Example code does not create required dataset in TimeSeries

[ajtritt]

Originally reported by: jeffteeters (Bitbucket: jeffteeters, GitHub: jeffteeters)

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I tried implementing the example code on this page:
http://pynwb.readthedocs.io/en/latest/example.html#creating-and-writing-nwb-files
(under section “Write an NWBFile”) to create a TimeSeries.
This generates a TimeSeries that does not include “num_samples”, which is a required dataset. The sample code is below. The example would not run as written, so perhaps the code in the documentation needs to be updated. To allow it to run, I had to add several import statements (has comment "ADDED"). I also tried adding a specification of num_samples in the call to create the TimeSeries. Both with and without the addition of the argument (num_samples), the API failed to create num_samples dataset. There was no error or warning displayed that the required dataset “num_samples” was missing.

#!python

from pynwb import NWBFile, get_build_manager
from form.backends.hdf5 import HDF5IO
from datetime import datetime  # ADDED
from pynwb import base   # ADDED
 
# make an NWBFile
start_time = datetime(1970, 1, 1, 12, 0, 0)
create_date = datetime(2017, 4, 15, 12, 0, 0)
nwbfile = NWBFile('test.nwb', 'a test NWB File', 'TEST123', start_time, file_create_date=create_date)
ts = **base.**TimeSeries('test_timeseries', 'example_source', list(range(100,200,10)), 'SIunit', timestamps=list(range(10)), resolution=0.1, num_samples=3) # ADDED num_samples
nwbfile.add_raw_timeseries(ts)
 
manager = get_build_manager()
path = "test_pynwb_io_hdf5.h5"
 
io = HDF5IO(path, manager)
io.write(nwbfile)
io.close()

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• Bitbucket: https://bitbucket.org/lblneuro/pynwb/issue/35

[ajtritt]

Original comment by Andrew Tritt (Bitbucket: ajtritt, GitHub: ajtritt):

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Merged in issue_34 (pull request #67)

fixing issue #34 and issue #35