The sentence can be punctuated more clearly to show the quick change between ideas. A corrected version could be:
"In the end...everyone was safe; the sunset was a good day."
This corrected sentence uses a semicolon to clearly separate the two related but distinct ideas. However, if you want to maintain the ellipsis for a dramatic pause, you could also consider:
"In the end... everyone was safe... the sunset marked a good day."
Choose the version that best fits the tone you want to convey!