From dc88181eeb81690d7316e81132feaeb98f57d7a8 Mon Sep 17 00:00:00 2001
From: Eric Coissac <eric.coissac@metabarcoding.org>
Date: Fri, 12 Apr 2019 14:55:05 +0200
Subject: [PATCH] Add a --cobitools3 options to setup.py

---
 setup.py | 58 +++++++++++++++++++++++++++++++++++++++++++++++++++++++-
 1 file changed, 57 insertions(+), 1 deletion(-)

diff --git a/setup.py b/setup.py
index d03d3f0..908df2f 100755
--- a/setup.py
+++ b/setup.py
@@ -14,6 +14,58 @@ import os.path
 from distutils import log
 from distutils.extension import Extension
 
+from distutils.dist import Distribution as ori_Distribution
+
+class Distribution(ori_Distribution):
+    
+    def __init__(self,attrs=None):
+        self.cobitools3=attrs['cobitools3']
+        
+        ori_Distribution.__init__(self, attrs)
+        
+        self.global_options.insert(0,('cobitools3', None, "intall location of the C library"
+                                     ))
+
+from distutils.command.build import build as build_ori
+from distutils.core import Command
+
+class build_clib(Command):
+    user_options=[]
+    
+    def initialize_options(self):
+        self.clib_dir=self.distribution.cobitools3
+    
+    def finalize_options(self):
+        if self.clib_dir is None:
+            self.clib_dir=get_python_lib()
+    
+    def run(self):
+        log.info("Build the build/cobject directory")
+        try:
+            os.mkdir("build")
+        except OSError:
+            pass
+        try:
+            os.mkdir("build/cobject")
+        except OSError:
+            pass
+        
+        oldwd = os.getcwd()
+        os.chdir("build/cobject")
+        install_clibdir_option="-DPYTHONLIB:STRING='%s'" % self.clib_dir
+        log.info("Run CMake")
+        subprocess.call(['cmake', install_clibdir_option, '../../src'])
+        log.info("Compile the shared C library")
+        subprocess.call(['make','install'])   # temporary fix but should be in src
+        os.chdir(oldwd)
+        
+
+class build(build_ori):
+    def run(self):
+        self.run_command("build_clib")
+        build_ori.run(self)
+
+
 sys.path.append(os.path.abspath("python"))
 
 def findPackage(root,base=None):
@@ -73,7 +125,7 @@ REQUIRES  = ['Cython>=0.24',
 os.environ['CFLAGS'] = '-O3 -Wall -I "src" -I "src/libecoPCR" -I "src/libjson"'
 
 #install_dependencies(REQUIRES)
-RunMake()
+#RunMake()
 
 from Cython.Build import cythonize
 
@@ -133,6 +185,10 @@ setup(name=PACKAGE,
       license=LICENSE,
       url=URL,
       ext_modules=xx,
+      distclass=Distribution,
+      cmdclass={'build': build,
+                'build_clib': build_clib},
+      cobitools3=get_python_lib(),
       packages = findPackage('python'),
       package_dir = {"" : "python"},
       scripts = ['scripts/obi']