sci-chemistry/pdb-extract: Drop old patch

(Portage version: 2.2.0_alpha101/cvs/Linux x86_64)

1 files changed, 0 insertions, 216 deletions

diff --git a/sci-chemistry/pdb-extract/files/respect-cflags-and-fix-install.patch b/sci-chemistry/pdb-extract/files/respect-cflags-and-fix-install.patch
deleted file mode 100644
index e383615cde48..000000000000
--- a/sci-chemistry/pdb-extract/files/respect-cflags-and-fix-install.patch
+++ /dev/null
@@ -1,216 +0,0 @@
-diff -ur -x Makefile.platform pdb-extract-v1.700-prod-src.orig/connect-v2.2/Makefile pdb-extract-v1.700-prod-src/connect-v2.2/Makefile
---- pdb-extract-v1.700-prod-src.orig/connect-v2.2/Makefile	2005-07-13 06:22:23.000000000 -0700
-+++ pdb-extract-v1.700-prod-src/connect-v2.2/Makefile	2005-12-18 23:34:56.000000000 -0800
-@@ -31,22 +31,22 @@
- #----------------------------------------------------------------------------
- include ../etc/Makefile.platform
- 
--LIBS    = $(LIBINSTDIR)/libciffileobj.a \
--          $(LIBINSTDIR)/libtblindex.a \
--          $(LIBINSTDIR)/libcifobj.a \
--          $(LIBINSTDIR)/libistable.a \
--          $(LIBINSTDIR)/libregex.a \
--          $(LIBINSTDIR)/libcifstr.a \
--          $(LIBINSTDIR)/libndbmisc.a
-+LIBS    = $(LIBDIR)/libciffileobj.a \
-+          $(LIBDIR)/libtblindex.a \
-+          $(LIBDIR)/libcifobj.a \
-+          $(LIBDIR)/libistable.a \
-+          $(LIBDIR)/libregex.a \
-+          $(LIBDIR)/libcifstr.a \
-+          $(LIBDIR)/libndbmisc.a
- 
- LIBSH   = $(LIBINSTDIR)/libndbhtml.a \
--          $(LIBINSTDIR)/libciffileobj.a \
--          $(LIBINSTDIR)/libtblindex.a \
--          $(LIBINSTDIR)/libcifobj.a \
--          $(LIBINSTDIR)/libistable.a \
--          $(LIBINSTDIR)/libregex.a \
--          $(LIBINSTDIR)/libcifstr.a \
--          $(LIBINSTDIR)/libndbmisc.a
-+          $(LIBDIR)/libciffileobj.a \
-+          $(LIBDIR)/libtblindex.a \
-+          $(LIBDIR)/libcifobj.a \
-+          $(LIBDIR)/libistable.a \
-+          $(LIBDIR)/libregex.a \
-+          $(LIBDIR)/libcifstr.a \
-+          $(LIBDIR)/libndbmisc.a
- 
- #----------------------------------------------------------------------------
- #  Target definitions.
-@@ -261,10 +261,10 @@
- 	$(CCC) $(C++FLAGS) -o $@  $(OBJ7) $(OBJS4) $(LIBS) $(LDFLAGS) -lm
- 
- $(TARGET8): $(OBJ8)
--	$(CCC) $(C++FLAGS) -o $@  $(OBJ8) $(LIBINSTDIR)/libndbmisc.a $(LDFLAGS) -lm
-+	$(CCC) $(C++FLAGS) -o $@  $(OBJ8) $(LIBDIR)/libndbmisc.a $(LDFLAGS) -lm
- 
- $(TARGET9): $(OBJ9)
--	$(CCC) $(C++FLAGS) -o $@  $(OBJ9) $(LIBINSTDIR)/libndbmisc.a $(LDFLAGS) -lm
-+	$(CCC) $(C++FLAGS) -o $@  $(OBJ9) $(LIBDIR)/libndbmisc.a $(LDFLAGS) -lm
- 
- $(TARGET10): $(LIBSH) $(HFILES) $(NDBLIB) $(OBJ10) $(OBJS6)
- 	$(CCC) $(C++FLAGS) -o $@  $(OBJ10) $(OBJS6) $(NDBLIB) $(LIBSH) $(LDFLAGS) -lm
-diff -ur -x Makefile.platform pdb-extract-v1.700-prod-src.orig/etc/make.platform.gnu3 pdb-extract-v1.700-prod-src/etc/make.platform.gnu3
---- pdb-extract-v1.700-prod-src.orig/etc/make.platform.gnu3	2005-07-13 06:22:18.000000000 -0700
-+++ pdb-extract-v1.700-prod-src/etc/make.platform.gnu3	2005-12-18 23:42:06.000000000 -0800
-@@ -6,6 +6,8 @@
- ##
- ##########################################################################
- 
-+LIBDIR= /usr/lib
-+
- #-----Lexer and Parser section-------------------------------------------#
- 
- # Lexer executable
-@@ -89,7 +91,7 @@
- DEFINES=$(GDEFINES) $(LDEFINES)
- 
- ## Global include directories
--GINCLUDES= 
-+GINCLUDES= -I/usr/include/rcsb
- 
- # Collect all include directories from global include directories and
- # include directories specified in module makefile
-@@ -107,8 +109,8 @@
- C_WARNINGS=$(WARNINGS)
- 
- # C compiler flags
--CFLAGS=$(OPT) $(ABI) $(ANSI_C_FLAG) $(C_WARNINGS) $(DEFINES) $(INCLUDES)
--CFLAGS_NONANSI=$(OPT) $(ABI) $(NON_ANSI_C_FLAG) $(C_WARNINGS) $(DEFINES) \
-+CFLAGS=$(C_OPT) $(ABI) $(ANSI_C_FLAG) $(C_WARNINGS) $(DEFINES) $(INCLUDES)
-+CFLAGS_NONANSI=$(C_OPT) $(ABI) $(NON_ANSI_C_FLAG) $(C_WARNINGS) $(DEFINES) \
-                $(INCLUDES) 
- 
- ## C++ compiler
-@@ -128,9 +130,9 @@
- EXT=C
- 
- # C++ compiler flags
--C++FLAGS=$(OPT) $(ABI) $(ANSI_C_PLUS_FLAG) $(C_PLUS_WARNINGS) $(DEFINES) \
-+C++FLAGS=$(CCC_OPT) $(ABI) $(ANSI_C_PLUS_FLAG) $(C_PLUS_WARNINGS) $(DEFINES) \
-         $(INCLUDES)
--C++FLAGS_NONANSI=$(OPT) $(ABI) $(NON_ANSI_C_PLUS_FLAG) $(C_PLUS_WARNINGS) \
-+C++FLAGS_NONANSI=$(CCC_OPT) $(ABI) $(NON_ANSI_C_PLUS_FLAG) $(C_PLUS_WARNINGS) \
-                  $(DEFINES) $(INCLUDES)
- # C++FLAGS_RELAXED should be set to avoid warnings reported by third party
- # source code that is not maintained by PDB
-@@ -144,7 +146,7 @@
- F77=f77
- 
- # Fortran compiler flags
--FFLAGS=-O -u
-+FFLAGS=$(F_OPT)
- 
- # Additional Fortran libraries
- F77LIBS=
-diff -ur -x Makefile.platform pdb-extract-v1.700-prod-src.orig/etc/make.platform.gnu4 pdb-extract-v1.700-prod-src/etc/make.platform.gnu4
---- pdb-extract-v1.700-prod-src.orig/etc/make.platform.gnu4	2005-07-13 06:22:18.000000000 -0700
-+++ pdb-extract-v1.700-prod-src/etc/make.platform.gnu4	2005-12-18 23:33:50.000000000 -0800
-@@ -6,6 +6,8 @@
- ##
- ##########################################################################
- 
-+LIBDIR= /usr/lib
-+
- #-----Lexer and Parser section-------------------------------------------#
- 
- # Lexer executable
-@@ -34,7 +36,7 @@
- 
- # WARNINGS_AS_ERRORS defines flags to instruct all compilers to treat all
- # warnings as errors.
--WARNINGS_AS_ERRORS=-Werror
-+WARNINGS_AS_ERRORS=
- 
- # ALL_WARNINGS defines flags to instruct all compilers to report all
- # warnings.
-@@ -90,7 +92,7 @@
- DEFINES=$(GDEFINES) $(LDEFINES)
- 
- ## Global include directories
--GINCLUDES= 
-+GINCLUDES= -I/usr/include/rcsb
- 
- # Collect all include directories from global include directories and
- # include directories specified in module makefile
-@@ -108,8 +110,8 @@
- C_WARNINGS=$(WARNINGS)
- 
- # C compiler flags
--CFLAGS=$(OPT) $(ABI) $(ANSI_C_FLAG) $(C_WARNINGS) $(DEFINES) $(INCLUDES)
--CFLAGS_NONANSI=$(OPT) $(ABI) $(NON_ANSI_C_FLAG) $(C_WARNINGS) $(DEFINES) \
-+CFLAGS=$(C_OPT) $(ABI) $(ANSI_C_FLAG) $(C_WARNINGS) $(DEFINES) $(INCLUDES)
-+CFLAGS_NONANSI=$(C_OPT) $(ABI) $(NON_ANSI_C_FLAG) $(C_WARNINGS) $(DEFINES) \
-                $(INCLUDES) 
- 
- ## C++ compiler
-@@ -129,9 +131,9 @@
- EXT=C
- 
- # C++ compiler flags
--C++FLAGS=$(OPT) $(ABI) $(ANSI_C_PLUS_FLAG) $(C_PLUS_WARNINGS) $(DEFINES) \
-+C++FLAGS=$(CCC_OPT) $(ABI) $(ANSI_C_PLUS_FLAG) $(C_PLUS_WARNINGS) $(DEFINES) \
-         $(INCLUDES)
--C++FLAGS_NONANSI=$(OPT) $(ABI) $(NON_ANSI_C_PLUS_FLAG) $(C_PLUS_WARNINGS) \
-+C++FLAGS_NONANSI=$(CCC_OPT) $(ABI) $(NON_ANSI_C_PLUS_FLAG) $(C_PLUS_WARNINGS) \
-                  $(DEFINES) $(INCLUDES)
- # C++FLAGS_RELAXED should be set to avoid warnings reported by third party
- # source code that is not maintained by PDB
-@@ -145,7 +147,7 @@
- F77=f77
- 
- # Fortran compiler flags
--FFLAGS=-O -u
-+FFLAGS=$(F_OPT)
- 
- # Additional Fortran libraries
- F77LIBS=
-diff -ur -x Makefile.platform pdb-extract-v1.700-prod-src.orig/Makefile pdb-extract-v1.700-prod-src/Makefile
---- pdb-extract-v1.700-prod-src.orig/Makefile	2005-07-13 06:22:16.000000000 -0700
-+++ pdb-extract-v1.700-prod-src/Makefile	2005-12-18 23:39:23.000000000 -0800
-@@ -22,10 +22,7 @@
- 
- DATADIRS = data pdb-extract-data
- 
--LIBDIRS =  misclib-v2.1 regex-v2.1 ciflib-common-v3.02 cifobj-common-v4.04 \
--           btree-obj-v3.1 cif-table-obj-v6.1 cifparse-obj-v6.3 \
--           htmllib-v3.1 connect-v2.2 filterlib-v8.2 $(EXTRACT) \
--           validation-v6.2 maxit-v8.2
-+LIBDIRS =  htmllib-v3.1 connect-v2.2 filterlib-v8.2 $(EXTRACT)
- 
- all:	compile
- 
-@@ -60,7 +57,7 @@
- 		echo "------------------------------------------------------------"; \
- 		echo "**** Making $$libdir ****"; \
- 		echo "------------------------------------------------------------"; \
--		(cd $$libdir && $(MAKE) -f $(MAKEFILE) "OPT=-O" install) || exit 1; \
-+		(cd $$libdir && $(MAKE) -f $(MAKEFILE) C_OPT="${CFLAGS}" CCC_OPT="${CXXFLAGS}" F_OPT="${FFLAGS}" install) || exit 1; \
- 	done
- 
- binary:
-diff -ur -x Makefile.platform pdb-extract-v1.700-prod-src.orig/pdb-extract-v1.7/Makefile pdb-extract-v1.700-prod-src/pdb-extract-v1.7/Makefile
---- pdb-extract-v1.700-prod-src.orig/pdb-extract-v1.7/Makefile	2005-07-13 06:22:24.000000000 -0700
-+++ pdb-extract-v1.700-prod-src/pdb-extract-v1.7/Makefile	2005-12-18 23:37:16.000000000 -0800
-@@ -27,13 +27,13 @@
- #----------------------------------------------------------------------------
- include ../etc/Makefile.platform
- 
--CIFLIBS = $(LIBINSTDIR)/libciffileobj.a \
--          $(LIBINSTDIR)/libcifobj.a \
--          $(LIBINSTDIR)/libcifstr.a \
--          $(LIBINSTDIR)/libistable.a \
--          $(LIBINSTDIR)/libregex.a \
--          $(LIBINSTDIR)/libtblindex.a \
--          $(LIBINSTDIR)/libndbmisc.a
-+CIFLIBS = $(LIBDIR)/libciffileobj.a \
-+          $(LIBDIR)/libcifobj.a \
-+          $(LIBDIR)/libcifstr.a \
-+          $(LIBDIR)/libistable.a \
-+          $(LIBDIR)/libregex.a \
-+          $(LIBDIR)/libtblindex.a \
-+          $(LIBDIR)/libndbmisc.a
- 
- # TARGET1, 2 is only for test
- TARGET1       = $(BIN)/FOtest1