Comment #13 on issue 1668 by chipx86: Diffs not applying cleanly circa 1.0.7 with odd line endings

Okay, so what I can do, potentially, is convert only \r\r\n and \r\n to \n.

However, your case above where the file is mostly \n characters, but with a couple extra \r characters immediately preceding the \n characters will still break. Those
will be seen as \r\n and converted to \n, which will still break.

So, pick your poison, I guess. :/

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