Gentoo Websites Logo
Go to: Gentoo Home Documentation Forums Lists Bugs Planet Store Wiki Get Gentoo!
Bug 393311 - sci-biology/emboss-6.0.1 does not respect CFLAGS="-O?"
Summary: sci-biology/emboss-6.0.1 does not respect CFLAGS="-O?"
Status: RESOLVED OBSOLETE
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: New packages (show other bugs)
Hardware: All Linux
: Normal minor (vote)
Assignee: Gentoo Science Biology related packages
URL:
Whiteboard:
Keywords:
Depends on:
Blocks:
 
Reported: 2011-12-05 19:53 UTC by Agostino Sarubbo
Modified: 2015-08-27 13:50 UTC (History)
2 users (show)

See Also:
Package list:
Runtime testing required: ---

Attachments
emboss-6.3.1_p4-r1.ebuild.patch (emboss-6.3.1_p4-r1.ebuild.patch,464 bytes, patch)
2012-02-02 17:39 UTC, Martin Mokrejš 		Details | Diff
View All Add an attachment (proposed patch, testcase, etc.)

Note You need to log in before you can comment on or make changes to this bug.
Description Agostino Sarubbo gentoo-dev 2011-12-05 19:53:12 UTC 
x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I. -I../plplot -I./ -I../ajax -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DLENDIAN -DNO_AUTH -march=native -O2 -g0 -O2 -D__amd64__ -MT embdmx.lo -MD -MP -MF .deps/embdmx.Tpo -c embdmx.c -o embdmx.o >/dev/null 2>&1
 x86_64-pc-linux-gnu-gcc -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"EMBOSS\" -DVERSION=\"6.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DHAVE_DIRENT_H=1 -DSTDC_HEADERS=1 -DHAVE_UNISTD_H=1 -DGETPGRP_VOID=1 -DHAVE_STRFTIME=1 -DHAVE_FORK=1 -DHAVE_VFORK=1 -DHAVE_WORKING_VFORK=1 -DHAVE_WORKING_FORK=1 -DHAVE_VPRINTF=1 -DHAVE_MEMMOVE=1 -DHAVE_LIBM=1 -DPLD_png=1 -I. -I../plplot -I./ -I../ajax -DAJ_LinuxLF -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -DLENDIAN -DNO_AUTH -march=native -O2 -g0 -O2 -D__amd64__ -MT embdomain.lo -MD -MP -MF .deps/embdomain.Tpo -c embdomain.c  -fPIC -DPIC -o .libs/embdomain.o


amd64box ~ # emerge --info | grep CFLA
CFLAGS="-march=native -O2 -g0"
Comment 1 Justin Lecher (RETIRED) gentoo-dev 2011-12-05 19:58:43 UTC 
prosite is a db. All files included are:


prosite-20.72/
prosite-20.72/prosite.doc
prosite-20.72/unirule.pdf
prosite-20.72/prosite.dat
prosite-20.72/prorule.dat

How do you compile code here?
Comment 2 Martin Mokrejš 2012-02-02 17:39:58 UTC 
Created attachment 300775 [details, diff]
emboss-6.3.1_p4-r1.ebuild.patch

This patch works for me. Tested with:

CFLAGS="-ggdb -pipe -march=native" emerge emboss
Comment 3 Justin Lecher (RETIRED) gentoo-dev 2015-08-27 13:50:46 UTC 
commit 08fae0a30263fd06fe51ac5b75301d574be9e1be
Author: Justin Lecher <jlec@gentoo.org>
Date:   Thu Aug 27 15:47:31 2015 +0200
    
    sci-biology/emboss: Drop old
    
    obsolets multiple bugs
    
    Gentoo-Bug: https://bugs.gentoo.org/show_bug.cgi?id=542274
    Gentoo-Bug: https://bugs.gentoo.org/show_bug.cgi?id=534418
    Gentoo-Bug: https://bugs.gentoo.org/show_bug.cgi?id=521604
    Gentoo-Bug: https://bugs.gentoo.org/show_bug.cgi?id=514014
    Gentoo-Bug: https://bugs.gentoo.org/show_bug.cgi?id=493724
    Gentoo-Bug: https://bugs.gentoo.org/show_bug.cgi?id=406279
    Gentoo-Bug: https://bugs.gentoo.org/show_bug.cgi?id=393311
    Gentoo-Bug: https://bugs.gentoo.org/show_bug.cgi?id=382321
    Gentoo-Bug: https://bugs.gentoo.org/show_bug.cgi?id=378443
    
    Package-Manager: portage-2.2.20.1
    Signed-off-by: Justin Lecher <jlec@gentoo.org>
    
    https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=08fae0a30263fd06fe51ac5b75301d574be9e1be