Can place jupyter notebook files here. Use the jupyter_to_md.sh script to convert the notebooks into Markdown files for the workbook.
bash jupyter_to_md.sh Tutorial1_Image_Processing_Essentials.ipynb
# Will generate Tutorial1_Image_Processing_Essentials.md
Remember to double check the following repos for updates. Notebook files are probably in the tutorials folder, also double check the repo branches.
cd tutorial # folder containing jupyter notebooks
# optional, start your conda environment which has the jupyter notebook package
jupyter notebook # Opens a browser window where you can open, edit and run a notebook file
For example, Tutorial 1 loads python libraries, imports a file, and shows it in a plot. The main change is the fact that we are not showing in a plot but saving to an image. Therefore we can create a python script like the following:
#! /usr/bin/env python
import numpy as np
import matplotlib.pyplot as plt
#%matplotlib inline #<== notice how this needs to be commented out
import imageio
import skimage.color
import skimage.transform
import scipy.ndimage as ndimage
I_camera = np.asarray(imageio.imread('data/cameraman.png'))
plt.figure() # open a new figure window
plt.imshow(I_camera, cmap='gray') # visualize the I_camera image with a grayscale colormap
# plt.show() # show the plot #<== comment out
plt.savefig('cameraman_grayscale.png') #<== Add exported file name
Then this script tutorial1.py can be called from command-line.
python tutorial1.py
ls cameraman_grayscale.png
#> -rw-r--r--@ 1 jenchang staff 131K Nov 10 11:36 cameraman_grayscale.png
This script should add argument handling (take a different png image), and probably be renamed to grayscale-ify.py, so you can reuse it.