It's hard to say, but the log suggests that the server is very overloaded, and running extremely slowly. The timings on the left are in seconds; these lines...
0000.111 (0) Beginning creation of dump of plugins (split every: 800 Mb)
0010.080 (0) Total entities for the zip file: 432 directories, 2615 files (0 skipped as non-modified), 40.9 Mb
10 seconds to count up 2615 files is far too high, and suggests something wrong on the server.
David