKE) mkdesc)
+        @$(ECHO) "tools:::.vinstall_package_descriptions_as_RDS(\"$(top_builddir)/library\", \"$(R_PKGS_BASE)\")" | \
+          R_DEFAULT_PACKAGES=tools LC_ALL=C $(R_EXE) > /dev/null
+        @$(ECHO) "installing parsed NAMESPACE files"
+diff --git a/src/library/base/Makefile.in b/src/library/base/Makefile.in
+index 87e706f..d574324 100644
+--- a/src/library/base/Makefile.in
++++ b/src/library/base/Makefile.in
+@@ -17,7 +17,8 @@ pkg = base
+ 
+ RSRC = `LC_COLLATE=C ls $(srcdir)/R/*.R $(srcdir)/R/$(R_OSTYPE)/*.R`
+ 
+-R_EXE = $(top_builddir)/bin/R --vanilla --slave
++#R_EXE = $(top_builddir)/bin/R --vanilla --slave
++R_EXE = R --vanilla --slave
+ 
+ ## For people who do make -C ../src/library/base
+ update:
+diff --git a/src/library/compiler/Makefile.in b/src/library/compiler/Makefile.in
+index 18fe856..17a2110 100644
+--- a/src/library/compiler/Makefile.in
++++ b/src/library/compiler/Makefile.in
+@@ -15,7 +15,8 @@ DISTFILES = DESCRIPTION.in Makefile.in Makefile.win NAMESPACE
+ 
+ pkg = compiler
+ 
+-R_EXE = $(top_builddir)/bin/R --vanilla --slave
++#R_EXE = $(top_builddir)/bin/R --vanilla --slave
++R_EXE = R --vanilla --slave
+ 
+ RSRC = `LC_COLLATE=C ls $(srcdir)/R/*.R`
+ DEFPKGS = NULL
+diff --git a/src/library/datasets/Makefile.in b/src/library/datasets/Makefile.in
+index 8f12675..440da1c 100644
+--- a/src/library/datasets/Makefile.in
++++ b/src/library/datasets/Makefile.in
+@@ -15,7 +15,8 @@ DISTFILES = DESCRIPTION.in Makefile.in Makefile.win NAMESPACE
+ 
+ pkg = datasets
+ 
+-R_EXE = $(top_builddir)/bin/R --vanilla --slave
++#R_EXE = $(top_builddir)/bin/R --vanilla --slave
++R_EXE = R --vanilla --slave
+ 
+ all: Makefile DESCRIPTION
+        @$(ECHO) "building package '$(pkg)'"
+@@ -26,8 +27,8 @@ all: Makefile DESCRIPTION
+          $(INSTALL_DATA) $${f} $(top_builddir)/library/$(pkg)/data; \
+        done
+        @rm -f $(top_builddir)/library/$(pkg)/data/Rdata.*
+-       @$(ECHO) "tools:::data2LazyLoadDB(\"$(pkg)\", compress=3)" | \
+-         R_DEFAULT_PACKAGES=NULL LC_ALL=C $(R_EXE) > /dev/null
++       #@$(ECHO) "tools:::data2LazyLoadDB(\"$(pkg)\", compress=3)" | \
++       #  R_DEFAULT_PACKAGES=NULL LC_ALL=C $(R_EXE) > /dev/null
+        @$(INSTALL_DATA) $(srcdir)/data/morley.tab \
+          $(top_builddir)/library/$(pkg)/data
+ 
+diff --git a/src/library/grDevices/Makefile.in b/src/library/grDevices/Makefile.in
+index 12a3650..3aef427 100644
+--- a/src/library/grDevices/Makefile.in
++++ b/src/library/grDevices/Makefile.in
+@@ -14,7 +14,8 @@ include $(top_builddir)/Makeconf
+ distdir = $(top_builddir)/$(PACKAGE)-$(VERSION)/$(subdir)
+ DISTFILES = DESCRIPTION.in Makefile.in Makefile.win NAMESPACE
+ 
+-R_EXE = $(top_builddir)/bin/R --vanilla --slave
++#R_EXE = $(top_builddir)/bin/R --vanilla --slave
++R_EXE = R --vanilla --slave
+ 
+ RSRC = `LC_COLLATE=C ls $(srcdir)/R/*.R $(srcdir)/R/$(R_OSTYPE)/*.R`
+ INSTDIRS = afm enc icc
+diff --git a/src/library/graphics/Makefile.in b/src/library/graphics/Makefile.in
+index 052730e..0ba36d4 100644
+--- a/src/library/graphics/Makefile.in
++++ b/src/library/graphics/Makefile.in
+@@ -14,7 +14,8 @@ include $(top_builddir)/Makeconf
+ distdir = $(top_builddir)/$(PACKAGE)-$(VERSION)/$(subdir)
+ DISTFILES = DESCRIPTION.in Makefile.in Makefile.win NAMESPACE
+ 
+-R_EXE = $(top_builddir)/bin/R --vanilla --slave
++#R_EXE = $(top_builddir)/bin/R --vanilla --slave
++R_EXE = R --vanilla --slave
+ 
+ RSRC = `LC_COLLATE=C ls $(srcdir)/R/*.R`
+ DEFPKGS = NULL
+diff --git a/src/library/grid/Makefile.in b/src/library/grid/Makefile.in
+index 977266b..2f6df96 100644
+--- a/src/library/grid/Makefile.in
++++ b/src/library/grid/Makefile.in
+@@ -18,7 +18,8 @@ pkg = grid
+ RSRC = `LC_COLLATE=C ls $(srcdir)/R/*.R`
+ INSTDIRS = doc
+ 
+-R_EXE = $(top_builddir)/bin/R --vanilla --slave
++#R_EXE = $(top_builddir)/bin/R --vanilla --slave
++R_EXE = R --vanilla --slave
+ DEFPKGS = NULL
+ 
+ all: Makefile DESCRIPTION
+diff --git a/src/library/methods/Makefile.in b/src/library/methods/Makefile.in
+index 256fddc..96ff731 100644
+--- a/src/library/methods/Makefile.in
++++ b/src/library/methods/Makefile.in
+@@ -16,7 +16,8 @@ pkg = methods
+ 
+ RSRC = `LC_COLLATE=C ls $(srcdir)/R/*.R`
+ 
+-R_EXE = $(top_builddir)/bin/R --vanilla --slave
++#R_EXE = $(top_builddir)/bin/R --vanilla --slave
++R_EXE = R --vanilla --slave
+ EXTRAS = @BYTE_COMPILE_PACKAGES_TRUE@ R_COMPILE_PKGS=1 R_COMPILER_SUPPRESS_ALL=1
+ 
+ all: Makefile DESCRIPTION
+diff --git a/src/library/parallel/Makefile.in b/src/library/parallel/Makefile.in
+index 1e5e9a1..6fba37e 100644
+--- a/src/library/parallel/Makefile.in
++++ b/src/library/parallel/Makefile.in
+@@ -18,7 +18,8 @@ pkg = parallel
+ RSRC = `LC_COLLATE=C ls $(srcdir)/R/*.R $(srcdir)/R/$(R_OSTYPE)/*.R`
+ INSTDIRS = doc
+ 
+-R_EXE = $(top_builddir)/bin/R --vanilla --slave
++#R_EXE = $(top_builddir)/bin/R --vanilla --slave
++R_EXE = R --vanilla --slave
+ DEFPKGS = NULL
+ 
+ all: Makefile DESCRIPTION
+diff --git a/src/library/parallel/src/fork.c b/src/library/parallel/src/fork.c
+index 551fbc7..4ddb7dc 100644
+--- a/src/library/parallel/src/fork.c
++++ b/src/library/parallel/src/fork.c
+@@ -228,7 +228,9 @@ static void setup_sig_handler() {
+ /* sigaction is not viable, so use the "dumb" way
+    to clean up anything that comes our way */
+ static void setup_sig_handler() {
++#if !defined(__native_client__)
+     signal(SIGCHLD, parent_sig_handler);
++#endif
+ }
+ 
+ static void parent_sig_handler(int sig) {
+diff --git a/src/library/splines/Makefile.in b/src/library/splines/Makefile.in
+index 8e1eeb5..9cbc40a 100644
+--- a/src/library/splines/Makefile.in
++++ b/src/library/splines/Makefile.in
+@@ -18,7 +18,8 @@ pkg = splines
+ 
+ RSRC = `LC_COLLATE=C ls $(srcdir)/R/*.R`
+ 
+-R_EXE = $(top_builddir)/bin/R --vanilla --slave
++#R_EXE = $(top_builddir)/bin/R --vanilla --slave
++R_EXE = R --vanilla --slave
+ DEFPKGS = NULL
+ 
+ all: Makefile DESCRIPTION
+diff --git a/src/library/stats/Makefile.in b/src/library/stats/Makefile.in
+index 38bcdb8..b16ab24 100644
+--- a/src/library/stats/Makefile.in
++++ b/src/library/stats/Makefile.in
+@@ -18,7 +18,8 @@ pkg = stats
+ 
+ FRONTFILES = COPYRIGHTS.modreg SOURCES.ts
+ 
+-R_EXE = $(top_builddir)/bin/R --vanilla --slave
++#R_EXE = $(top_builddir)/bin/R --vanilla --slave
++R_EXE = R --vanilla --slave
+ 
+ RSRC = `LC_COLLATE=C ls $(srcdir)/R/*.R`
+ DEFPKGS = NULL
+diff --git a/src/library/stats4/Makefile.in b/src/library/stats4/Makefile.in
+index f995992..599a260 100644
+--- a/src/library/stats4/Makefile.in
++++ b/src/library/stats4/Makefile.in
+@@ -15,7 +15,8 @@ DISTFILES = DESCRIPTION.in Makefile.in Makefile.win NAMESPACE
+ 
+ pkg = stats4
+ 
+-R_EXE = $(top_builddir)/bin/R --vanilla --slave
++#R_EXE = $(top_builddir)/bin/R --vanilla --slave
++R_EXE = R --vanilla --slave
+ DEFPKGS = "methods,graphics,stats"
+ 
+ all: Makefile DESCRIPTION
+diff --git a/src/library/tcltk/Makefile.in b/src/library/tcltk/Makefile.in
+index ee983ff..bb01f29 100644
+--- a/src/library/tcltk/Makefile.in
++++ b/src/library/tcltk/Makefile.in
+@@ -15,7 +15,8 @@ DISTFILES = DESCRIPTION.in Makefile.in Makefile.win NAMESPACE
+ 
+ pkg = tcltk
+ 
+-R_EXE = $(top_builddir)/bin/R --vanilla --slave
++#R_EXE = $(top_builddir)/bin/R --vanilla --slave
++R_EXE = R --vanilla --slave
+ 
+ RSRC = `LC_COLLATE=C ls $(srcdir)/R/*.R $(srcdir)/R/$(R_OSTYPE)/zzz.R`
+ DEFPKGS = NULL
+diff --git a/src/library/tools/Makefile.in b/src/library/tools/Makefile.in
+index fcbd3eb..5081f20 100644
+--- a/src/library/tools/Makefile.in
++++ b/src/library/tools/Makefile.in
+@@ -17,7 +17,8 @@ pkg = tools
+ 
+ RSRC = `LC_COLLATE=C ls $(srcdir)/R/*.R`
+ 
+-R_EXE = $(top_builddir)/bin/R --vanilla --slave
++#R_EXE = $(top_builddir)/bin/R --vanilla --slave
++R_EXE = R --vanilla --slave
+ 
+ ## For people who do make -C ../src/library/tools
+ update:
+diff --git a/src/library/utils/Makefile.in b/src/library/utils/Makefile.in
+index a15cd28..8890014 100644
+--- a/src/library/utils/Makefile.in
++++ b/src/library/utils/Makefile.in
+@@ -15,7 +15,8 @@ DISTFILES = DESCRIPTION.in Makefile.in Makefile.win NAMESPACE
+ 
+ pkg = utils
+ 
+-R_EXE = $(top_builddir)/bin/R --vanilla --slave
++#R_EXE = $(top_builddir)/bin/R --vanilla --slave
++R_EXE = R --vanilla --slave
+ 
+ RSRC = `LC_COLLATE=C ls $(srcdir)/R/*.R $(srcdir)/R/$(R_OSTYPE)/*.R`
+ INSTDIRS = Sweave doc misc
+diff --git a/src/unix/Makefile.in b/src/unix/Makefile.in
+index e77ad01..6690f28 100644
+--- a/src/unix/Makefile.in
++++ b/src/unix/Makefile.in
+@@ -65,7 +65,7 @@ maintainer-clean: distclean
+ ## we need to build at install time to capture the correct 'rhome'
+ install-Rscript:
+        $(CC) $(ALL_CPPFLAGS) $(ALL_CFLAGS) $(LDFLAGS) -DR_HOME='"$(rhome)"' \
+-         -o Rscript $(srcdir)/Rscript.c
++         -o Rscript $(srcdir)/Rscript.c $(LIBS)
+        @$(MKINSTALLDIRS) "$(DESTDIR)$(Rexecbindir)"
+        @$(INSTALL_PROGRAM) Rscript "$(DESTDIR)$(Rexecbindir)/Rscript"
+ ## substitute at install time to allow 'prefix' to be overridden