Output Mask and Original Image¶

Write image and mask with the same name to the path specified (creates two folders within the path if they do not exist).

output_mask(device,img,mask, filename,outdir=None, mask_only=False,debug=None)

returns device, imgpath, maskpath, analysis_images

output_mask(device,img,mask, filename,outdir=None, mask_only=True,debug=None)

returns device, maskpath, analysis_images

• Parameters:
  • device - pipeline step counter
  • img - original image, read in with plantcv function read_image
  • mask - binary mask image created in previous steps (single chanel)
  • filename - vis image file name (output of plantcv read_image function)
  • outdir - output directory
  • mask_only - If True, only outputs mask
  • debug - None, print, or plot. Print = save to file, Plot = print to screen.
• Context:
  • This function was written to more easily create training sets for machine learning (eg. Naive Bayes Classifier)

from plantcv import plantcv as pcv      

device, imgpath,maskpath=pcv.output_mask(device, img, mask, 'test.png', '/home/user/images', mask_only=True, debug='print')