PowerPC Macintosh versions of the following biology apps are
available:
PHYLIP (Phylogeny Inference Package) Version 3.5c
by Joseph Felsenstein
fastDNAml, version 1.0.6, 20 Nov 1992
Gary Olsen & colleagues' souped up version of Felsenstein's dnaml
Clustal V Multiple Sequence Alignments.
by Des Higgins
- These are available by gopher or ftp to ftp.bio.indiana.edu,
in the IUBio-Software+Data/molbio/mac/0powermac/ folder.
- These are not official versions of the programs. I just wanted to
make available PowerPC Macintosh versions of these.
- Programs are packaged as "fat" binaries, including both PowerPC
and 68000 binaries to run on either kind of Macintosh.
Tests of fastDNAml, using data "testdata_6.phylip" supplied with source.
Computers
Intel 486 == Intel-clone 486 PC (AMD 80486 DX 20/40 MHz)
Mac Q700 == Macintosh Quadra 700 (MC 68040 25/50 MHz)
Mac PPC == Macintosh PowerPC 601 (card in Q700, 25/50 MHz)
Sparc 2 == Sun Sparcstation 2, Sparc CPU
Sparc LX == Sun Sparcstation LX, microSparc CPU
( SPECint92 26.4, SPECfp92 21.0 )
Sparc 10 == Sun SparcStation 10, model 41, SuperSparc CPU
( SPECint92 52.6, SPECfp92 64.7 )
Compilers
BC == Borland C 4.0 (Intel PC)
CW == MetroWerks CodeWarrior (Mac)
GCC == GNU CC (Sun)
MPW == Apple Macintosh Programmer's Workshop (Mac)
SunCC == ancient, non-ansi bundled C compiler (Sun)
Computer & compilation method Execution time (seconds)
Mac Q700, unoptimized (CW) 324.30
(^ not using 68040 or FPU optimizations)
Intel 486, optimized (BC) 170.92
Mac Q700, optimized (MPW) for 68040 w/FPU 63.95
Sparc 2, unoptimized (SunCC) 47.43
Sparc 2, optimized (GCC) 23.00
Sparc LX, optimized (GCC) 23.00
Mac PPC, optimized (CW) 20.20
Sparc 10, unoptimized (SunCC) 10.32
For a comparison, the DNAML program from which fastDNAml was derived,
but a newer version 3.5c, takes ~40x longer to process the same data:
dnaml 3.5c for Mac PPC, optimized (CW) 785.26
--
-- d.gilbert--biocomputing--indiana u--bloomington--gilbertd at bio.indiana.edu
