Refactor merging module and improve temporary directory handling #284

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Job	Run time
win	7m 28s
win	7m 28s
s3-fs	6m 13s
s3-fs	6m 13s
3.8-posix	2m 19s
3.8-posix	2m 19s
3.9-posix	2m 23s
3.9-posix	2m 23s
3.10-posix	2m 23s
3.10-posix	2m 23s
3.11-posix	4m 31s
3.11-posix	2m 23s
	48m 26s