Compiling Caffe on Yosemite 10.10

[Kate Rakelly]

This is a followup from Issue #1830 on Github (don't comment there! comment here! :)

I am on OS X Yosemite 10.10, using Anaconda Python, Boost 1.56, OpenCV 2.4.10 (using Homebrew to install everything) and caffe-dev.
I followed the installation instructions on the website for OS X 10.9, but used the new Makefile found in https://github.com/BVLC/caffe/commit/33a56e08d9a2714c2492bb7999a350636ed142be.

I am compiling CPU only version, and I do not have CUDA installed.

I am able to compile caffe, albeit with the warning

/bin/sh: /usr/local/cuda/bin/nvcc: No such file or directory

(standard_in) 1: parse error

because I do not have CUDA. (As I have uncommented the line CPU_ONLY := 1, it seems like it should not be looking for nvidia cuda at all.)

However, when I run make runtest, I get the error:

[ RUN      ] HDF5OutputLayerTest/1.TestForward

Warning! ***HDF5 library version mismatched error***

The HDF5 header files used to compile this application do not match

the version used by the HDF5 library to which this application is linked.

Data corruption or segmentation faults may occur if the application continues.

This can happen when an application was compiled by one version of HDF5 but

linked with a different version of static or shared HDF5 library.

You should recompile the application or check your shared library related

settings such as 'LD_LIBRARY_PATH'.

You can, at your own risk, disable this warning by setting the environment

variable 'HDF5_DISABLE_VERSION_CHECK' to a value of '1'.

Setting it to 2 or higher will suppress the warning messages totally.

Headers are 1.8.13, library is 1.8.14

    SUMMARY OF THE HDF5 CONFIGURATION

    =================================

General Information:

-------------------

   HDF5 Version: 1.8.14

  Configured on: Thu Dec  4 22:14:51 GMT 2014

  Configured by: br...@miniyosemite.local

 Configure mode: production

    Host system: i386-apple-darwin14.0.0

      Uname information: Darwin miniyosemite.local 14.0.0 Darwin Kernel Version 14.0.0: Fri Sep 19 00:26:44 PDT 2014; root:xnu-2782.1.97~2/RELEASE_X86_64 x86_64

       Byte sex: little-endian

      Libraries: static, shared

     Installation point: /usr/local/Cellar/hdf5/1.8.14

Some more info...and then:

.build_release/test/test_all.testbin 0 --gtest_shuffle --gtest_filter="-*GPU*" && \

.build_release/test/test_all_dynamic_link.testbin 0 --gtest_shuffle --gtest_filter="-*GPU*"

dyld: Library not loaded: libhdf5_hl.8.dylib

  Referenced from: /Users/rakelly/caffe-dev/.build_release/test/test_all.testbin

  Reason: image not found

/bin/sh: line 1: 30205 Trace/BPT trap: 5       .build_release/test/test_all.testbin 0 --gtest_shuffle --gtest_filter="-*GPU*"

I have tried reinstalling hdf5, and then recompiling Caffe, with the same result.