obitools/obitools3
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Comment the install of the packages

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Eric Coissac
2019-04-12 13:03:53 +02:00
parent 7ba27b6a99
commit 2f60e91d93
1 changed files with 18 additions and 9 deletions
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27
setup.py
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@ -4,9 +4,11 @@ import sys
import re import re
import subprocess import subprocess
from distutils.core import setup,Extension from distutils import log
from distutils.core import setup
from distutils.core import Extension
from distutils.sysconfig import get_python_lib from distutils.sysconfig import get_python_lib
from Cython.Build import cythonize
import os.path import os.path
from distutils import log from distutils import log
@ -14,9 +16,6 @@ from distutils.extension import Extension
sys.path.append(os.path.abspath("python")) sys.path.append(os.path.abspath("python"))
dependencies = ['sphinx',"Cython"]
def findPackage(root,base=None): def findPackage(root,base=None):
modules=[] modules=[]
if base is None: if base is None:
@ -28,6 +27,7 @@ def findPackage(root,base=None):
return modules return modules
def RunMake(): def RunMake():
log.info("Build the build/cobject directory")
try: try:
os.mkdir("build") os.mkdir("build")
except OSError: except OSError:
@ -40,16 +40,23 @@ def RunMake():
oldwd = os.getcwd() oldwd = os.getcwd()
os.chdir("build/cobject") os.chdir("build/cobject")
install_clibdir_option="-DPYTHONLIB:STRING='%s'" % get_python_lib() install_clibdir_option="-DPYTHONLIB:STRING='%s'" % get_python_lib()
log.info("Run CMake")
subprocess.call(['cmake', install_clibdir_option, '../../src']) 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 subprocess.call(['make','install']) # temporary fix but should be in src
os.chdir(oldwd) os.chdir(oldwd)
#def install_dependencies(deps):
# for r in deps:
# log.info("Installing dependency : %s" %r)
# subprocess.call(['pip','install',r])
PACKAGE = "OBITools3" PACKAGE = "OBITools3"
VERSION = "0.0.0" VERSION = "0.0.6"
AUTHOR = 'Eric Coissac' AUTHOR = 'Eric Coissac'
EMAIL = 'eric@metabarcoding.org' EMAIL = 'eric@metabarcoding.org'
URL = "metabarcoding.org/obitools3" URL = "http://metabarcoding.org/obitools3"
LICENSE = "CeCILL-V2" LICENSE = "CeCILL-V2"
DESCRIPTION = "Tools and library for DNA metabarcoding", DESCRIPTION = "Tools and library for DNA metabarcoding",
PYTHONMIN = '3.7' PYTHONMIN = '3.7'
@ -65,9 +72,11 @@ REQUIRES = ['Cython>=0.24',
os.environ['CFLAGS'] = '-O3 -Wall -I "src" -I "src/libecoPCR" -I "src/libjson"' os.environ['CFLAGS'] = '-O3 -Wall -I "src" -I "src/libecoPCR" -I "src/libjson"'
#install_dependencies(REQUIRES)
RunMake() RunMake()
from Cython.Build import cythonize
cython_src = [x for x in glob.iglob('python/obitools3/**/*.pyx', cython_src = [x for x in glob.iglob('python/obitools3/**/*.pyx',
recursive=True recursive=True
) )