gmt4 @4.5.14_2 : error building gmt4 during install

[NestorCerpa]

I tried to install gmt4 on my MacBook Air OSX Yosemite 10.10.5 but I have a problem.

During the first build it says : " Error: org.macports.build for port gmt4 returned: command execution failed"

[NestorCerpa]

Log file failed installation gmt4

[ken-cunningham-webuse]

error is

ld: library not found for -lhdf5_hl

but I see you have "hdf5-18 1.8.17_0" installed.

port search hdf5 shows

hdf5 @1.10.0-patch1 (science)
    HDF5 general purpose library and file format for storing scientific data

hdf5-18 @1.8.17 (science)
    HDF5 general purpose library and file format for storing scientific data

that's a bit odd. I know nothing about this port, but a missing library is a missing library. Do you have the library? locate hdf5_hl or perhaps ls -la /opt/local/lib/libhdf*

If not, perhaps you need that other hdf5 install, or perhaps you don't have the +hl variant installed (which it seems to be looking for)? port -v installed | grep hdf5 will show you what you have already.

If you do have the library, but it won't use it, that's another entire matter.

Hope this helps get you started.

[anowacki (Andy Nowacki)]

This occurs because the hdf5-18 port installs into /opt/local/lib/hdf5-18, but this directory is not added to the linker options by the port file for gmt4. hdf5-18 is a dependency of gmt via netcdf with the +netcdf4 variant.

I noticed this issue when upgrading to Sierra and installed in the order gmt4, gmt5, which did not install hdf5 first. GMT seems to link to hdf5 fine and I haven't been able to find any problems with this.

I guess the correct fix is to add linker commands to point to /opt/local/lib/hdf5-18, though I could only speculate why netcdf +netcdf4 necessarily has to use hdf5-18. A current workaround is to just install hdf5 first.

[raimue (Rainer Müller)]

Port abandoned, #54396.