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My Photo gallery has double the pictures. I noticed that the path is slightly different for each duplicate picture.
Example:
Picture 1 = Path: /storage/emulated/legacy/sugarsync/pictures
Picture 1 Duplicate = Path: /storage/emulated/0/sugarsync/pictures
both those paths are the same. they are called symlink in linux. think of symlink as folder shortcut in windows.
there are total of 3 simlinks which points to the sdcard folder just like this. this is added to enable and support multiuser in Android 4.2.
so if you delete a file from one location it will be deleted from other too.
so now to your actual problem. what photo gallery app are you using? stock gallery or 3rd party