Recovering data from oneplus1 after deleting /storage folder and factory reset
After few weeks of working on that, I didn't make it to recover any of my photos/videos/whatsapp chat history (the things that were most important to me)
I tried several stuff, apperently all of the recovery programs that using the adb to directly connect to the phone through the PC doesn't work well enough, as well as the programs that works from the device...

I tried this article:
http://www.dflund.se/~jokke/androidfilerecovery/
but it didn't work for some reason...

Then I tried that one :
http://forum.xda-developers.com/galaxy-nexus/general/guide-internal-memory-data-recovery-yes-t1994705
I used a centos VM to get a image of the device partiotns the way they suggested (I couldn't make the busybox work).
I mapped that file as hard disk
I tried to use 'Recuva' it seems like it managed to restore files but something apperantly went wrong and the files wasn't helpful...

I tried to use 'easeus data recovery' it worked better, it found around 20k files.. There were alot of directories and I didn't look up at it so much but it recoverd alot of photos which I think were from the whatsapp media. 

Incase someone who made the same mistake by deleting the 'storage' folder, get to this post, I recommend to turn off the phone immidietly and find a way to do that without rooting the device.. (although it might be impossible since as far as I know all of the methods I used were depends on a rooted device, but I didn't look up on this since the first thing I done is to root my device - which might be the mistake)...