This program (fast5tofastq) opens a HDF5 file and checks the paths
- /Analyses/Basecall_2D_000/BaseCalled_2D/Fastq
- /Analyses/Basecall_2D_000/BaseCalled_template/Fastq
- /Analyses/Basecall_2D_000/BaseCalled_complement/Fastq
for string objects in the given order. When it finds any such object it prints the string contents on the standard output channel and quits. If it finds no such element then it quits without printing anything on standard output.
Compilation requires a HDF5 installation in version >= 1.8.13 (see http://www.hdfgroup.org/HDF5/release/obtainsrc.html#src), a C compiler and a make program.
A non-standard installation path for HDF5 can be given as an argument for make, e.g.
make HDF5=/path/to/installed/hdf5-1.8.13
fast5tofastq is distributed under version 3 of the GNU General Public License (see the file GPL-3).