h5close fails to update the file on disk

[dariomel]

creating a new file that contains a data set and then calling h5close fails to update the file on disk:

library(h5)
f=h5file("bug.h5",'w')
f['a']=1:3
h5close(f)
system("/opt/apps/tools/hdf5-1.10.1/bin/h5dump bug.h5")
h5dump error: unable to open file "bug.h5"

The file appears to be updated correctly after quitting and restarting R,

system("/opt/apps/tools/hdf5-1.10.1/bin/h5dump bug.h5")
HDF5 "bug.h5" {
GROUP "/" {
   DATASET "a" {
      DATATYPE  H5T_STD_I32LE
      DATASPACE  SIMPLE { ( 3 ) / ( H5S_UNLIMITED ) }
      DATA {
      (0): 1, 2, 3
      }
   }
}
}

sessionInfo

sessionInfo()
R version 3.4.1 (2017-06-30)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 14.04.5 LTS

Matrix products: default
BLAS/LAPACK: /mnt/share/apps/tools/intel-2017_3/compilers_and_libraries_2017.4.196/linux/mkl/lib/intel64_lin/libmkl_rt.so

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C              
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8    
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8   
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C                 
 [9] LC_ADDRESS=C               LC_TELEPHONE=C            
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] h5_0.9.8

loaded via a namespace (and not attached):
[1] compiler_3.4.1 tools_3.4.1    Rcpp_0.12.12