SIM_GENERATOR

A little command line utility to generate pattern images for structured illumination microscopy

Installation

Head over to the release page and download the latest executable pattern_gen.exe.

Usage

Minimum usage

From the directory that pattern_gen.exe is in

pattern_gen <image_height> <image_width> <pattern_bar_width> --phase_shifts <n_shifts>

Example with all arguments

pattern_gen 256 256 16 --phase_shifts 3 --output_directory D:\SIM_GENERATOR\DemoPatterns --orientation horizontal --file_format jpg --bits 8 --full_depth True

Will generate the following images |phi_01.jpg |phi_02.jpg |phi_03.jpg| |--- |---|---| | | ||

| Argument | Type | Optional? | Default | Options | Desc | Example | | ---------------- | ------------- | --------- | ------------------------ | --------------------------- | ---------------------------------------------------------------------------------------------------------------------------- | ------------------------------------------ | | Positional Args | (int int int) | False | NONE | NONE | Image Height, Image Width, & Bar width | 1024 986 32 | | phase shifts | int | False | NONE | 0<n<inf | How many phase shift images | --phase_shifts 5 | | output directory | str | True | ~exe location\patterns | | where to save pattern images | --output_directory C:\Users\Thanos\Stuff | | orientation | str | True | vertical | vertical or horizontal | which way should the bars be oriented | --orientation vertical | | file format | str | True | bmp | bmp tiff tif jpg jpeg png | File type | --file_format tif | | bits | int | True | 8 | 8 16 32 | Bit depth of image | --bits 16 | | full depth | bool | True | True | True False | If true Use full range of bitdepth e.g 255 for 8 otherwise image will be 0 or 1. When bits==32 option overides toFalse | --full_depth True | | bar type | str | True | solid | solid triangle sine | Type of waveform | --bar_type sine |

Requests

If you have a feauture request open an issue and let me know.