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I've made a new ebuild for the daphne emulator (http://www.daphne-emu.com).
This is my first ebuild, so ... be patient :)
Anyway, it work on my machine.

Created an attachment (id=10227) [details]
Ebuild

This is the ebuild.

Created an attachment (id=10228) [details]
Digest.

This is the digest.

0.99.6 is now in portage ... i heavily modified your ebuild to make it Gentoo 
happy ... please try it out and tell me how it goes :) 

Not so well... 
g++ -O3 -march=pentium3 -mfpmath=sse -O2 -pipe -fomit-frame-pointer -mmmx -msse 
-falign-functions=4 -fforce-addr -DX86_ASM -DGCC_X86_ASM -fomit-frame-pointer 
-fexpensive-optimizations -funroll-loops `sdl-config --cflags` -DUNIX -DLINUX -DNATIVE_CPU_X86 
-DMMX_RGB2YUV -Wall -Winline -c nes_6502.cpp -o nes_6502.o 
nes_6502.cpp:47: warning: initialization of negative value `-1' to `uint32' 
nes_6502.cpp:47: warning: argument of negative value `-1' to `unsigned int' 
nes_6502.cpp:47: warning: initialization of negative value `-1' to `uint32' 
nes_6502.cpp:47: warning: argument of negative value `-1' to `unsigned int' 
nes_6502.cpp:53: warning: initialization of negative value `-1' to `uint32' 
nes_6502.cpp:53: warning: argument of negative value `-1' to `unsigned int' 
nes_6502.cpp:53: warning: initialization of negative value `-1' to `uint32' 
nes_6502.cpp:53: warning: argument of negative value `-1' to `unsigned int' 
g++ -O3 -march=pentium3 -mfpmath=sse -O2 -pipe -fomit-frame-pointer -mmmx -msse 
-falign-functions=4 -fforce-addr -DX86_ASM -DGCC_X86_ASM -fomit-frame-pointer 
-fexpensive-optimizations -funroll-loops `sdl-config --cflags` -DUNIX -DLINUX -DNATIVE_CPU_X86 
-DMMX_RGB2YUV -Wall -Winline -c cop.cpp -o cop.o 
g++ -O3 -march=pentium3 -mfpmath=sse -O2 -pipe -fomit-frame-pointer -mmmx -msse 
-falign-functions=4 -fforce-addr -DX86_ASM -DGCC_X86_ASM -fomit-frame-pointer 
-fexpensive-optimizations -funroll-loops `sdl-config --cflags` -DUNIX -DLINUX -DNATIVE_CPU_X86 
-DMMX_RGB2YUV -Wall -Winline -c copintf.cpp -o copintf.o 
{standard input}: Assembler messages: 
{standard input}:12890: Error: bad register name `%sil' 
{standard input}:18980: Error: bad register name `%sil' 
{standard input}:19022: Error: bad register name `%sil' 
{standard input}:27370: Error: bad register name `%sil' 
{standard input}:32975: Error: bad register name `%sil' 
make[1]: *** [m80.o] Error 1 
make[1]: Leaving directory `/home/portage/daphne-0.99.6/work/daphne/src/cpu' 
make: *** [sub] Error 2 
 
!!! ERROR: app-emulation/daphne-0.99.6 failed. 
!!! Function src_compile, Line 41, Exitcode 2 
!!! src build failed 
 

what?  no posting of emerge info?

Here it is.

cerrito root # emerge info
Portage 2.0.48-r5 (default-x86-1.4, gcc-3.2.3, glibc-2.3.2-r1)
=================================================================
System uname: 2.4.21 i686 Intel(R) Pentium(R) III Mobile CPU      1200MHz
GENTOO_MIRRORS="http://mi.mirror.garr.it/mirrors/gentoo http://212.219.56.162/sites/www.ibiblio.org/gentoo/ http://194.83.57.2/sites/www.ibiblio.org/gentoo/ http://194.83.57.3/sites/www.ibiblio.org/gentoo/ http://ftp.snt.utwente.nl/pub/os/linux/gentoo ftp://ftp.flashnet.it/mirror/12/sunsite.unc.edu/Gentoo http://ibiblio.org/pub/Linux/ftp.edisontel.com/pub/Sunsite_Mirror http://sunsite.cnlab-switch.ch/ftp/mirror/gentoo ftp://sunsite.cnlab-switch.ch/mirror/gentoo http://www.ibiblio.org/pub/Linux/distributions/gentoo http://gentoo.oregonstate.edu "
CONFIG_PROTECT="/etc /var/qmail/control /usr/kde/2/share/config /usr/kde/3/share/config /usr/X11R6/lib/X11/xkb /usr/kde/3.1/share/config /usr/share/config"
CONFIG_PROTECT_MASK="/etc/gconf /etc/env.d"
PORTDIR="/home/portdir"
DISTDIR="/home/portdir/distfiles"
PKGDIR="/home/portdir/packages"
PORTAGE_TMPDIR="/home"
PORTDIR_OVERLAY=""
USE="oss 3dnow foomaticdb gnome mad mikmod aalib tcltk guile ruby sdl perl gtk qt x86 acpi acl alsa apm avi berkdb bonobo cdr crypt cups directfb dga dvd encode gdbm gif gpm fbcon krb4 kerberos imlib java jpeg gtk2 gtkhtml ldap libg++ libwww miknod mmx motif mozilla mpeg ncurses nls oggvorbis opengl pam pdflib png pnp python quicktime radeon readline samba slang spell sse ssl svga tcpd truetype usb X xml2 xmms xv zlib kde arts -esd"
COMPILER="gcc3"
CHOST="i686-pc-linux-gnu"
CFLAGS="-march=pentium3 -mfpmath=sse -O2 -pipe -fomit-frame-pointer -mmmx -msse -falign-functions=4 -fforce-addr"
CXXFLAGS="-march=pentium3 -mfpmath=sse -O2 -pipe -fomit-frame-pointer -mmmx -msse -falign-functions=4 -fforce-addr"
ACCEPT_KEYWORDS="x86 ~x86"
MAKEOPTS="-j2"
AUTOCLEAN="yes"
SYNC="rsync://rsync.gentoo.org/gentoo-portage"
FEATURES="sandbox ccache"

Try it with just 

CFLAGS="-march=pentium3 -O2 -pipe"
CXXFLAGS="-march=pentium3 -O2 -pipe"

and see if that works please.

Same.

g++ -O3 -march=pentium3 -O2 -pipe -DX86_ASM -DGCC_X86_ASM -fomit-frame-pointer -fexpensive-optimizations -funroll-loops `sdl-config --cflags` -DUNIX -DLINUX -DNATIVE_CPU_X86 -DMMX_RGB2YUV -Wall -Winline -c nes_6502.cpp -o nes_6502.o
nes_6502.cpp:47: warning: initialization of negative value `-1' to `uint32'
nes_6502.cpp:47: warning: argument of negative value `-1' to `unsigned int'
nes_6502.cpp:47: warning: initialization of negative value `-1' to `uint32'
nes_6502.cpp:47: warning: argument of negative value `-1' to `unsigned int'
nes_6502.cpp:53: warning: initialization of negative value `-1' to `uint32'
nes_6502.cpp:53: warning: argument of negative value `-1' to `unsigned int'
nes_6502.cpp:53: warning: initialization of negative value `-1' to `uint32'
nes_6502.cpp:53: warning: argument of negative value `-1' to `unsigned int'
g++ -O3 -march=pentium3 -O2 -pipe -DX86_ASM -DGCC_X86_ASM -fomit-frame-pointer -fexpensive-optimizations -funroll-loops `sdl-config --cflags` -DUNIX -DLINUX -DNATIVE_CPU_X86 -DMMX_RGB2YUV -Wall -Winline -c cop.cpp -o cop.o
g++ -O3 -march=pentium3 -O2 -pipe -DX86_ASM -DGCC_X86_ASM -fomit-frame-pointer -fexpensive-optimizations -funroll-loops `sdl-config --cflags` -DUNIX -DLINUX -DNATIVE_CPU_X86 -DMMX_RGB2YUV -Wall -Winline -c copintf.cpp -o copintf.o
{standard input}: Assembler messages:
{standard input}:12940: Error: bad register name `%sil'
{standard input}:19036: Error: bad register name `%sil'
{standard input}:19079: Error: bad register name `%sil'
{standard input}:27969: Error: bad register name `%sil'
{standard input}:33635: Error: bad register name `%sil'
{standard input}:33680: Error: bad register name `%sil'
make[1]: *** [m80.o] Error 1
make[1]: Leaving directory `/home/portage/daphne-0.99.6/work/daphne/src/cpu'
make: *** [sub] Error 2

!!! ERROR: app-emulation/daphne-0.99.6 failed.
!!! Function src_compile, Line 41, Exitcode 2
!!! src build failed

do it with just CFLAGS=-pipe and CXXFLAGS=-pipe 

it appears to be a bug with march=p3 ... it works just fine with march=p4 and 
march=i686, but failed on my box with p3 :/ 
 
ill replace flags in the ebuild to change the p3 into a i686 

i guess march=i686 fails too ! 
 
i586 and pentium4 work fine, so ill filter p3/686 down to 586 :/ 

ok, those flags are now filtered 

The ebuild in portage (daphne-0.99.6-r2) doesn't filter i686/pentium3 flags.
You have to manually add the following to it:
replace-flags -march=i686 -march=i586
replace-flags -march=pentium3 -march=i586

fixed in cvs