Mercurial > repos > gregor.m > spyboat
diff spyboat_cli.py @ 4:a4c6fcf2c456 draft
"planemo upload commit 0584e8878deaf91614c6bb3c0122975300132c25"
author | gregor.m |
---|---|
date | Thu, 26 Nov 2020 16:40:47 +0000 |
parents | 4d7f30a7e2f6 |
children | d5a4180410c4 |
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--- a/spyboat_cli.py Tue Nov 24 13:06:26 2020 +0000 +++ b/spyboat_cli.py Thu Nov 26 16:40:47 2020 +0000 @@ -12,7 +12,7 @@ import output_report logging.basicConfig(level=logging.INFO, stream=sys.stdout, force=True) -logger = logging.getLogger('wrapper') +logger = logging.getLogger('spyboat-cli') # ----------command line parameters --------------- @@ -79,9 +79,10 @@ movie = spyboat.open_tif(arguments.input_path) except FileNotFoundError: logger.critical(f"Couldn't open {arguments.input_path}, check movie storage directory!") - sys.exit(1) - +# problems get logged in 'open_tif' +if movie is None: + sys.exit(1) # -------- Do (optional) spatial downsampling --------------------------- scale_factor = arguments.rescale @@ -162,8 +163,8 @@ logger.info(f'Creating report directory {arguments.report_img_path}') os.mkdir(arguments.report_img_path) - # make 6 times 4 snapshots each - Nsnap = 6 + # 4 snapshots each + Nsnap = 7 NFrames = movie.shape[0] # show only frames at least one Tmin # away from the edge (-effects)