135318 2006-06-02 13:23 0000 [Stable] dev-lang/R-2.2.1 2006-09-05 05:18:38 0000 1 1 1 Unclassified Gentoo Linux Ebuilds unspecified All Linux RESOLVED FIXED P2 normal --- 1 kugelfang@gentoo.org sci@gentoo.org carenas@sajinet.com.pe mark_alec@gentoo.org kugelfang@gentoo.org 2006-06-02 13:23:22 0000 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 mark_alec@gentoo.org 2006-06-04 06:14:01 0000 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 mlangc@gmx.at 2006-06-05 18:15:33 0000 Created an attachment (id=88490) 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. blackfrog@pagemac.com 2006-06-05 19:10:00 0000 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 corsair@gentoo.org 2006-06-06 11:50:40 0000 stable on ppc64. passes all tests with gcc-3.4.6 and gcc-4.1.1 :-) weeve@gentoo.org 2006-06-06 17:48:00 0000 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 wolf31o2@gentoo.org 2006-06-06 19:21:34 0000 x86 done... thanks for the testing, guys... kugelfang@gentoo.org 2006-06-08 00:23:14 0000 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? fmccor@gentoo.org 2006-06-08 05:43:21 0000 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.) fmccor@gentoo.org 2006-06-08 06:20:32 0000 (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. fmccor@gentoo.org 2006-06-08 06:55:13 0000 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.) fmccor@gentoo.org 2006-06-08 07:54:39 0000 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? nixnut@gentoo.org 2006-06-10 04:06:29 0000 Marked stable by hansmi, thanks :) Removing ppc from cc kugelfang@gentoo.org 2006-06-17 13:55:49 0000 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. kugelfang@gentoo.org 2006-06-17 14:33:39 0000 Forgot to remove ia64 from CC. fmccor@gentoo.org 2006-08-07 05:52:04 0000 sparc stable. armin76@gentoo.org 2006-09-05 05:18:38 0000 All done 88490 2006-06-05 18:15 0000 emerge --info for Matthias Langer emerge.info text/plain R2VudG9vIEJhc2UgU3lzdGVtIHZlcnNpb24gMS42LjE0ClBvcnRhZ2UgMi4wLjU0LXIyIChkZWZh dWx0LWxpbnV4L3g4Ni8yMDA2LjAsIGdjYy0zLjQuNiwgZ2xpYmMtMi4zLjYtcjMsIDIuNi4xNi1n ZW50b28tcjcgaTY4NikKPT09PT09PT09PT09PT09PT09PT09PT09PT09PT09PT09PT09PT09PT09 PT09PT09PT09PT09PT09PT09PT09PT0KU3lzdGVtIHVuYW1lOiAyLjYuMTYtZ2VudG9vLXI3IGk2 ODYgQU1EIEF0aGxvbih0bSkgWFAgMjQwMCsKZGV2LWxhbmcvcHl0aG9uOiAgICAgMi4zLjUtcjIs IDIuNC4yCmRldi1weXRob24vcHljcnlwdG86IFtOb3QgUHJlc2VudF0KZGV2LXV0aWwvY2NhY2hl OiAgICAgW05vdCBQcmVzZW50XQpkZXYtdXRpbC9jb25mY2FjaGU6ICBbTm90IFByZXNlbnRdCnN5 cy1hcHBzL3NhbmRib3g6ICAgIDEuMi4xNwpzeXMtZGV2ZWwvYXV0b2NvbmY6ICAyLjEzLCAyLjU5 LXI3CnN5cy1kZXZlbC9hdXRvbWFrZTogIDEuNF9wNiwgMS41LCAxLjYuMywgMS43LjktcjEsIDEu OC41LXIzLCAxLjkuNi1yMQpzeXMtZGV2ZWwvYmludXRpbHM6ICAyLjE2LjEtcjIKc3lzLWRldmVs L2xpYnRvb2w6ICAgMS41LjIyCnZpcnR1YWwvb3MtaGVhZGVyczogIDIuNi4xMS1yMgpBQ0NFUFRf S0VZV09SRFM9Ing4NiIKQVVUT0NMRUFOPSJ5ZXMiCkNCVUlMRD0iaTY4Ni1wYy1saW51eC1nbnUi CkNGTEFHUz0iLW1hcmNoPWF0aGxvbi14cCAtTzIgLXBpcGUiCkNIT1NUPSJpNjg2LXBjLWxpbnV4 LWdudSIKQ09ORklHX1BST1RFQ1Q9Ii9ldGMgL3Vzci9rZGUvMy40L2VudiAvdXNyL2tkZS8zLjQv c2hhcmUvY29uZmlnIC91c3Iva2RlLzMuNC9zaHV0ZG93biAvdXNyL2tkZS8zLjUvZW52IC91c3Iv a2RlLzMuNS9zaGFyZS9jb25maWcgL3Vzci9rZGUvMy41L3NodXRkb3duIC91c3IvbGliL1gxMS94 a2IgL3Vzci9zaGFyZS9jb25maWcgL3Vzci9zaGFyZS90ZXhtZi9kdmlwZGZtL2NvbmZpZy8gL3Vz ci9zaGFyZS90ZXhtZi9kdmlwcy9jb25maWcvIC91c3Ivc2hhcmUvdGV4bWYvdGV4L2dlbmVyaWMv Y29uZmlnLyAvdXNyL3NoYXJlL3RleG1mL3RleC9wbGF0ZXgvY29uZmlnLyAvdXNyL3NoYXJlL3Rl eG1mL3hkdmkvIgpDT05GSUdfUFJPVEVDVF9NQVNLPSIvZXRjL2djb25mIC9ldGMvdGVybWluZm8g L2V0Yy9lbnYuZCIKQ1hYRkxBR1M9Ii1tYXJjaD1hdGhsb24teHAgLU8yIC1waXBlIgpESVNURElS PSIvdXNyL3BvcnRhZ2UvZGlzdGZpbGVzIgpGRUFUVVJFUz0iYXV0b2NvbmZpZyBjb2xsaXNpb24t cHJvdGVjdCBkaXN0bG9ja3Mgc2FuZGJveCBzZnBlcm1zIHN0cmljdCB0ZXN0IgpHRU5UT09fTUlS Uk9SUz0iaHR0cDovL2dlbnRvby55bmV0LnNrL3B1YiAiCkxBTkc9ImVuX1VTLnV0ZjgiCkxDX0FM TD0iZW5fVVMudXRmOCIKTElOR1VBUz0iZW4gZGUiCk1BS0VPUFRTPSItajIiClBLR0RJUj0iL3Vz ci9wb3J0YWdlL3BhY2thZ2VzIgpQT1JUQUdFX1RNUERJUj0iL3Zhci90bXAiClBPUlRESVI9Ii91 c3IvcG9ydGFnZSIKUE9SVERJUl9PVkVSTEFZPSIvdXNyL2xvY2FsL3BvcnRhZ2UiClNZTkM9InJz eW5jOi8vcnN5bmMuZXVyb3BlLmdlbnRvby5vcmcvZ2VudG9vLXBvcnRhZ2UiClVTRT0ieDg2IDNk bm93IDNkbm93ZXh0IFggYTUyIGFhYyBhYWxpYiBhY3BpIGFsc2EgYXBtIGF1ZGlvZmlsZSBhdmkg YmVya2RiIGJpdG1hcC1mb250cyBib25vYm8gYnppcDIgY2Fpcm8gY2RyIGNsaSBjcnlwdCBjc3Mg Y3VwcyBjdXJsIGRidXMgZHJpIGR0cyBkdmQgZHZkciBkdmRyZWFkIGVkcyBlbWJvc3MgZW5jb2Rl IGV4aWYgZXhwYXQgZmFtIGZiY29uIGZmbXBlZyBmaXJlZm94IGZsYWMgZm9vbWF0aWNkYiBmb3J0 cmFuIGdkIGdkYm0gZ2lmIGdpbmFjIGdsdXQgZ21wIGdub21lIGdwaG90bzIgZ3BtIGdzdHJlYW1l ciBndGsgZ3RrMiBndGtodG1sIGd1aWxlIGhhbCBpY3EgaWRuIGltYWdlbWFnaWNrIGltbGliIGlw djYgaXNkbmxvZyBqYXZhIGphdmFzY3JpcHQganBlZyBqcGVnMmsganVuaXQgbGNtcyBsaWJnKysg bGlid3d3IG1hZCBtYXRyb3NrYSBtaWttb2QgbWltZSBtbXggbW14ZXh0IG1uZyBtb3RpZiBtb3pz dmcgbXAzIG1wZWcgbXNuIG5hdXRpbHVzIG5jdXJzZXMgbmxzIG5wdGwgbnNwbHVnaW4gbnZpZGlh IG9mZmVuc2l2ZSBvZ2cgb2dndm9yYmlzIG9wZW5hbCBvcGVuZ2wgcGFtIHBjcmUgcGRmbGliIHBl cmwgcGxvdHV0aWxzIHBuZyBwb3NpeCBwcHBkIHB5dGhvbiBxdWlja3RpbWUgcmVhZGxpbmUgcmVh bCByZWZsZWN0aW9uIHJ1Ynkgc2RsIHNlc3Npb24gc2xhbmcgc29ja2V0cyBzcGVleCBzcGVsbCBz cGwgc3FsaXRlIHNxbGl0ZTMgc3NlIHNzbCBzdWJ0aXRsZXMgc3ZnIHN2Z2EgdGNsdGsgdGNwZCB0 ZXRleCB0aGVvcmEgdGlmZiB0cnVldHlwZSB0cnVldHlwZS1mb250cyB0eXBlMS1mb250cyB1ZGV2 IHVuaWNvZGUgdXNiIHZjZCB2b3JiaXMgd2luMzJjb2RlY3Mgd21hIHhpbmUgeG1sIHhtbDIgeG1t cyB4b3JnIHh2IHh2aWQgemxpYiB2aWRlb19jYXJkc19udmlkaWEgbGluZ3Vhc19lbiBsaW5ndWFz X2RlIHVzZXJsYW5kX0dOVSBrZXJuZWxfbGludXggZWxpYmNfZ2xpYmMiClVuc2V0OiAgQ1RBUkdF VCwgSU5TVEFMTF9NQVNLLCBMREZMQUdTLCBQT1JUQUdFX1JTWU5DX0VYVFJBX09QVFMsIFBPUlRB R0VfUlNZTkNfT1BUUwoK