1 files changed, 77 insertions, 0 deletions
diff --git a/sci-libs/cctbx/files/2010.03.29.2334-clipper.patch b/sci-libs/cctbx/files/2010.03.29.2334-clipper.patch
new file mode 100644
index 000000000000..8830dd8a054e
--- /dev/null
+++ b/sci-libs/cctbx/files/2010.03.29.2334-clipper.patch
@@ -0,0 +1,77 @@
+diff --git a/cctbx_sources/clipper_adaptbx/SConscript b/cctbx_sources/clipper_adaptbx/SConscript
+index 9cce49e..1046ed0 100644
+--- a/cctbx_sources/clipper_adaptbx/SConscript
++++ b/cctbx_sources/clipper_adaptbx/SConscript
+@@ -1,56 +1,13 @@
+ import libtbx.load_env
+ Import("env_base", "env_etc")
+ 
+-env_etc.clipper_dist = libtbx.env.dist_path("clipper")
+-env_etc.clipper_include = env_etc.clipper_dist
+-
+ env = env_base.Clone(
+   SHLINKFLAGS=env_etc.shlinkflags,
+   LIBS=env_etc.libm)
+-env.Prepend(CPPPATH=[env_etc.clipper_include])
+-
+-if (env_etc.static_libraries): builder = env.StaticLibrary
+-else:                          builder = env.SharedLibrary
+-builder(target='#lib/clipper',
+-  source = ["../clipper/clipper/core/"+file_name for file_name in """
+-  atomsf.cpp
+-  cell.cpp
+-  clipper_memory.cpp
+-  clipper_message.cpp
+-  clipper_stats.cpp
+-  clipper_types.cpp
+-  clipper_util.cpp
+-  container.cpp
+-  container_hkl.cpp
+-  container_map.cpp
+-  container_types.cpp
+-  coords.cpp
+-  derivs.cpp
+-  hkl_compute.cpp
+-  hkl_data.cpp
+-  hkl_datatypes.cpp
+-  hkl_info.cpp
+-  hkl_lookup.cpp
+-  hkl_operators.cpp
+-  map_interp.cpp
+-  map_utils.cpp
+-  nxmap.cpp
+-  nxmap_operator.cpp
+-  ramachandran.cpp
+-  resol_basisfn.cpp
+-  resol_fn.cpp
+-  resol_targetfn.cpp
+-  rotation.cpp
+-  spacegroup.cpp
+-  spacegroup_data.cpp
+-  symop.cpp
+-  xmap.cpp
+-""".split()])
+-# fftmap_sparse.cpp
+-# fftmap.cpp
+ 
+ env_exe = env.Clone()
+-env_exe.Prepend(LIBS=["clipper"])
++env_exe.Prepend(LIBS=["clipper-minimol","clipper-mmdb","clipper-cns","clipper-cif","clipper-contrib","clipper-ccp4","clipper-phs","clipper-core"])
++env_exe.Prepend(SHLINKFLAGS=["-Wl,--as-needed"])
+ 
+ exe = env_exe.Program(
+   target='#exe_dev/'+env["PROGPREFIX"]+'clipper.symtest'
+@@ -76,12 +33,10 @@ if (hasattr(env_etc, "cctbx_include")):
+     env_etc.include_registry.append(
+       env=env_clipper_boost_python_ext,
+       paths=[
+-        env_etc.clipper_include,
+         env_etc.libtbx_include,
+         env_etc.cctbx_include,
+         env_etc.scitbx_include,
+         env_etc.boost_adaptbx_include,
+-        env_etc.boost_include,
+         env_etc.python_include])
+     Export("env_clipper_boost_python_ext")
+-    SConscript("clipper/SConscript")
++