#45911: py27-h5py @2.3.1_1 built against parallel HDF5 can't find mpi.h ---------------------------------------+-------------------------------- Reporter: willic3@… | Owner: macports-tickets@… Type: defect | Status: new Priority: Normal | Milestone: Component: ports | Version: 2.3.2 Resolution: | Keywords: Port: py27-h5py, openmpi-gcc48 | ---------------------------------------+-------------------------------- Changes (by ryandesign@…): * cc: eborisch@…, sean@… (added) * port: => py27-h5py, openmpi-gcc48 Old description:

Hi,

I am attempting to build py27-h5py on Yosemite. I have the following hdf5 installed: hdf5 @1.8.13_0+cxx+gcc48+openmpi+szip. The difficulty is that openmpi puts headers in the subdirectory /opt/local/include /openmpi-gcc48, so when I try to build py27-h5py I get:

In file included from h5py/defs.c:241: In file included from h5py/api_compat.h:27: In file included from /opt/local/include/hdf5.h:24: /opt/local/include/H5public.h:61:13: fatal error: 'mpi.h' file not found # include <mpi.h> ^ 1 warning and 1 error generated.

I would think the problem could be avoided by either defining CPPFLAGS appropriately or by using mpicc for compilation. My system info:

OS X 10.10 Xcode 6.1 clang: Apple LLVM version 6.0 (clang-600.0.54) (based on LLVM 3.5svn)

Installed openmpi: openmpi-default @1.7.5_3+gcc48 (active) openmpi-gcc48 @1.7.5_3+fortran (active)

Please let me know if you need any more info.

Thanks, Charles

New description: Hi, I am attempting to build py27-h5py on Yosemite. I have the following hdf5 installed: `hdf5 @1.8.13_0+cxx+gcc48+openmpi+szip`. The difficulty is that openmpi puts headers in the subdirectory /opt/local/include/openmpi- gcc48, so when I try to build py27-h5py I get: {{{ In file included from h5py/defs.c:241: In file included from h5py/api_compat.h:27: In file included from /opt/local/include/hdf5.h:24: /opt/local/include/H5public.h:61:13: fatal error: 'mpi.h' file not found # include <mpi.h> ^ 1 warning and 1 error generated. }}} I would think the problem could be avoided by either defining CPPFLAGS appropriately or by using mpicc for compilation. My system info: OS X 10.10 [[br]] Xcode 6.1 [[br]] clang: `Apple LLVM version 6.0 (clang-600.0.54) (based on LLVM 3.5svn)` Installed openmpi: {{{ openmpi-default @1.7.5_3+gcc48 (active) openmpi-gcc48 @1.7.5_3+fortran (active) }}} Please let me know if you need any more info. Thanks, [[br]] Charles -- -- Ticket URL: <https://trac.macports.org/ticket/45911#comment:1> MacPorts <https://www.macports.org/> Ports system for OS X

#45911: py27-h5py @2.3.1_1 built against parallel HDF5 can't find mpi.h ---------------------------------------+-------------------------------- Reporter: willic3@… | Owner: macports-tickets@… Type: defect | Status: closed Priority: Normal | Milestone: Component: ports | Version: 2.3.2 Resolution: duplicate | Keywords: Port: py27-h5py, openmpi-gcc48 | ---------------------------------------+-------------------------------- Changes (by eborisch@…): * status: new => closed * resolution: => duplicate Comment: See #48473. -- Ticket URL: <https://trac.macports.org/ticket/45911#comment:4> MacPorts <https://www.macports.org/> Ports system for OS X

#45911: py27-h5py @2.3.1_1 built against parallel HDF5 can't find mpi.h ---------------------------------------+-------------------------------- Reporter: willic3@… | Owner: macports-tickets@… Type: defect | Status: reopened Priority: Normal | Milestone: Component: ports | Version: 2.3.2 Resolution: | Keywords: Port: py27-h5py, openmpi-gcc48 | ---------------------------------------+-------------------------------- Changes (by petr@…): * status: closed => reopened * resolution: duplicate => Comment: This is not a duplicate it is only related to ticket #48473! Reopening. -- Ticket URL: <https://trac.macports.org/ticket/45911#comment:6> MacPorts <https://www.macports.org/> Ports system for OS X

#45911: py27-h5py @2.3.1_1 built against parallel HDF5 can't find mpi.h ---------------------------------------+-------------------------------- Reporter: willic3@… | Owner: macports-tickets@… Type: defect | Status: reopened Priority: Normal | Milestone: Component: ports | Version: 2.3.2 Resolution: | Keywords: Port: py27-h5py, openmpi-gcc48 | ---------------------------------------+-------------------------------- Comment (by eborisch@…): And yes, using compilers.cc works, and it gets pointed to the specific variant (insensitive to 'port select') of mpi you choose (thanks to the mpi portgroup' hard work.) -- Ticket URL: <https://trac.macports.org/ticket/45911#comment:8> MacPorts <https://www.macports.org/> Ports system for OS X

#45911: py27-h5py @2.3.1_1 built against parallel HDF5 can't find mpi.h ---------------------------------------+-------------------------------- Reporter: willic3@… | Owner: macports-tickets@… Type: defect | Status: closed Priority: Normal | Milestone: Component: ports | Version: 2.3.2 Resolution: fixed | Keywords: Port: py27-h5py, openmpi-gcc48 | ---------------------------------------+-------------------------------- Comment (by petr@…): Sean, not convinced that this is full fixed by r139726. See comment and discussion. I believe there is a point in installing h5py, without parallel support. But your hdf5 library may already be installed with or without mpi. -- Ticket URL: <https://trac.macports.org/ticket/45911#comment:10> MacPorts <https://www.macports.org/> Ports system for OS X