Do you know one? Ideally it should just get a directory name and run. So, EXIF editor with per file approach is not what I am looking for. Thank you.

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To recursively remove all metadata from all JPEG images in a hierarchy of directories, use this command with exiftool:

exiftool -all= -ext jpg -r DIR

where DIR is the name of the directory. Add the -overwrite_original option to prevent creating the "_original" backup files.

If you are in Windows this can be done by renaming the Windows executable version of exiftool to this:

exiftool(-k -all= -ext jpg -r).exe

then dragging and dropping the folder onto the executable.

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That's a cool trick. – paradroid Apr 18 '11 at 17:56
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You did not state with operating system you are using, but my answers apply to any, anyway.

You should be able to do it with either jhead or ExifTool. I have not used either for some time, but I'm pretty sure there are recursive options, as I usually use them to add Exif data to all photos in a set. If not, you can always script it using the for command.

I used to use jhead, but ExifTool has more options.

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