About The Project

This project will allow to get some statistics and useful preprocessing utilities before using your images in ML models.

Getting Started

Installation

In order to be able to use src_util functions. You need to install from parent directory.

pip install -e .

Usage

`get_stats.py`

e.g.

python get_stats.py -j get_stats_AIIMS.json

e.g. get_stats_AIIMS.json

{
    "directory_data": "/home/pcallec/analyze_images/data/LighOCT/Dataset/AIIMS_Dataset",
    "type_file":"bmp",
    "directory_output": "/home/pcallec/analyze_images/results",
    "suffix": "data_AIMMS"
}

directory_data: path of data
type_file: bmp. jpeg, png
directory_output: path of output directory
suffix: Suffix to name the output csv files

example shape list

,filename,filepath,shape
0,Default_0008_Mode3D_0034.bmp,/home/pcallec/analyze_images/data/LighOCT/Dataset/AIIMS_Dataset/Cancer Sample/Patient c11/Default_0008_Mode3D_0034.bmp,"(441, 245, 3)"
1,Default_0007_Mode3D_0089.bmp,/home/pcallec/analyze_images/data/LighOCT/Dataset/AIIMS_Dataset/Cancer Sample/Patient c11/Default_0007_Mode3D_0089.bmp,"(442, 245, 3)"
...

example shape list summary

,shape,qty
0,"(441, 245, 3)",5775
1,"(442, 245, 3)",3465
...

`rename_file_name.py`

e.g. rename_pig_kidney_subset.json

{
    "directory_data": "/home/pcallec/mif_outer/data/pig_kidney_subset",
    "type_file": "jpg",
    "list_old_name":["pelvis_calyx"],
    "list_new_name":["pelvis-calyx"]
}

directory_data: path of data
type_file: type of file to change name
list_old_name: list of string that if found in file would be modified
list_new_name: list of string that would be used to rename.

e.g.

python rename_file_name.py -j rename_pig_kidney_subset.json

Contact

Paul Calle - pcallec@ou.edu