Can I do same with CWM or TWRP is must?
One more thought: Will it not be okay to just restore /system/media
as bootanimation.zip in that directory. If I can mount USB in recovery will it not be enough to restore only media partition why full factory reset and data format?
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Alternate Method : Noob Friendly.
First of all backup your sd card (i.e data/media)
Flash Philz Touch 6.26.6 Recovery
Hope you have OTG cable and a pendrive.
Copy the rom which you want to install on pendrive. Attach pendrive through OTG.
(backup your current rom on usbdisk. For this goto Backup and Storage. Find option backup on storage/usbdisk )
Now, select Wipe Data/Factory Reset. It will ask Wipe to install new rom,tap on it. Say Yes.
After that goto Mounts and Storage and format /data and /data/media (/sdcard). Say Yes.
Now flash your favorite custom rom.
Select the option install from sdcard. Then select usbdisk. Select your custom rom and install it
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