py27-h5py +openmpi +gcc5: build fails

[eschnett (Erik Schnetter)]

I am using openmpi-gcc5, and want to install a compatible py27-h5py. I am configuring with

sudo port install py27-h5py +openmpi +gcc5

-- without the +gcc5 option, this installs openmpi-default which I don't want.

The above command fails:

$ sudo port install py27-h5py +openmpi +gcc5
--->  Computing dependencies for py27-h5py
--->  Fetching archive for py27-h5py
--->  Attempting to fetch py27-h5py-2.5.0_1+gcc5+openmpi.darwin_15.x86_64.tbz2 from http://packages.macports.org/py27-h5py
--->  Attempting to fetch py27-h5py-2.5.0_1+gcc5+openmpi.darwin_15.x86_64.tbz2 from http://mse.uk.packages.macports.org/sites/packages.macports.org/py27-h5py
--->  Attempting to fetch py27-h5py-2.5.0_1+gcc5+openmpi.darwin_15.x86_64.tbz2 from http://nue.de.packages.macports.org/macports/packages/py27-h5py
--->  Fetching distfiles for py27-h5py
--->  Verifying checksums for py27-h5py
--->  Extracting py27-h5py
--->  Configuring py27-h5py
--->  Building py27-h5py
Error: org.macports.build for port py27-h5py returned: command execution failed
Please see the log file for port py27-h5py for details:
    /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_python_py-h5py/py27-h5py/main.log
To report a bug, follow the instructions in the guide:
    http://guide.macports.org/#project.tickets
Error: Processing of port py27-h5py failed

I am using OS X El Capitan, Darwin 15.0.0.

I attach the full log.

[petrrr]

Cc Me!

[eborisch (Eric A. Borisch)]

This appears to be an interaction between h5py and mpi4py 2.0 (recently updated.) If I revert to mpi4py 1.3.1, this builds; with 2.0, it fails as advertised. I haven't had a chance to dig further, but you could bring it up either on h5py's github issues tracker to see if you can get any traction there.

[ufdup]

Replying to eborisch@…:

This appears to be an interaction between h5py and mpi4py 2.0 (recently updated.) If I revert to mpi4py 1.3.1, this builds; with 2.0, it fails as advertised. I haven't had a chance to dig further, but you could bring it up either on h5py's github issues tracker to see if you can get any traction there.

i guess they've worked this out already… see ​https://github.com/SeismicData/pyasdf/issues/11

there are some changes to be done in the source code. i am new to macports and don't really know how to apply the changes into the source code (distfiles) that macports uses…

[ufdup]

Cc Me!

[ufdup]

Cc Me!

[eborisch (Eric A. Borisch)]

Closing for inactivity.