we always formatted the disks in at least 3 partition, 1- for OS files, 2- data files, 3- scratch space for all the temp files that change dynamically. i used to do sysadmin work on unix systems about 15 years ago. at least that is my current working theory. with the virtual memory file on the partition with the OS files, which are changing that much, then the data files on the other partition don't also get scrambled so much. and since it is always change size, it affects where the data files get written. i believe it is because the swap, which stays on the root volume with the operating system dynamically grows a lot. personally i find partitioning the hard drive to be helpful at reducing the fragmentation. after i had a new hard disk installed, partitioned and installed the os, and restored all the files, my powerbook G4 is running circles around my dual powermac G5. On my powerbook at home, my hard drive died last fall. either run techtoolpro or drive genius or just reformat and reinstall. i am now trying to decide about how best to defrag. in recent months, the fragmentation is so bad that the disk makes popcorn even when booting. i have never filled the disk more than about 1/2 way. however, in my experience, fragmentation still happens. i had some years ago that osx has software the limits fragmentation. These articles are interesting about the fragmentation problem.
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