Script name : chsort.sh
Author : Maciej Dobrzynski
Date created : 20171243
Last update : 20190207
Purpose : Process files in the specified directory and move them to folders based on the filename.
Example usage: Assume we have a directory ~/test with files: RhoA2G_LA_1s_01_w26TIRFFRETacceptor_t75.TIF, RhoA2G_LA_1s_01_w16TIRF CFP_t67.TIF etc.
The filenames above contain:
- experiment name, RhoA2G_LA_1s_01
- channel name w16TIRF CFP
- time point, t67
"./chsort ~/test" puts these files into subfolders based on experiment name and channel name: RhoA2G_LA_1s_01/w26TIRFFRETacceptor/RhoA2G_LA_1s_01_w26TIRFFRETacceptor_t75.TIF RhoA2G_LA_1s_01/w16TIRF-CFP/RhoA2G_LA_1s_01_w16TIRF-CFP_t67.TIF
Note, spaces in subfolders and file names are replaced by dashes.
Reg-ex pattern for extracting folder names from the filename defined by variable regex.
After executing chsort.sh, the remaining nd files can be moved to their respective folders (based on the filename) using fsort.sh script.
WARNING: uses GNU getopt Standard OSX installation of getopt doesn't support long params Install through macports sudo port install getopt
Tested on: OSX 10.11.6 (Darwin Kernel Version 15.6.0) Ubuntu 16.04.2 LTS