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hhoeflin / hdf5r

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Errors on attachment on Ubuntu 17.10 #95

Open dseynaev opened 6 years ago

dseynaev commented 6 years ago

Installed via:

> devtools::install_github("hhoeflin/hdf5r")

And the headers using 

apt install libhdf5-dev

Which installed version 1.10.0-patch1+docs-4 on my ubuntu 17.10 box. https://packages.ubuntu.com/artful/libhdf5-dev

I am seeing some strange errors when attaching the package:

> library(hdf5r)
Error in self$is_simple() : HDF5-API Errors:
    error #000: ../../../src/H5S.c in H5Sis_simple(): line 1238: not a dataspace
        class: HDF5
        major: Object atom
        minor: Unable to find atom information (already closed?)
Error in self$is_simple() : HDF5-API Errors:
    error #000: ../../../src/H5S.c in H5Sis_simple(): line 1238: not a dataspace
        class: HDF5
        major: Object atom
        minor: Unable to find atom information (already closed?)
Error in (function ()  : HDF5-API Errors:
    error #000: ../../../src/H5S.c in H5Sget_simple_extent_ndims(): line 865: not a dataspace
        class: HDF5
        major: Invalid arguments to routine
        minor: Inappropriate type
Error in self$is_simple() : HDF5-API Errors:
    error #000: ../../../src/H5S.c in H5Sis_simple(): line 1238: not a dataspace
        class: HDF5
        major: Object atom
        minor: Unable to find atom information (already closed?)
Error in self$is_simple() : HDF5-API Errors:
    error #000: ../../../src/H5S.c in H5Sis_simple(): line 1238: not a dataspace
        class: HDF5
        major: Object atom
        minor: Unable to find atom information (already closed?)
Error in (function ()  : HDF5-API Errors:
    error #000: ../../../src/H5S.c in H5Sget_simple_extent_ndims(): line 865: not a dataspace
        class: HDF5
        major: Invalid arguments to routine
        minor: Inappropriate type

However, this seems to be mostly harmless since I can use the package normally afterwards (did not test everything yet though)

Note that version 1.10.0-patch1+docs-4 will also be the default on the next Ubuntu LTS (18.04) which is scheduled for release later this week.

Any ideas?

hhoeflin commented 6 years ago

Thank you for reporting. Will look into it next opportunity.