hdf5.js

HDF5 compiled to JavaScript with emscripten.

Emscripten

I compiled emscripten-fastcomp and emscripten-fastcomp-clang from source. Instructions are here. Note that compilation of hdf5.js has failed for some users using earlier versions of emscripten.

Compiling with Emscripten

Go to the emscripten build folder and configure.

mkdir em-build
cd em-build
emconfigure ../hdf5-1.8.12/configure --enable-cxx

Start making

emmake make
emmake make install

Running examples

Go to the examples directory and build readdata.js.

emcc readdata.cpp ../em-build/hdf5/lib/libhdf5.a ../em-build/hdf5/lib/libhdf5_cpp.a -I../em-build/hdf5/include --embed-file SDS.h5 -o readdata.js

Run it using

node readdata.js

The current output is

Data set has INTEGER type
Little endian byte ordering (0)
Data size is 4
rank 2, dimensions 5 x 6
0 0 0 0 0 0 0 
0 0 0 0 0 0 0 
0 0 0 0 0 0 0 
3 4 5 6 0 0 0 
4 5 6 7 0 0 0 
5 6 7 8 0 0 0 
0 0 0 0 0 0 0 

/home/parkin/git/hdf5.js/examples/readdata.js:692481
      throw e;
            ^
abort() at Error
    at stackTrace (/home/parkin/git/hdf5.js/examples/readdata.js:1077:15)
    at Object.abort (/home/parkin/git/hdf5.js/examples/readdata.js:692571:25)
    at _abort (/home/parkin/git/hdf5.js/examples/readdata.js:7685:22)
    at _free (/home/parkin/git/hdf5.js/examples/readdata.js:685371:3)
    at _H5FL_blk_gc_list (/home/parkin/git/hdf5.js/examples/readdata.js:78428:4)
    at _H5FL_blk_free (/home/parkin/git/hdf5.js/examples/readdata.js:78258:11)
    at _H5FL_seq_free (/home/parkin/git/hdf5.js/examples/readdata.js:79192:3)
    at _H5B2_hdr_free (/home/parkin/git/hdf5.js/examples/readdata.js:24527:10)
    at _H5B2__cache_hdr_dest (/home/parkin/git/hdf5.js/examples/readdata.js:21763:9)
    at Array._H5B2__cache_hdr_flush (/home/parkin/git/hdf5.js/examples/readdata.js:21670:14)

So the data is read correctly, but there are still problems closing files.

Licenses

The hdf5 license. The original hdf5 code has been modified to allow for building with emscripten.