GameCube AR codes with Ocarina

I've recently learned that Action Replay codes can be converted to work with the Ocarina, but I'm not so sure how to use it.
I have the two programs to convert: gcncrypt (AR Codes decryption) and ARtoWiiRD (AR Code decryption to Ocarina code). These two programs are on the computer.

1) I don't know where the .gct file should be located. I'm using Configurable USB Loader (CFG) and DIOS MIOS 2.2.
Should the path be usb:/codes/[GAMEID].gct or sd:/codes/[GAMEID].gct?

2) Some code conversions result in only a one-line code.
For example:

Spoiler

These Pokemon Colosseum AR Codes

Code:

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OUT OF BATTLE CODES:
BQ2K-1T4K-QRTV6

HAVE 9999 OF THE FOLLOWING IN PC:
U7HG-EAXC-MR0T2

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converted into a decryption looks like this:

Code:

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OUT OF BATTLE CODES:
0522D3E6 05008000

HAVE 9999 OF THE FOLLOWING IN PC:
0522D423 05008000

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I'm not sure if these codes will work at all, because the first line in each code has to be deleted because the first line does not function with Ocarina. Plugging these codes into ARtoWiiRD results in the same code.

3) Are games required to have the master code in order for the codes to be enabled?

Thanks in advance :)

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