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I am thoroughly confused. In a terminal, without root, when I run bootanimation, it says /system/bin/sh: bootanimation: not found. But when I am root, and run it, it works. Why is this? I attached a screenshot.Here is the screenshot

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It's because SELinux is enabled at the time.
Take a look at this. Let's pick sh as a comparison. Note if you installed busybox then specify toolbox ls explicitly because SELinux-related functions in busybox is totally failing.

root@android:/system/bin # toolbox ls -Z bootanimation sh
-rwxr-xr-x root shell u:object_r:bootanim_exec:s0 bootanimation
-rwxr-xr-x root shell u:object_r:system_file:s0 sh

and...

u0_a0@android:/system/bin $ toolbox ls -Z bootanimation sh
ls: bootanimation: Permission denied
-rwxr-xr-x root shell u:object_r:system_file:s0 sh

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