lec25.md

Lecture #25: HDF5, Dictionary of functions, Intro to matplotlib

Lecture Objectives

Textbook Reference

Activities

• add command-line argument to select output format

• add method to write HDF5 file:

  • extend list of allowable formats
  • extend conditional
  • import tables
  • various pytables syntax

• create a dictionary of functions to perform output

  • empty dictionary output_method before first output function
  • for each output function write_seq_dict_<format> add to dictionary:
    • output_method['format'] = write_seq_dict_<format>
  • populate valud choices for format command line argument with output_method.keys()
  • call output_method[args.format](args.filename, seq_dict)

• simple 2-D plots in Jupyter Notebook

  • new notebook
  • import seq_driver and generate a dictionary seq_dict = seq_driver.seq_driver_incr(10,10)
    • NOTE: this dictionary contains 9 entries, each with a list of 10 entries
  • import matplotlib.pyplot as plt
  • make new plot with some data
    • plt.plot(seq_dict[(2,10)])
    • plt.show()
  • add another curve (insert before plt.show())
    • plot.plot(seq_dict[(5,10)])
  • add legend
    • add label to each plot: e.g. plt.plot(seq_dict[(2,10)], label=str((2,10)))
    • add legend: plt.legend()
  • add loop to plot all data

for key, seq in seq_dict.items():
   plt.plot(seq, label=str(key))
plt.legent()
plt.show()