new pkg: py-psana (#37666)
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eugeneswalker
GitHub
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var/spack/repos/builtin/packages/py-psana/package.py
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var/spack/repos/builtin/packages/py-psana/package.py
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# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other
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# Spack Project Developers. See the top-level COPYRIGHT file for details.
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#
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# SPDX-License-Identifier: (Apache-2.0 OR MIT)
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from spack.package import *
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class PyPsana(PythonPackage):
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"""LCLS II Developement: PSAna Python."""
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homepage = "https://github.com/slac-lcls/lcls2"
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url = "https://github.com/slac-lcls/lcls2/archive/refs/tags/3.3.37.tar.gz"
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maintainers("valmar")
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version("3.3.37", sha256="127a5ae44c9272039708bd877849a3af354ce881fde093a2fc6fe0550b698b72")
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patch("setup.patch")
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depends_on("py-setuptools", type="build")
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depends_on("py-cython", type="build")
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depends_on("py-numpy", type=("build", "run"))
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depends_on("py-matplotlib", type=("build", "run"))
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depends_on("py-psalg", type=("build", "run"))
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depends_on("py-requests", type=("build", "run"))
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depends_on("py-mpi4py", type=("build", "run"))
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depends_on("py-pymongo", type=("build", "run"))
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depends_on("py-amityping", type=("build", "run"))
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depends_on("py-mypy-extensions", type=("build", "run"))
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depends_on("py-h5py", type=("build", "run"))
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depends_on("py-pyzmq", type=("build", "run"))
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depends_on("py-psmon", type=("build", "run"))
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depends_on("py-lcls-krtc", type=("build", "run"))
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depends_on("py-psmon", type=("build", "run"))
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depends_on("py-ipykernel", type=("build", "run"))
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depends_on("opencv", type=("build", "run"))
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depends_on("py-scikit-learn", type=("build", "run"))
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depends_on("py-pyabel", type=("build", "run"))
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depends_on("xtcdata", type=("build", "run", "link"))
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depends_on("psalg", type=("build", "run", "link"))
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build_directory = "psana"
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def setup_build_environment(self, env):
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env.set("INSTDIR", "{0}".format(self.prefix))
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env.set("XTCDATADIR", "{0}".format(self.spec["xtcdata"].prefix))
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env.set("PSALGDIR", "{0}".format(self.spec["psalg"].prefix))
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var/spack/repos/builtin/packages/py-psana/setup.patch
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var/spack/repos/builtin/packages/py-psana/setup.patch
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diff --git a/psana/setup.py b/psana/setup.py
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index 61412cf6..20ec023b 100644
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--- a/psana/setup.py
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+++ b/psana/setup.py
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@@ -18,6 +18,18 @@ if not instdir_env:
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raise Exception('Parameter --instdir is missing')
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instdir = instdir_env
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+xtcdatadir_env = os.environ.get('XTCDATADIR')
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+if not xtcdatadir_env:
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+ xtcdatadir = instdir_env
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+else:
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+ xtcdatadir = xtcdatadir_env
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+
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+psalgdir_env = os.environ.get('PSALGDIR')
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+if not psalgdir_env:
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+ psalgdir = instdir_env
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+else:
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+ psalgdir = psalgdir_env
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+
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# Shorter BUILD_LIST can be used to speedup development loop.
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#Command example: ./build_all.sh -b PEAKFINDER:HEXANODE:CFD -md
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BUILD_LIST = ('PSANA','SHMEM','PEAKFINDER','HEXANODE','DGRAM','HSD','CFD','NDARRAY')# ,'XTCAV')
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@@ -63,6 +75,10 @@ else:
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openmp_link_args = ['-fopenmp']
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extra_link_args_rpath = extra_link_args + ['-Wl,-rpath,'+ os.path.abspath(os.path.join(instdir, 'lib'))]
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+if xtcdatadir_env:
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+ extra_link_args_rpath = extra_link_args_rpath + ['-Wl,-rpath,'+ os.path.abspath(os.path.join(xtcdatadir, 'lib'))]
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+if psalgdir_env:
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+ extra_link_args_rpath = extra_link_args_rpath + ['-Wl,-rpath,'+ os.path.abspath(os.path.join(psalgdir, 'lib'))]
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CYT_BLD_DIR = 'build'
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@@ -76,21 +92,38 @@ INSTALL_REQS = []
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PACKAGE_DATA = {}
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ENTRY_POINTS = {}
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+if xtcdatadir_env:
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+ xtc_headers = os.path.join(xtcdatadir, 'include')
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+ xtc_lib_path = os.path.join(xtcdatadir, 'lib')
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+else:
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+ xtc_headers = os.path.join(instdir, 'include')
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+ xtc_lib_path = os.path.join(instdir, 'lib')
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+
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+if psalgdir_env:
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+ psalg_headers = os.path.join(psalgdir, 'include')
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+ psalg_lib_path = os.path.join(psalgdir, 'lib')
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+else:
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+ psalg_headers = os.path.join(instdir, 'include')
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+ psalg_lib_path = os.path.join(instdir, 'lib')
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if 'PSANA' in BUILD_LIST :
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dgram_module = Extension('psana.dgram',
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sources = ['src/dgram.cc'],
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libraries = ['xtc'],
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- include_dirs = ['src', np.get_include(), os.path.join(instdir, 'include')],
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- library_dirs = [os.path.join(instdir, 'lib')],
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+ #include_dirs = ['src', np.get_include(), os.path.join(instdir, 'include'), ],
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+ #library_dirs = [os.path.join(instdir, 'lib')],
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+ include_dirs = ['src', np.get_include(), os.path.join(instdir, 'include'), xtc_headers ],
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+ library_dirs = [os.path.join(instdir, 'lib'), xtc_lib_path],
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extra_link_args = extra_link_args_rpath,
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extra_compile_args = extra_cxx_compile_args)
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container_module = Extension('psana.container',
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sources = ['src/container.cc'],
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libraries = ['xtc'],
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- include_dirs = [np.get_include(), os.path.join(instdir, 'include')],
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- library_dirs = [os.path.join(instdir, 'lib')],
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+ #include_dirs = [np.get_include(), os.path.join(instdir, 'include')],
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+ #library_dirs = [os.path.join(instdir, 'lib')],
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+ include_dirs = [np.get_include(), os.path.join(instdir, 'include'), xtc_headers ],
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+ library_dirs = [os.path.join(instdir, 'lib'), xtc_lib_path],
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extra_link_args = extra_link_args_rpath,
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extra_compile_args = extra_cxx_compile_args)
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@@ -122,6 +155,7 @@ if 'PSANA' in BUILD_LIST :
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'xtcavDisplay = psana.xtcav.app.xtcavDisplay:__main__',
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'shmemClientSimple = psana.app.shmemClientSimple:main',
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'epix10ka_pedestals_calibration = psana.app.epix10ka_pedestals_calibration:do_main',
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+ 'epix10ka_charge_injection = psana.app.epix10ka_charge_injection:do_main',
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'epix10ka_deploy_constants = psana.app.epix10ka_deploy_constants:do_main',
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'epix10ka_raw_calib_image = psana.app.epix10ka_raw_calib_image:do_main',
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'epix10ka_calib_components = psana.app.epix10ka_calib_components:__main__',
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@@ -137,8 +171,10 @@ if 'SHMEM' in BUILD_LIST and sys.platform != 'darwin':
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ext = Extension('shmem',
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sources=["psana/shmem/shmem.pyx"],
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libraries = ['xtc','shmemcli'],
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- include_dirs = [np.get_include(), os.path.join(instdir, 'include')],
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- library_dirs = [os.path.join(instdir, 'lib')],
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+ #include_dirs = [np.get_include(), os.path.join(instdir, 'include')],
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+ #library_dirs = [os.path.join(instdir, 'lib')],
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+ include_dirs = [np.get_include(), os.path.join(instdir, 'include'), xtc_headers, psalg_headers ],
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+ library_dirs = [os.path.join(instdir, 'lib'), xtc_lib_path, psalg_lib_path],
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language="c++",
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extra_compile_args = extra_cxx_compile_args,
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extra_link_args = extra_link_args_rpath,
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@@ -239,8 +275,10 @@ if 'DGRAM' in BUILD_LIST :
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#packages=['psana.peakfinder',],
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sources=["psana/peakFinder/dgramCreate.pyx"],
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libraries = ['xtc'],
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- include_dirs = [np.get_include(), os.path.join(instdir, 'include')],
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- library_dirs = [os.path.join(instdir, 'lib')],
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+ #include_dirs = [np.get_include(), os.path.join(instdir, 'include')],
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+ #library_dirs = [os.path.join(instdir, 'lib')],
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+ include_dirs = [np.get_include(), os.path.join(instdir, 'include'), xtc_headers ],
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+ library_dirs = [os.path.join(instdir, 'lib'), xtc_lib_path],
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language="c++",
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extra_compile_args = extra_cxx_compile_args,
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extra_link_args = extra_link_args_rpath,
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@@ -257,7 +295,11 @@ if 'DGRAM' in BUILD_LIST :
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ext = Extension("psana.smdreader",
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sources=["psana/smdreader.pyx"],
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- include_dirs=["psana"],
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+ libraries = ['xtc'],
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+ #include_dirs=["psana"],
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+ #include_dirs = [np.get_include(), os.path.join(instdir, 'include')],
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+ include_dirs = ["psana", np.get_include(), os.path.join(instdir, 'include'), xtc_headers ],
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+ library_dirs = [os.path.join(instdir, 'lib'), xtc_lib_path],
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#extra_compile_args=extra_c_compile_args,
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extra_compile_args=extra_c_compile_args + openmp_compile_args,
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#extra_link_args=extra_link_args,
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@@ -284,8 +326,10 @@ if 'DGRAM' in BUILD_LIST :
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ext = Extension("psana.dgramedit",
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sources=["psana/dgramedit.pyx"],
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libraries = ['xtc'],
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- include_dirs=["psana",np.get_include(), os.path.join(instdir, 'include')],
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- library_dirs = [os.path.join(instdir, 'lib')],
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+ #include_dirs=["psana",np.get_include(), os.path.join(instdir, 'include')],
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+ #library_dirs = [os.path.join(instdir, 'lib')],
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+ include_dirs = ["psana", np.get_include(), os.path.join(instdir, 'include'), xtc_headers ],
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+ library_dirs = [os.path.join(instdir, 'lib'), xtc_lib_path],
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language="c++",
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extra_compile_args = extra_cxx_compile_args,
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extra_link_args = extra_link_args_rpath,
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@@ -305,8 +349,10 @@ if 'DGRAM' in BUILD_LIST :
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ext = Extension("psana.dgramlite",
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sources=["psana/dgramlite.pyx"],
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libraries = ['xtc'],
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- include_dirs=["psana",np.get_include(), os.path.join(instdir, 'include')],
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- library_dirs = [os.path.join(instdir, 'lib')],
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+ #include_dirs=["psana",np.get_include(), os.path.join(instdir, 'include')],
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+ #iibrary_dirs = [os.path.join(instdir, 'lib')],
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+ include_dirs = ["psana", np.get_include(), os.path.join(instdir, 'include'), xtc_headers ],
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+ library_dirs = [os.path.join(instdir, 'lib'), xtc_lib_path],
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language="c++",
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extra_compile_args = extra_cxx_compile_args,
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extra_link_args = extra_link_args_rpath,
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@@ -316,15 +362,17 @@ if 'DGRAM' in BUILD_LIST :
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ext = Extension("psana.mypybuffer",
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sources=["psana/mypybuffer.pyx"],
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libraries = ['xtc'],
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- include_dirs=["psana",np.get_include(), os.path.join(instdir, 'include')],
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- library_dirs = [os.path.join(instdir, 'lib')],
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+ #include_dirs=["psana",np.get_include(), os.path.join(instdir, 'include')],
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+ #library_dirs = [os.path.join(instdir, 'lib')],
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+ include_dirs = ["psana", np.get_include(), os.path.join(instdir, 'include'), xtc_headers ],
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+ library_dirs = [os.path.join(instdir, 'lib'), xtc_lib_path],
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language="c++",
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extra_compile_args = extra_cxx_compile_args,
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- extra_link_args = extra_link_args_rpath,
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)
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CYTHON_EXTS.append(ext)
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+
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if 'HSD' in BUILD_LIST :
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ext = Extension("hsd",
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sources=["psana/hsd/hsd.pyx"],
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