For the binary, which library version are you using? Can you test something
different from 1.8.14? (I don't have any particular reason to suspect 1.8.14 is
bad, I am just wondering...)
--Tim
On Wednesday, November 19, 2014 10:08:41 AM Lanfeng Pan wrote:
> Hi guys,
>
> I installed hdf5 manually on a linux server which I have no root privilege.
> Pkg.add("HDF5") is fine but `using HDF5` will give me the following errors:
>
> julia> Pkg.add("HDF5")
> INFO: Installing BinDeps v0.3.6
> INFO: Installing HDF5 v0.4.6
> INFO: Installing SHA v0.0.3
> INFO: Installing URIParser v0.0.3
> INFO: Building HDF5
> INFO: Package database updated
>
> julia> using HDF5
> HDF5-DIAG: Error detected in HDF5 (1.8.14) thread 0:
> #000: H5P.c line 299 in H5Pcreate(): not a property list class
> major: Invalid arguments to routine
> minor: Inappropriate type
> HDF5-DIAG: Error detected in HDF5 (1.8.14) thread 0:
> #000: H5Pstrcpl.c line 159 in H5Pset_char_encoding(): can't find object
> for ID
> major: Object atom
> minor: Unable to find atom information (already closed?)
> #001: H5Pint.c line 3381 in H5P_object_verify(): property list is not a
> member of the class
> major: Property lists
> minor: Unable to register new atom
> #002: H5Pint.c line 3331 in H5P_isa_class(): not a property list
> major: Invalid arguments to routine
> minor: Inappropriate type
> ERROR: Error setting char encoding
> in h5p_set_char_encoding at /home/pan/.julia/v0.3/HDF5/src/plain.jl:1848
> in include at ./boot.jl:245
> in include_from_node1 at ./loading.jl:128
> in include at ./boot.jl:245
> in include_from_node1 at ./loading.jl:128
> in reload_path at loading.jl:152
> in _require at loading.jl:67
> in require at loading.jl:51
> while loading /home/pan/.julia/v0.3/HDF5/src/plain.jl, in expression
> starting on line 2102
> while loading /home/pan/.julia/v0.3/HDF5/src/HDF5.jl, in expression
> starting on line 1
>
> julia> dlopen("libhdf5")
> Ptr{Void} @0x00000000057e89b0
>
>
>
>
> I also tried to use the binary hdf5 files, but the error persists. The
> system information:
>
> $ cat /etc/redhat-release
> CentOS release 6.6 (Final)
>
> $ gcc --version
> gcc (GCC) 4.8.2 20140120 (Red Hat 4.8.2-15)
>
> $which gcc
> ~/gcc-4.8.2/bin/gcc
>
> $ julia --version
> julia version 0.3.2
