BLD: remove cython c source from git

Instead generate at build time. The generated sources are still part of
the sdist.
tools/cythonize.py is copied from SciPy with small changes to the
configuration.

2 files changed, 200 insertions, 1 deletions

diff --git a/tools/cythonize.py b/tools/cythonize.py
new file mode 100755
index 000000000..4ab10a058
--- /dev/null
+++ b/tools/cythonize.py
@@ -0,0 +1,199 @@
+#!/usr/bin/env python
+""" cythonize
+
+Cythonize pyx files into C files as needed.
+
+Usage: cythonize [root_dir]
+
+Default [root_dir] is 'numpy'.
+
+Checks pyx files to see if they have been changed relative to their
+corresponding C files.  If they have, then runs cython on these files to
+recreate the C files.
+
+The script thinks that the pyx files have changed relative to the C files
+by comparing hashes stored in a database file.
+
+Simple script to invoke Cython (and Tempita) on all .pyx (.pyx.in)
+files; while waiting for a proper build system. Uses file hashes to
+figure out if rebuild is needed.
+
+For now, this script should be run by developers when changing Cython files
+only, and the resulting C files checked in, so that end-users (and Python-only
+developers) do not get the Cython/Tempita dependencies.
+
+Originally written by Dag Sverre Seljebotn, and copied here from:
+
+https://raw.github.com/dagss/private-scipy-refactor/cythonize/cythonize.py
+
+Note: this script does not check any of the dependent C libraries; it only
+operates on the Cython .pyx files.
+"""
+
+from __future__ import division, print_function, absolute_import
+
+import os
+import re
+import sys
+import hashlib
+import subprocess
+
+HASH_FILE = 'cythonize.dat'
+DEFAULT_ROOT = 'numpy'
+VENDOR = 'NumPy'
+
+# WindowsError is not defined on unix systems
+try:
+    WindowsError
+except NameError:
+    WindowsError = None
+
+#
+# Rules
+#
+def process_pyx(fromfile, tofile):
+    try:
+        from Cython.Compiler.Version import version as cython_version
+        from distutils.version import LooseVersion
+        if LooseVersion(cython_version) < LooseVersion('0.19'):
+            raise Exception('Building %s requires Cython >= 0.19' % VENDOR)
+
+    except ImportError:
+        pass
+
+    flags = ['--fast-fail']
+    if tofile.endswith('.cxx'):
+        flags += ['--cplus']
+
+    try:
+        try:
+            r = subprocess.call(['cython'] + flags + ["-o", tofile, fromfile])
+            if r != 0:
+                raise Exception('Cython failed')
+        except OSError:
+            # There are ways of installing Cython that don't result in a cython
+            # executable on the path, see gh-2397.
+            r = subprocess.call([sys.executable, '-c',
+                                 'import sys; from Cython.Compiler.Main import '
+                                 'setuptools_main as main; sys.exit(main())'] + flags +
+                                 ["-o", tofile, fromfile])
+            if r != 0:
+                raise Exception('Cython failed')
+    except OSError:
+        raise OSError('Cython needs to be installed')
+
+def process_tempita_pyx(fromfile, tofile):
+    try:
+        try:
+            from Cython import Tempita as tempita
+        except ImportError:
+            import tempita
+    except ImportError:
+        raise Exception('Building %s requires Tempita: '
+                        'pip install --user Tempita' % VENDOR)
+    with open(fromfile, "r") as f:
+        tmpl = f.read()
+    pyxcontent = tempita.sub(tmpl)
+    assert fromfile.endswith('.pyx.in')
+    pyxfile = fromfile[:-len('.pyx.in')] + '.pyx'
+    with open(pyxfile, "w") as f:
+        f.write(pyxcontent)
+    process_pyx(pyxfile, tofile)
+
+rules = {
+    # fromext : function
+    '.pyx' : process_pyx,
+    '.pyx.in' : process_tempita_pyx
+    }
+#
+# Hash db
+#
+def load_hashes(filename):
+    # Return { filename : (sha1 of input, sha1 of output) }
+    if os.path.isfile(filename):
+        hashes = {}
+        with open(filename, 'r') as f:
+            for line in f:
+                filename, inhash, outhash = line.split()
+                hashes[filename] = (inhash, outhash)
+    else:
+        hashes = {}
+    return hashes
+
+def save_hashes(hash_db, filename):
+    with open(filename, 'w') as f:
+        for key, value in sorted(hash_db.items()):
+            f.write("%s %s %s\n" % (key, value[0], value[1]))
+
+def sha1_of_file(filename):
+    h = hashlib.sha1()
+    with open(filename, "rb") as f:
+        h.update(f.read())
+    return h.hexdigest()
+
+#
+# Main program
+#
+
+def normpath(path):
+    path = path.replace(os.sep, '/')
+    if path.startswith('./'):
+        path = path[2:]
+    return path
+
+def get_hash(frompath, topath):
+    from_hash = sha1_of_file(frompath)
+    to_hash = sha1_of_file(topath) if os.path.exists(topath) else None
+    return (from_hash, to_hash)
+
+def process(path, fromfile, tofile, processor_function, hash_db):
+    fullfrompath = os.path.join(path, fromfile)
+    fulltopath = os.path.join(path, tofile)
+    current_hash = get_hash(fullfrompath, fulltopath)
+    if current_hash == hash_db.get(normpath(fullfrompath), None):
+        print('%s has not changed' % fullfrompath)
+        return
+
+    orig_cwd = os.getcwd()
+    try:
+        os.chdir(path)
+        print('Processing %s' % fullfrompath)
+        processor_function(fromfile, tofile)
+    finally:
+        os.chdir(orig_cwd)
+    # changed target file, recompute hash
+    current_hash = get_hash(fullfrompath, fulltopath)
+    # store hash in db
+    hash_db[normpath(fullfrompath)] = current_hash
+
+
+def find_process_files(root_dir):
+    hash_db = load_hashes(HASH_FILE)
+    for cur_dir, dirs, files in os.walk(root_dir):
+        for filename in files:
+            in_file = os.path.join(cur_dir, filename + ".in")
+            if filename.endswith('.pyx') and os.path.isfile(in_file):
+                continue
+            for fromext, function in rules.items():
+                if filename.endswith(fromext):
+                    toext = ".c"
+                    with open(os.path.join(cur_dir, filename), 'rb') as f:
+                        data = f.read()
+                        m = re.search(br"^\s*#\s*distutils:\s*language\s*=\s*c\+\+\s*$", data, re.I|re.M)
+                        if m:
+                            toext = ".cxx"
+                    fromfile = filename
+                    tofile = filename[:-len(fromext)] + toext
+                    process(cur_dir, fromfile, tofile, function, hash_db)
+                    save_hashes(hash_db, HASH_FILE)
+
+def main():
+    try:
+        root_dir = sys.argv[1]
+    except IndexError:
+        root_dir = DEFAULT_ROOT
+    find_process_files(root_dir)
+
+
+if __name__ == '__main__':
+    main()
diff --git a/tools/travis-test.sh b/tools/travis-test.sh
index dfe244dca..df9dedeca 100755
--- a/tools/travis-test.sh
+++ b/tools/travis-test.sh
@@ -49,7 +49,7 @@ setup_chroot()
   sudo chroot $DIR bash -c "apt-get update"
   sudo chroot $DIR bash -c "apt-get install -qq -y --force-yes eatmydata"
   echo /usr/lib/libeatmydata/libeatmydata.so | sudo tee -a $DIR/etc/ld.so.preload
-  sudo chroot $DIR bash -c "apt-get install -qq -y --force-yes libatlas-dev libatlas-base-dev gfortran python3-dev python3-nose python3-pip"
+  sudo chroot $DIR bash -c "apt-get install -qq -y --force-yes libatlas-dev libatlas-base-dev gfortran python3-dev python3-nose python3-pip cython3 cython"
 }
 
 setup_bento()