[versions] update all versions and fix tool tests (#60127)

Update all versions, specifically file which fixes some bugs that caused tests to fail if run in different orders:

- systemTemp directories created by MemoryFileSystem will allot names based on the file system instance instead of globally.
- MemoryFile.readAsLines()/readAsLinesSync() no longer treat a final newline in the file as the start of a new, empty line.
- RecordingFile.readAsLine()/readAsLinesSync() now always record a final newline.