Bugzilla Bug 135318

Hi archs,

this is a maintainer request to mark dev-lang/R-2.2.1 stable on

~ia64 ~ppc ~ppc64 ~sparc ~x86

To test before marking, please use the built-in testcases via FEATURES="test".

I'd also like you guys to test it both with your stable gcc and (if available)
gcc-4.1.x, as R makes extensive use of Fortran and gcc has switched from g77
to gfortran in gcc-4.

TIA

Compiled fine with GCC 3.4 on x86 and FEATURES="test"

mark@rockley ~ $ emerge --info
Portage 2.0.54-r2 (default-linux/x86/2006.0, gcc-3.4.6, glibc-2.3.6-r3,
2.6.15-gentoo-r1 i586)
=================================================================
System uname: 2.6.15-gentoo-r1 i586 AMD-K6(tm) 3D processor
Gentoo Base System version 1.6.14
dev-lang/python:     2.3.5-r2, 2.4.2
dev-python/pycrypto: 2.0.1-r5
dev-util/ccache:     [Not Present]
dev-util/confcache:  [Not Present]
sys-apps/sandbox:    1.2.17
sys-devel/autoconf:  2.13, 2.59-r7
sys-devel/automake:  1.4_p6, 1.5, 1.6.3, 1.7.9-r1, 1.8.5-r3, 1.9.6-r1
sys-devel/binutils:  2.16.1-r2
sys-devel/libtool:   1.5.22
virtual/os-headers:  2.6.11-r2
ACCEPT_KEYWORDS="x86"
AUTOCLEAN="yes"
CBUILD="i586-pc-linux-gnu"
CFLAGS="-O2 -march=k6-2 -pipe -fomit-frame-pointer"
CHOST="i586-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/lib/X11/xkb /usr/lib/mozilla/defaults/pref"
CONFIG_PROTECT_MASK="/etc/gconf /etc/terminfo /etc/env.d"
CXXFLAGS="-O2 -march=k6-2 -pipe -fomit-frame-pointer"
DISTDIR="/usr/portage/distfiles"
FEATURES="autoconfig collision-protect distlocks sandbox sfperms strict"
GENTOO_MIRRORS="ftp://mirror.pacific.net.au/linux/Gentoo
http://mirror.pacific.net.au/linux/Gentoo ftp://mirror.isp.net.au/pub/gentoo
http://mirror.isp.net.au/ftp/pub/gentoo"
MAKEOPTS="-j2"
PKGDIR="/usr/portage/packages"
PORTAGE_TMPDIR="/var/tmp"
PORTDIR="/usr/portage"
PORTDIR_OVERLAY="/usr/local/portage"
SYNC="rsync://192.168.0.145/gentoo-portage"
USE="x86 3dnow X alsa apache2 apm audiofile avi berkdb bitmap-fonts bzip2 cli
crypt cups curl dri eds emboss encode esd exif expat fam foomaticdb fortran gd
gdbm gif glut gmp gpm gstreamer gtk gtk2 idn imagemagick imlib ipv6 isdnlog
java jpeg lcms libg++ libwww mad mikmod mng motif mozilla mp3 mpeg ncurses nls
nptl ogg openal opengl oss pam pcre pdflib perl png ppds pppd python quicktime
readline reflection samba sdl session spell spl ssl svga tcpd tiff truetype
truetype-fonts type1-fonts udev usb vorbis wmf xml xml2 xmms xorg xv xvid zlib
userland_GNU kernel_linux elibc_glibc"
Unset:  CTARGET, INSTALL_MASK, LANG, LC_ALL, LDFLAGS, LINGUAS,
PORTAGE_RSYNC_EXTRA_OPTS, PORTAGE_RSYNC_OPTS

Created an attachment (id=88490) [details]
emerge --info for Matthias Langer

i've done some testing with R-2.2.1 [ +X -blas -debug +jpeg -lapack +nls +png
+readline +tcltk ] on x86. seems to be fine as far as i can tell; there just
seems to be (cosmetic?) issue with "demo(graphics)":

> title(main = "Simple Use of Color In a Plot", xlab = "Just a Whisper of a Label",
    col.main = "blue", col.lab = gray(0.8), cex.main = 1.2, cex.lab = 1,
    font.main = 4, font.lab = 3)
Error in title(main = "Simple Use of Color In a Plot", xlab = "Just a Whisper
of a Label",  :
        X11 font at size 14 could not be loaded

PS: i've attached "emerge --info" for the case it is "too long". if i should
not do this in the future, just tell me.

Compiles and tests (FEATURES="test") correctly on x86.

abel sean345 # emerge --info
Portage 2.0.54-r2 (default-linux/x86/2006.0, gcc-3.4.6, glibc-2.3.6-r3,
2.6.16-gentoo-r6 i686)
=================================================================
System uname: 2.6.16-gentoo-r6 i686 Intel(R) Celeron(TM) CPU               
1200MHz
Gentoo Base System version 1.6.14
dev-lang/python:     2.4.2
dev-python/pycrypto: [Not Present]
dev-util/ccache:     [Not Present]
dev-util/confcache:  [Not Present]
sys-apps/sandbox:    1.2.17
sys-devel/autoconf:  2.13, 2.59-r7
sys-devel/automake:  1.4_p6, 1.5, 1.6.3, 1.7.9-r1, 1.8.5-r3, 1.9.6-r1
sys-devel/binutils:  2.16.1-r2
sys-devel/libtool:   1.5.22
virtual/os-headers:  2.6.11-r2
ACCEPT_KEYWORDS="x86"
AUTOCLEAN="yes"
CBUILD="i686-pc-linux-gnu"
CFLAGS="-O2 -march=pentium3 -fomit-frame-pointer -pipe"
CHOST="i686-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/lib/X11/xkb"
CONFIG_PROTECT_MASK="/etc/gconf /etc/terminfo /etc/env.d"
CXXFLAGS="-O2 -march=pentium3 -fomit-frame-pointer -pipe"
DISTDIR="/usr/portage/distfiles"
FEATURES="autoconfig distlocks sandbox sfperms strict"
GENTOO_MIRRORS="ftp://ftp.ucsb.edu/pub/mirrors/linux/gentoo/"
MAKEOPTS="-j2"
PKGDIR="/usr/portage/packages"
PORTAGE_TMPDIR="/var/tmp"
PORTDIR="/usr/portage"
SYNC="rsync://rsync.us.gentoo.org/gentoo-portage"
USE="x86 X aac alsa apache2 apm audiofile avi berkdb bitmap-fonts bzip2 cairo
cli crypt cups dri dvd emboss encode exif expat fam foomaticdb fortran gdbm gif
glut gpm gtk gtk2 imagemagick imlib ipv6 isdnlog jpeg lcms libg++ libwww mad
mikmod mmx mng motif mp3 mpeg ncurses nls nptl ogg opengl oss pam pcre pdflib
perl png pppd python quicktime readline reflection sdl session spell spl sse
ssl svga tcpd tiff truetype truetype-fonts type1-fonts udev usb vorbis xml xml2
xmms xorg xv zlib userland_GNU kernel_linux elibc_glibc"
Unset:  CTARGET, INSTALL_MASK, LANG, LC_ALL, LDFLAGS, LINGUAS,
PORTAGE_RSYNC_EXTRA_OPTS, PORTAGE_RSYNC_OPTS, PORTDIR_OVERLAY

stable on ppc64. passes all tests with gcc-3.4.6 and gcc-4.1.1 :-)

Tests fail on SPARC with the following:

>>> Test phase [check]: dev-lang/R-2.2.1
make[1]: Entering directory `/var/tmp/portage/R-2.2.1/work/R-2.2.1/tests'
make[2]: Entering directory `/var/tmp/portage/R-2.2.1/work/R-2.2.1/tests'
make[3]: Entering directory
`/var/tmp/portage/R-2.2.1/work/R-2.2.1/tests/Examples'
make[4]: Entering directory
`/var/tmp/portage/R-2.2.1/work/R-2.2.1/tests/Examples'
make[4]: Leaving directory
`/var/tmp/portage/R-2.2.1/work/R-2.2.1/tests/Examples'
make[4]: Entering directory
`/var/tmp/portage/R-2.2.1/work/R-2.2.1/tests/Examples'
running code in 'base-Ex.R' ...make[4]: *** [base-Ex.Rout] Error 1
make[4]: Leaving directory
`/var/tmp/portage/R-2.2.1/work/R-2.2.1/tests/Examples'
make[3]: *** [test-Examples-Base] Error 2
make[3]: Leaving directory
`/var/tmp/portage/R-2.2.1/work/R-2.2.1/tests/Examples'
make[2]: *** [test-Examples] Error 2
make[2]: Leaving directory `/var/tmp/portage/R-2.2.1/work/R-2.2.1/tests'
make[1]: *** [test-all-basics] Error 1
make[1]: Leaving directory `/var/tmp/portage/R-2.2.1/work/R-2.2.1/tests'
make: *** [check] Error 2

x86 done... thanks for the testing, guys...

Sparc: Can you guys please check if it passes the tests of the currently stable
version? TIA! Further did you test with gcc-3.4 or gcc-4.1?

With gcc-3.4.6-r1 on SB1000-SMP (profile=2006.0), R-2.1.1 runs its tests
without any problem. I ran

FEATURES=test ebuild R-2.1.1.ebuild fetch unpack compile install
and watched the entire process; it did run all tests, and they all passed.

USE="X blas jpeg nls png readline tcltk -debug"
and native fortran from gcc.

I'll try 2.2.1 on my system as well, to see if I duplicate Jason's failure.
(USE="X blas jpeg nls png readline tcltk -debug -lapack" for this build.)

(In reply to comment #8)
> With gcc-3.4.6-r1 on SB1000-SMP (profile=2006.0), R-2.1.1 runs its tests
> without any problem. I ran
> 
> FEATURES=test ebuild R-2.1.1.ebuild fetch unpack compile install
> and watched the entire process; it did run all tests, and they all passed.
> 
> USE="X blas jpeg nls png readline tcltk -debug"
> and native fortran from gcc.
> 
> I'll try 2.2.1 on my system as well, to see if I duplicate Jason's failure.
> (USE="X blas jpeg nls png readline tcltk -debug -lapack" for this build.)
> 

Curious.  For me,
FEATURES=test ebuild R-2.2.1.ebuild unpack compile install
ran all the tests successfully.  Everything as above (note USE= values), and
both gcc and g77 use flags
CFLAGS=FFLAGS="-O2 -pipe -mcpu=ultrasparc3"

So, it must be a compiler version issue, CFLAGS issue, or USE= issue, I
suppose.

For completeness, I ran
FEATURES=test emerge R
which on the system as above builds and installs R-2.3.1
This also ran all tests successfully.  So, I think we are looking at some
configuration sensitivity problem.  (I used same compiler, USE= values, CFLAGS,
and FFLAGS as previously stated.)

Here's a long shot to consider.  I notice that the test which fails for Weeve
generates a lot of plots in a .ps file.  I don't know how R generates
postscript, but if this is what is failing, there might be a missing DEPEND in
the ebuild?

Marked stable by hansmi, thanks :)
Removing ppc from cc

sparc: Couldn't reproduce the test failing on a fresh stage3: it _seems_ deps
are correct. Please consider marking it stable, as we got at least one
successful
test and no problems on other arches.

Weeve: could you please retry? Further, could you retry on a fresh stage3?


ia64 done.

Forgot to remove ia64 from CC.

sparc stable.

All done