add skeleton for compiled support package based on pybind11 and ducc0

.gitmodules

@@ -0,0 +1,3 @@
+[submodule "ducc0"]
+	path = external/ducc0
+	url = https://gitlab.mpcdf.mpg.de/mtr/ducc.git

README.md

@@ -8,4 +8,19 @@ mpirun -n 15 python -u src/python/commander4.py -p params/param_default.yml
 (The `-u` makes stdout unbuffered, which I have found to be necessary in order to make MPI programs print properly to the terminal).
 
 ## Compiling Ctypes libraries
-The code depends on C++ Ctypes libraries which are located in the `src/cpp/` directory. There should be a file named `src/cpp/compilation.sh` which contains the compilation procedure for all C++ files.
+The code depends on C++ Ctypes libraries which are located in the `src/cpp/` directory. There should be a file named `src/cpp/compilation.sh` which contains the compilation procedure for all C++ files.
+
+## Initializing the submodules
+Commander4 pulls in the ducc0 sources to make developing of C++ helper functions easier.
+
+To install this submodule directly when cloning the Commander4 repository you can do
+```
+git clone --recurse-submodules <Commander4 repo URL>
+```
+
+If you have already cloned Commander 4,  the easiest way is to go to the Commender4 directory
+and then do
+```
+git submodule init
+git submodule update
+```

cmdr4_support/cmdr4_support.cc

@@ -0,0 +1,15 @@
+#include <pybind11/pybind11.h>
+#include "utils_pymod.cc"
+
+using namespace cmdr4;
+
+PYBIND11_MODULE(PKGNAME, m)
+  {
+#define CMDR4_XSTRINGIFY(s) CMDR4_STRINGIFY(s)
+#define CMDR4_STRINGIFY(s) #s
+  m.attr("__version__") = CMDR4_XSTRINGIFY(PKGVERSION);
+#undef CMDR4_STRINGIFY
+#undef CMDR4_XSTRINGIFY
+
+  add_utils(m);
+  }

cmdr4_support/pyproject.toml

@@ -0,0 +1,24 @@
+[project]
+name = "cmdr4_support"
+description = "Compiled support code for Commander4"
+authors = [
+  {name = "Martin Reinecke", email = "[email protected]"},
+]
+readme = "README.md"
+license = {file = "LICENSE"}
+classifiers = [
+  "Intended Audience :: Science/Research",
+  "Topic :: Scientific/Engineering :: Mathematics",
+  "Topic :: Scientific/Engineering :: Physics",
+  "License :: OSI Approved :: GNU General Public License v2 or later (GPLv2+)",
+  "Operating System :: OS Independent",
+  "Programming Language :: C++",
+  "Programming Language :: Python",
+]
+requires-python = ">=3.8"
+dependencies = ["numpy>=1.17.0"]
+dynamic = ["version"]
+
+[build-system]
+requires = ["setuptools >= 40.6.0", "pybind11 >= 2.6.0", "numpy >= 1.17.0"]
+build-backend = "setuptools.build_meta"

cmdr4_support/setup.py

@@ -0,0 +1,132 @@
+import sys
+import os.path
+import itertools
+from glob import iglob
+import os
+
+from setuptools import setup, Extension
+import pybind11
+
+pkgname = 'cmdr4_support'
+version = '0.0.1'
+
+tmp = os.getenv("CMDR4_CFLAGS", "").split(" ")
+user_cflags = [x for x in tmp if x != ""]
+tmp = os.getenv("CMDR4_LFLAGS", "").split(" ")
+user_lflags = [x for x in tmp if x != ""]
+tmp = os.getenv("CMDR4_FLAGS", "").split(" ")
+tmp = [x for x in tmp if x != ""]
+user_cflags += tmp
+user_lflags += tmp
+
+compilation_strategy = os.getenv('CMDR4_OPTIMIZATION', 'native-strip')
+if compilation_strategy not in ['none', 'none-debug', 'none-strip', 'portable', 'portable-debug', 'portable-strip', 'native', 'native-debug', 'native-strip']:
+    raise RuntimeError('unknown compilation strategy')
+do_debug = compilation_strategy in ['none-debug', 'portable-debug', 'native-debug']
+do_strip = compilation_strategy in ['none-strip', 'portable-strip', 'native-strip']
+do_optimize = compilation_strategy not in ['none', 'none-debug', 'none-strip']
+do_native = compilation_strategy in ['native', 'native-debug', 'native-strip']
+
+def _print_env():
+    import platform
+    print("")
+    print("Build environment:")
+    print("Platform:     ", platform.platform())
+    print("Machine:      ", platform.machine())
+    print("System:       ", platform.system())
+    print("Architecture: ", platform.architecture())
+    print("")
+
+def _get_files_by_suffix(directory, suffix):
+    path = directory
+    iterable_sources = (iglob(os.path.join(root, '*.'+suffix))
+                        for root, dirs, files in os.walk(path))
+    return list(itertools.chain.from_iterable(iterable_sources))
+
+
+include_dirs = ['.', '../external/ducc0/src/',
+                pybind11.get_include(True),
+                pybind11.get_include(False)]
+
+extra_compile_args = ['-std=c++17', '-fvisibility=hidden']
+
+if do_debug:
+    extra_compile_args += ['-g']
+else:
+    extra_compile_args += ['-g0']
+
+if do_optimize:
+    extra_compile_args += ['-ffast-math',
+#                           '-ffp-contract=fast',
+#                           '-fno-math-errno',
+#                           '-freciprocal-math',
+#                           '-fassociative-math',
+#                           '-fno-signed-zeros',
+#                           '-fno-trapping-math',
+#                           '-fno-signaling-nans',
+#                           '-fcx-limited-range',
+#                           '-fexcess-precision=fast',
+#                           '-ffinite-math-only',
+                           '-O3']
+else:
+    extra_compile_args += ['-O0']
+
+if do_native:
+    extra_compile_args += ['-march=native']
+
+python_module_link_args = []
+
+define_macros = [("PKGNAME", pkgname),
+                 ("PKGVERSION", version)]
+
+if sys.platform == 'darwin':
+    extra_compile_args += ['-mmacosx-version-min=10.14', '-pthread']
+    python_module_link_args += ['-mmacosx-version-min=10.14', '-pthread']
+elif sys.platform == 'win32':
+    extra_compile_args = ['/EHsc', '/std:c++17']
+    if do_optimize:
+        extra_compile_args += ['/Ox']
+else:
+    if do_optimize:
+        extra_compile_args += ['-Wfatal-errors',
+                               '-Wfloat-conversion',
+                               '-W',
+                               '-Wall',
+                               '-Wstrict-aliasing',
+                               '-Wwrite-strings',
+                               '-Wredundant-decls',
+                               '-Woverloaded-virtual',
+                               '-Wcast-qual',
+                               '-Wcast-align',
+                               '-Wpointer-arith',
+                               '-Wnon-virtual-dtor',
+                               '-Wzero-as-null-pointer-constant']
+    extra_compile_args += ['-pthread']
+    python_module_link_args += ['-Wl,-rpath,$ORIGIN', '-pthread']
+    if do_native:
+        python_module_link_args += ['-march=native']
+    if do_strip:
+        python_module_link_args += ['-s']
+
+extra_compile_args += user_cflags
+python_module_link_args += user_lflags
+
+depfiles = (_get_files_by_suffix('.', 'h') +
+            _get_files_by_suffix('.', 'cc') +
+            ['setup.py'])
+
+extensions = [Extension(pkgname,
+                        language='c++',
+                        sources=['cmdr4_support.cc'],
+                        depends=depfiles,
+                        include_dirs=include_dirs,
+                        define_macros=define_macros,
+                        extra_compile_args=extra_compile_args,
+                        extra_link_args=python_module_link_args)]
+
+_print_env()
+
+setup(name=pkgname,
+      version=version,
+      ext_modules = extensions
+      )