I would like all supporting arches to please stabilise EMBOSS 4.0.0 and related packages. These were already stabilised on x86. On amd64, ppc64: sci-biology/prosite-19.36 sci-biology/rebase-610 sci-biology/aaindex-9.1 sci-biology/cutg-151 sci-biology/emboss-4.0.0 On ppc, ppc-macos: sci-biology/prosite-19.36 sci-biology/rebase-610 sci-biology/aaindex-9.1 sci-biology/cutg-151 sci-biology/emboss-4.0.0 sci-biology/embassy-domainatrix-0.1.0-r1 sci-biology/embassy-domalign-0.1.0-r1 sci-biology/embassy-domsearch-0.1.0-r1 sci-biology/embassy-emnu-1.05-r3 sci-biology/embassy-esim4-1.0.0-r3 sci-biology/embassy-hmmer-2.3.2 sci-biology/embassy-memenew-0.1.0 sci-biology/embassy-mse-1.0.0-r3 sci-biology/embassy-phylipnew-3.6b sci-biology/embassy-signature-0.1.0-r1 sci-biology/embassy-structure-0.1.0-r1 sci-biology/embassy-topo-1.0.0-r3 sci-biology/embassy-4.0.0 On sparc: None of these packages were ever stable on sparc, but I know they work perfectly at least on the (limited) sparc hardware I have access to. If you are interested in supporting EMBOSS in the stable branch, the following packages should be stabilised. Otherwise, feel free to remove your team from CC. In all cases, you really need to remove emboss from use.mask in the sparc profiles, but I will open another report for that. sci-biology/primer3-1.0.0 sci-biology/aaindex-9.1 sci-biology/cutg-151 sci-biology/prints-38.0 sci-biology/prosite-19.36 sci-biology/rebase-610 sci-biology/transfac-3.2 sci-biology/emboss-4.0.0
Do you have some test cases for these packages please?
Created attachment 101091 [details] Small test suite for EMBOSS on Gentoo Sure. Here is a small test suite. If you think something more involved is necessary, just tell me, but I am pretty confident that if this runs correctly and produces correct results, your EMBOSS installation is fine.
ppc-macos fully moved into prefix
Ok, the test script runs ok. Output seems ok as far as I can figure it out. ppc done
Created attachment 101225 [details] Output of emboss test-script Olivier: I presume the attached output is not what it should look like, is it? This is on amd64, please advise.
Created attachment 101248 [details] output from test script Here's my output on amd64...I'm not sure what's wrong with yours. What character encoding are you using?
ppc64 stable
Created attachment 102270 [details] Another emboss test suite output Let's add a third test on amd64, looks ok, so the problem seems to be on your end, Kugelfang... Emerges fine for me and seems to work ok. Portage 2.1.1-r1 (default-linux/amd64/2006.1/desktop, gcc-4.1.1, glibc-2.4-r4, 2.6.18-suspend2-Dudebox-Edition x86_64) ================================================================= System uname: 2.6.18-suspend2-Dudebox-Edition x86_64 AMD Athlon(tm) 64 Processor 3200+ Gentoo Base System version 1.12.6 Last Sync: Sat, 18 Nov 2006 05:00:01 +0000 distcc 2.18.3 x86_64-pc-linux-gnu (protocols 1 and 2) (default port 3632) [enabled] ccache version 2.3 [enabled] app-admin/eselect-compiler: [Not Present] dev-java/java-config: 1.3.7, 2.0.30 dev-lang/python: 2.4.3-r4 dev-python/pycrypto: 2.0.1-r5 dev-util/ccache: 2.3 dev-util/confcache: [Not Present] sys-apps/sandbox: 1.2.17 sys-devel/autoconf: 2.13, 2.60 sys-devel/automake: 1.4_p6, 1.5, 1.6.3, 1.7.9-r1, 1.8.5-r3, 1.9.6-r2 sys-devel/binutils: 2.16.1-r3 sys-devel/gcc-config: 1.3.13-r4 sys-devel/libtool: 1.5.22 virtual/os-headers: 2.6.11-r2 ACCEPT_KEYWORDS="amd64" AUTOCLEAN="yes" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-march=k8 -msse3 -Os -pipe" CHOST="x86_64-pc-linux-gnu" CONFIG_PROTECT="/etc /usr/kde/3.5/env /usr/kde/3.5/share/config /usr/kde/3.5/shutdown /usr/share/X11/xkb /usr/share/config /var/qmail/alias /var/qmail/control /var/vpopmail/domains /var/vpopmail/etc" CONFIG_PROTECT_MASK="/etc/env.d /etc/env.d/java/ /etc/gconf /etc/java-config/vms/ /etc/revdep-rebuild /etc/terminfo /etc/texmf/web2c" CXXFLAGS="-march=k8 -msse3 -Os -pipe" DISTDIR="/usr/portage/distfiles" FEATURES="autoconfig ccache collision-protect distcc distlocks metadata-transfer multilib-strict parallel-fetch sandbox sfperms strict test" GENTOO_MIRRORS="ftp://linux.rz.ruhr-uni-bochum.de/gentoo-mirror/ ftp:///ftp-stud.fht-esslingen.de/pub/Mirrors/gentoo/" LDFLAGS="-Wl,-O1" MAKEOPTS="-j4" PKGDIR="/usr/portage/packages" PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --compress --force --whole-file --delete --delete-after --stats --timeout=180 --exclude='/distfiles' --exclude='/local' --exclude='/packages'" PORTAGE_TMPDIR="/var/tmp" PORTDIR="/usr/portage" PORTDIR_OVERLAY="/usr/local/portage_overlay" SYNC="rsync://server/gentoo-portage" USE="amd64 X alsa apache2 berkdb bitmap-fonts cairo cdr cli cracklib crypt cups dbus dlloader dri dvd dvdr eds elibc_glibc emboss encode esd fam firefox fortran gcj gdbm gif gpm gstreamer gtk gtk2 hal iconv imap input_devices_keyboard input_devices_mouse isdnlog jpeg kde kdeenablefinal kdehiddenvisibility kernel_linux libg++ mad mikmod mp3 mpeg mysql ncurses nls nptl nptlonly objc objc++ ogg oss pam pcre perl png ppds pppd python qt3 quicktime readline reflection sdl session spell spl sqlite ssl tcpd test truetype truetype-fonts type1-fonts udev unicode userland_GNU video_cards_radeon vorbis xml xorg xv zlib" Unset: CTARGET, EMERGE_DEFAULT_OPTS, INSTALL_MASK, LANG, LC_ALL, LINGUAS, PORTAGE_RSYNC_EXTRA_OPTS
amd64 done
All arches done. Thanks to everyone.
