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1.3 KiB
1.3 KiB
Sensospot Grid
Creating nice grid images from scans
Example:
> sensospot_grid /path/to/sensospot/raw/data/folder
Help:
> sensospot_grid --help
Usage: sensospot_grid [OPTIONS] SOURCE
command line interface to process a complete raw data directory
source: the raw data directory output: directory to store the cropped
images in wells: glob pattern for well matching exposures: glob pattern
for exposure id matching scale: scale factor for the output images crop:
create cropped images for each spot
Options:
-o, --output TEXT Output directory name, defaults to new folder in
parent of source
-w, --wells TEXT restrict to this wells, * = all [default: *]
-e, --Exposures TEXT restrict to this exposure ids, * = all [default: *]
-s, --scale INTEGER scale-up of images [default: 2]
--crop create cropped images of each spots [default: False]
--help Show this message and exit.
Development
To install the development version of Sensospot Images:
git clone https://github.com/holgi/sensospot_grid.git
# create a virtual environment and install all required dev dependencies
cd sensospot_grid
make devenv
To run the tests, use make tests or make coverage for a complete report.