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Bug 547318 - sci-chemistry/rasmol-2.7.5.2-r1 fails to build on ppc due to "vector" being munged during imake
Summary: sci-chemistry/rasmol-2.7.5.2-r1 fails to build on ppc due to "vector" being m...
Status: RESOLVED WONTFIX
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: Current packages (show other bugs)
Hardware: PPC Linux
: Normal normal (vote)
Assignee: Gentoo Chemistry-Related Packages
URL:
Whiteboard:
Keywords:
Depends on:
Blocks:
 
Reported: 2015-04-21 16:54 UTC by Pacho Ramos
Modified: 2017-09-12 23:21 UTC (History)
3 users (show)

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


Attachments
no-vector ebuild (rasmol-2.7.5.2-r2.ebuild,2.37 KB, text/plain)
2015-05-19 07:34 UTC, Justin Lecher (RETIRED)
Details

Note You need to log in before you can comment on or make changes to this bug.
Description Pacho Ramos gentoo-dev 2015-04-21 16:54:20 UTC
I get this:
>>> Emerging (1 of 77) sci-chemistry/rasmol-2.7.5.2-r1::gentoo
 * rasmol-2.7.5.2-13May11.tar.gz SHA256 SHA512 WHIRLPOOL size ;-) ...                                                                          [ ok ]
 * Using following Fortran compiler:
 *   F77: powerpc-unknown-linux-gnu-gfortran
 *   FC:  powerpc-unknown-linux-gnu-gfortran
>>> Unpacking source...
>>> Unpacking rasmol-2.7.5.2-13May11.tar.gz to /var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r1/work
>>> Source unpacked in /var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r1/work
>>> Preparing source in /var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r1/work/RasMol-2.7.5.2 ...
 * Applying rasmol-2.7.5.2-glib.h.patch ...                                                                                                    [ ok ]
 * Applying rasmol-2.7.5.2-format-security.patch ...                                                                                           [ ok ]
 * Applying rasmol-2.7.5.2-longlong.patch ...                                                                                                  [ ok ]
 * Applying 2.7.5-bundled-lib.patch ...                                                                                                        [ ok ]
 * Adjusting to prefix /
 *   Imakefile ...                                                                                                                             [ ok ]
imake -DGTKWIN -DUseInstalled -I/usr/lib/X11/config
In file included from /usr/lib/X11/config/Imake.tmpl:2194:0,
                 from Imakefile.c:34:
/tmp/IIf.EweRYp:292:0: error: detected recursion whilst expanding macro "vector"
        multiple.h multiple.c vector.h vector.c \
 ^
/tmp/IIf.EweRYp:292:0: error: detected recursion whilst expanding macro "vector"
/tmp/IIf.EweRYp:300:0: error: detected recursion whilst expanding macro "vector"
        multiple.o vector.o wbrotate.o langsel_unix.o maps.o $(GUIOBJ)
 ^
imake: Exit code 1.
  Stop.
 * ERROR: sci-chemistry/rasmol-2.7.5.2-r1::gentoo failed (prepare phase):
 *   xmkmf failed with 
 * 
 * Call stack:
 *     ebuild.sh, line  93:  Called src_prepare
 *   environment, line 2095:  Called die
 * The specific snippet of code:
 *       xmkmf -DGTKWIN ${myconf} || die "xmkmf failed with ${myconf}"
 * 
 * If you need support, post the output of `emerge --info '=sci-chemistry/rasmol-2.7.5.2-r1::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-chemistry/rasmol-2.7.5.2-r1::gentoo'`.
 * The complete build log is located at '/var/log/portage/build/sci-chemistry/rasmol-2.7.5.2-r1:20150421-164416.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r1/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r1/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r1/work/RasMol-2.7.5.2/src'
 * S: '/var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r1/work/RasMol-2.7.5.2'

>>> Failed to emerge sci-chemistry/rasmol-2.7.5.2-r1, Log file:

Portage 2.2.18 (python 2.7.9-final-0, default/linux/powerpc/ppc32/13.0/desktop/gnome/systemd, gcc-4.8.4, glibc-2.20-r2, 3.12.20-gentoo ppc64)
=================================================================
System uname: Linux-3.12.20-gentoo-ppc64-POWER7_-architected-with-gentoo-2.2
KiB Mem:    16514732 total,   1935612 free
KiB Swap:    7814548 total,   7778480 free
Timestamp of repository gentoo: Tue, 21 Apr 2015 14:00:01 +0000
sh bash 4.2_p53
ld GNU ld (Gentoo 2.24 p1.4) 2.24
ccache version 3.1.9 [enabled]
app-shells/bash:          4.2_p53::gentoo
dev-java/java-config:     2.2.0::gentoo
dev-lang/perl:            5.20.2::gentoo
dev-lang/python:          2.7.9-r1::gentoo, 3.4.1::gentoo
dev-util/ccache:          3.1.9-r4::gentoo
dev-util/cmake:           2.8.12.2-r1::gentoo
dev-util/pkgconfig:       0.28-r2::gentoo
sys-apps/baselayout:      2.2::gentoo
sys-apps/openrc:          0.13.11::gentoo
sys-apps/sandbox:         2.6-r1::gentoo
sys-devel/autoconf:       2.13::gentoo, 2.69::gentoo
sys-devel/automake:       1.11.6-r1::gentoo, 1.12.6::gentoo, 1.13.4::gentoo
sys-devel/binutils:       2.24-r3::gentoo
sys-devel/gcc:            4.8.4::gentoo
sys-devel/gcc-config:     1.7.3::gentoo
sys-devel/libtool:        2.4.6::gentoo
sys-devel/make:           4.1-r1::gentoo
sys-kernel/linux-headers: 3.18::gentoo (virtual/os-headers)
sys-libs/glibc:           2.20-r2::gentoo
Repositories:

gentoo
    location: /usr/portage
    sync-type: rsync
    sync-uri: rsync://rsync.gentoo.org/gentoo-portage
    priority: -1000

ACCEPT_KEYWORDS="ppc"
ACCEPT_LICENSE="*"
CBUILD="powerpc-unknown-linux-gnu"
CFLAGS="-O2 -mcpu=powerpc -mtune=powerpc -pipe -fno-stack-protector"
CHOST="powerpc-unknown-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/gnupg/qualified.txt /var/lib/hsqldb"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo"
CXXFLAGS="-O2 -mcpu=powerpc -mtune=powerpc -pipe -fno-stack-protector"
DISTDIR="/usr/portage/distfiles"
EMERGE_DEFAULT_OPTS="--quiet-build=n --autounmask-write --keep-going"
FCFLAGS="-O2 -pipe"
FEATURES="assume-digests binpkg-logs ccache config-protect-if-modified distlocks ebuild-locks fixlafiles merge-sync news parallel-fetch preserve-libs protect-owned sandbox sfperms split-log strict test-fail-continue unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync"
FFLAGS="-O2 -pipe"
GENTOO_MIRRORS="http://distfiles.gentoo.org"
LANG="en_US.UTF-8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
MAKEOPTS="-j33"
PKGDIR="/usr/portage/packages"
PORTAGE_CONFIGROOT="/"
PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --omit-dir-times --compress --force --whole-file --delete --stats --human-readable --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages"
PORTAGE_TMPDIR="/var/tmp"
USE="X a52 aac acl alsa berkdb bluetooth branding bzip2 cairo cdda cdr cli colord cracklib crypt cups cxx dbus dri dts dvd dvdr eds emboss encode evo exif fam firefox flac fortran gdbm gif glamor gnome gnome-keyring gnome-online-accounts gpm gstreamer gtk iconv introspection ipv6 jpeg lcms ldap libnotify libsecret mad mng modules mp3 mp4 mpeg nautilus ncurses nls nptl ogg opengl openmp pam pango pcre pdf png policykit ppc ppds pulseaudio qt3support qt4 readline sdl session socialweb spell ssl startup-notification svg systemd tcpd tiff truetype udev udisks unicode upower usb vorbis wxwidgets x264 xcb xml xv xvid zlib" ABI_PPC="32" ALSA_CARDS="aoa aoa-fabric-layout aoa-onyx aoa-soundbus aoa-soundbus-i2s aoa-tas aoa-toonie powermac usb-audio via82xx" APACHE2_MODULES="authn_core authz_core socache_shmcb unixd actions alias auth_basic authn_alias authn_anon authn_dbm authn_default authn_file authz_dbm authz_default authz_groupfile authz_host authz_owner authz_user autoindex cache cgi cgid dav dav_fs dav_lock deflate dir disk_cache env expires ext_filter file_cache filter headers include info log_config logio mem_cache mime mime_magic negotiation rewrite setenvif speling status unique_id userdir usertrack vhost_alias" CALLIGRA_FEATURES="kexi words flow plan sheets stage tables krita karbon braindump author" CAMERAS="ptp2" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock itrax mtk3301 nmea ntrip navcom oceanserver oldstyle oncore rtcm104v2 rtcm104v3 sirf superstar2 timing tsip tripmate tnt ublox ubx" INPUT_DEVICES="keyboard mouse evdev" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LINGUAS="en en_US" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php5-5" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 python3_4" RUBY_TARGETS="ruby19 ruby20" USERLAND="GNU" VIDEO_CARDS="fbdev glint mach64 mga nv r128 radeon savage tdfx trident dummy v4l" XTABLES_ADDONS="quota2 psd pknock lscan length2 ipv4options ipset ipp2p iface geoip fuzzy condition tee tarpit sysrq steal rawnat logmark ipmark dhcpmac delude chaos account"
Unset:  CPPFLAGS, CTARGET, INSTALL_MASK, LC_ALL, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, USE_PYTHON
Comment 1 Justin Lecher (RETIRED) gentoo-dev 2015-04-22 07:30:15 UTC
It look sot me as if it is a toolchain bug. Guys, what do you say?
Comment 2 SpanKY gentoo-dev 2015-04-22 18:43:31 UTC
(In reply to Justin Lecher from comment #1)

it depends on the context.  sometimes "vector" is a reserved word on ppc, and sometimes it is not.  maybe something like this would help in src_prepare:
  append-cppflags -Uvector
Comment 3 Justin Lecher (RETIRED) gentoo-dev 2015-04-23 06:20:18 UTC
(In reply to SpanKY from comment #2)
> src_prepare:
>   append-cppflags -Uvector

Pacho, could you please try this?
Comment 4 Pacho Ramos gentoo-dev 2015-04-23 19:21:30 UTC
Looks to fail with the same :(
>>> Emerging (1 of 1) sci-chemistry/rasmol-2.7.5.2-r1::gentoo
 * rasmol-2.7.5.2-13May11.tar.gz SHA256 SHA512 WHIRLPOOL size ;-) ...                                                                          [ ok ]
 * Using following Fortran compiler:
 *   F77: powerpc-unknown-linux-gnu-gfortran
 *   FC:  powerpc-unknown-linux-gnu-gfortran
>>> Unpacking source...
>>> Unpacking rasmol-2.7.5.2-13May11.tar.gz to /var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r1/work
>>> Source unpacked in /var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r1/work
>>> Preparing source in /var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r1/work/RasMol-2.7.5.2 ...
 * Applying rasmol-2.7.5.2-glib.h.patch ...                                                                                                    [ ok ]
 * Applying rasmol-2.7.5.2-format-security.patch ...                                                                                           [ ok ]
 * Applying rasmol-2.7.5.2-longlong.patch ...                                                                                                  [ ok ]
 * Applying 2.7.5-bundled-lib.patch ...                                                                                                        [ ok ]
 * Adjusting to prefix /
 *   Imakefile ...                                                                                                                             [ ok ]
imake -DGTKWIN -DUseInstalled -I/usr/lib/X11/config
In file included from /usr/lib/X11/config/Imake.tmpl:2194:0,
                 from Imakefile.c:34:
/tmp/IIf.S4s1DY:292:0: error: detected recursion whilst expanding macro "vector"
        multiple.h multiple.c vector.h vector.c \
 ^
/tmp/IIf.S4s1DY:292:0: error: detected recursion whilst expanding macro "vector"
/tmp/IIf.S4s1DY:300:0: error: detected recursion whilst expanding macro "vector"
        multiple.o vector.o wbrotate.o langsel_unix.o maps.o $(GUIOBJ)
 ^
imake: Exit code 1.
  Stop.
 * ERROR: sci-chemistry/rasmol-2.7.5.2-r1::gentoo failed (prepare phase):
 *   xmkmf failed with 
 * 
 * Call stack:
 *     ebuild.sh, line  93:  Called src_prepare
 *   environment, line 2430:  Called die
 * The specific snippet of code:
 *       xmkmf -DGTKWIN ${myconf} || die "xmkmf failed with ${myconf}";
 * 
 * If you need support, post the output of `emerge --info '=sci-chemistry/rasmol-2.7.5.2-r1::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-chemistry/rasmol-2.7.5.2-r1::gentoo'`.
 * The complete build log is located at '/var/log/portage/build/sci-chemistry/rasmol-2.7.5.2-r1:20150423-191214.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r1/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r1/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r1/work/RasMol-2.7.5.2/src'
 * S: '/var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r1/work/RasMol-2.7.5.2'
Comment 5 SpanKY gentoo-dev 2015-05-17 06:52:05 UTC
it's failing because imake runs the preprocessor with -traditional.  the powerpc target will '#define vector ...' when it is not operating in iso mode.  which is exactly what the -traditional flag does -- turn off iso mode.

if imake wants to keep the -traditional flag, then it can be worked around in rasmol itself by adding to the src/Imakefile a line like:
#undef vector

since gcc is specifically being invoked in non-iso mode, i don't think we'll look at changing it.
Comment 6 Justin Lecher (RETIRED) gentoo-dev 2015-05-18 07:01:49 UTC
+*rasmol-2.7.5.2-r2 (18 May 2015)
+
+  18 May 2015; Justin Lecher <jlec@gentoo.org> +rasmol-2.7.5.2-r2.ebuild:
+  Drop -traditional from CPPFLAGS, bug #547318; enhance preprocessor definitions
+


Could you please try -r2?
Comment 7 Pacho Ramos gentoo-dev 2015-05-18 19:59:00 UTC
Still fails :(
>>> Emerging (1 of 1) sci-chemistry/rasmol-2.7.5.2-r2::gentoo
 * rasmol-2.7.5.2-13May11.tar.gz SHA256 SHA512 WHIRLPOOL size ;-) ...                                                                          [ ok ]
 * Using following Fortran compiler:
 *   F77: powerpc-unknown-linux-gnu-gfortran
 *   FC:  powerpc-unknown-linux-gnu-gfortran
>>> Unpacking source...
>>> Unpacking rasmol-2.7.5.2-13May11.tar.gz to /var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r2/work
>>> Source unpacked in /var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r2/work
>>> Preparing source in /var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r2/work/RasMol-2.7.5.2 ...
 * Applying rasmol-2.7.5.2-glib.h.patch ...                                                                                                    [ ok ]
 * Applying rasmol-2.7.5.2-format-security.patch ...                                                                                           [ ok ]
 * Applying rasmol-2.7.5.2-longlong.patch ...                                                                                                  [ ok ]
 * Applying 2.7.5-bundled-lib.patch ...                                                                                                        [ ok ]
 * Adjusting to prefix /
 *   Imakefile ...                                                                                                                             [ ok ]
imake -DGTKWIN -DUseInstalled -I/usr/lib/X11/config
In file included from /usr/lib/X11/config/Imake.tmpl:2194:0,
                 from Imakefile.c:34:
/tmp/IIf.beXG8v:2:0: warning: "GTKWIN" redefined [enabled by default]
 #define GTKWIN
 ^
<command-line>:13:0: note: this is the location of the previous definition
In file included from /usr/lib/X11/config/Imake.tmpl:2194:0,
                 from Imakefile.c:34:
/tmp/IIf.beXG8v:294:0: error: detected recursion whilst expanding macro "vector"
        multiple.h multiple.c vector.h vector.c \
 ^
/tmp/IIf.beXG8v:294:0: error: detected recursion whilst expanding macro "vector"
/tmp/IIf.beXG8v:302:0: error: detected recursion whilst expanding macro "vector"
        multiple.o vector.o wbrotate.o langsel_unix.o maps.o $(GUIOBJ)
 ^
imake: Exit code 1.
  Stop.
 * ERROR: sci-chemistry/rasmol-2.7.5.2-r2::gentoo failed (prepare phase):
 *   xmkmf failed with 
 * 
 * Call stack:
 *     ebuild.sh, line  93:  Called src_prepare
 *   environment, line 2140:  Called die
 * The specific snippet of code:
 *       xmkmf -DGTKWIN || die "xmkmf failed with ${myconf}"
 * 
 * If you need support, post the output of `emerge --info '=sci-chemistry/rasmol-2.7.5.2-r2::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-chemistry/rasmol-2.7.5.2-r2::gentoo'`.
 * The complete build log is located at '/var/log/portage/build/sci-chemistry/rasmol-2.7.5.2-r2:20150518-195100.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r2/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r2/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r2/work/RasMol-2.7.5.2/src'
 * S: '/var/tmp/portage/sci-chemistry/rasmol-2.7.5.2-r2/work/RasMol-2.7.5.2'
Comment 8 Justin Lecher (RETIRED) gentoo-dev 2015-05-19 07:17:33 UTC
I have no idea. The -traditional seems not to be the problem.
Comment 9 Justin Lecher (RETIRED) gentoo-dev 2015-05-19 07:34:37 UTC
Created attachment 403606 [details]
no-vector ebuild

Could you please try this ebuild?
Comment 10 SpanKY gentoo-dev 2015-05-19 08:17:25 UTC
(In reply to Justin Lecher from comment #8)

imake itself has -traditional in it:
$ strings -a /usr/bin/imake | grep -e-trad
-traditional

as does the X11 config files that imake reads:
$ grep -e-traditional /usr/lib/X11/*
/usr/lib/X11/config/linux.cf:#define StandardCppOptions -traditional

that's why i cc-ed the x11 team here.
Comment 11 Pacho Ramos gentoo-dev 2015-05-19 18:42:29 UTC
(In reply to Justin Lecher from comment #9)
> Created attachment 403606 [details]
> no-vector ebuild
> 
> Could you please try this ebuild?

Should I wait then for x11 team reply to vapier's comment #10? :)
Comment 12 Justin Lecher (RETIRED) gentoo-dev 2015-05-20 07:23:56 UTC
(In reply to Pacho Ramos from comment #11)
> (In reply to Justin Lecher from comment #9)
> > Created attachment 403606 [details]
> > no-vector ebuild
> > 
> > Could you please try this ebuild?
> 
> Should I wait then for x11 team reply to vapier's comment #10? :)

X11 must help. The ebuild works around a problem which I found in the web in where the preprocessor gets confused by vector in comments. It's just a try, but could work.
Comment 13 Pacho Ramos gentoo-dev 2015-05-23 09:31:20 UTC
@jlec, it works! \o/ :D
Comment 14 Justin Lecher (RETIRED) gentoo-dev 2015-05-23 15:44:37 UTC
(In reply to Pacho Ramos from comment #13)
> @jlec, it works! \o/ :D

So it is the bug Mike referenced to. Thanks for testing.
Comment 15 Matt Turner gentoo-dev 2017-09-12 23:21:28 UTC
I'm marking as WONTFIX since I'm dropping rasmol's ppc keywords.