[Bioc-devel] mzR build failure on Windows: missing HDF5 libraries

[Martin Morgan]

Would be great, Steffen, to update mzR to use Rhdf5lib. I believe CRAN 
packages with mzR dependencies are also failing to build under devel, as 
well as xcms and other mzR dependencies in Bioc.

Martin

On 01/03/2018 04:18 AM, Mike Smith wrote:
> Rhdf5lib is in the release branch too.  I'm happy to help try and get mzR
> working with it.
> 
> On 2 January 2018 at 21:31, Martin Morgan <martin.morgan at roswellpark.org>
> wrote:
> 
>> On 01/02/2018 03:16 PM, Neumann, Steffen wrote:
>>
>>> Dear BioC team,
>>>
>>> a happy new year to you as well ;-)
>>>
>>> for a while we have a build error for mzR on windows
>>> due to missing HDF5 libs:
>>> https://github.com/sneumann/mzR/issues/143
>>>
>>> I am looking for some hints how to fix this.
>>> The https://bioconductor.org/packages/release/bioc/html/rhdf5.html
>>> package has embedded rhdf5/src/libwin/x64/libhdf5ForBioC-7.dll
>>> which we could try to use (It does not yet contain H5Cpp.h,
>>> and we'd have to ask Bernd Fischer et al to include it.
>>>
>>
>> Not a comprehensive answer or solution to release, but in devel there is
>> Rhdf5lib which contains both the C and C++ headers. (I believe that rhdf5
>> will move to using this library in the near future) Martin
>>
>>
>>> ALternatively, it might already be present on the build machines,
>>> but we didn't have the include path set up:
>>> https://github.com/r-hub/rhub/issues/91
>>> "... the location of the hdf5 libraries is defined as
>>> ${LIB_HDF5}/lib${R_ARCH}. "
>>>
>>> So, any hints which way to go for a fix ?
>>>
>>> Yours,
>>> Steffen
>>>
>>>
>>
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