Question: compiling gatb-core with external Boost and hdf5
gravatar for ilya_shl
21 months ago by
ilya_shl0 wrote:

How can I compile gatb-core using Boost and hdf5 libraries installed separately, rather than those under thirdparty/? (This is needed to create a proper recipe for installing gatb with the bioconda package manager). Thanks for help!

ADD COMMENTlink modified 20 months ago by Rayan Chikhi1.4k • written 21 months ago by ilya_shl0
gravatar for Rayan Chikhi
20 months ago by
Rayan Chikhi1.4k
France, Lille, CNRS
Rayan Chikhi1.4k wrote:

Hi Ilya, the short answer is that you currently cannot as of today.

A GATB team member attempted to do that before, but this entails to modify gatb's CMakeLists.txt to find the system boost and hdf5 libs, as well as a few #include's. Currently the easiest solution is to ship (a subset of) boost and hdf5 along with gatb-core.

Thing is, we also modified hdf5's CMakeLists in some places (e.g. to allow compilation without zlib, to rename the produced h5dump binary, and apparently for static compilation), so going back to vanilla hdf5 will require some testing on our side.

Any obstacle towards allowing gatb-core package to contain parts of boost and hdf5?

ADD COMMENTlink modified 20 months ago • written 20 months ago by Rayan Chikhi1.4k
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