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Hi Sébastien, |
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|
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I was trying to use acml to avoid compiling blas-atlas (it takes about 2 |
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hours and I don't really need it right now. Also numpy and scipy are not |
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supposed to require it. |
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|
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Note: This is on a new installation, some binaries came from the Gentoo |
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2006.1 stage3 tarball. |
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|
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I tried compiling atlas, with the following error: |
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|
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"libgfortran.so: could not read symbols: File in wrong format" |
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|
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Here is the output from emerge: |
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|
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gcc -shared .libs/libatlas.la-3.o -lpthread |
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/usr/lib/gcc/x86_64-pc-linux-gnu/4.1.1/32/libgfortran.so -Wl,-soname |
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-Wl,libatlas.so.0 -o .libs/libatlas.so.0.0.0 |
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/usr/lib/gcc/x86_64-pc-linux-gnu/4.1.1/32/libgfortran.so: could not read |
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symbols: File in wrong format |
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collect2: ld returned 1 exit status |
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libtool: install: `libatlas.la' is not a valid libtool archive |
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Try `libtool --help --mode=install' for more information. |
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make[1]: *** [libatlas.so] Error 1 |
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make[1]: Leaving directory |
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`/var/tmp/portage/sci-libs/blas-atlas-3.7.11/work/ATLAS' |
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make: *** [shared-strip] Error 2 |
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|
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!!! ERROR: sci-libs/blas-atlas-3.7.11 failed. |
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Call stack: |
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ebuild.sh, line 1614: Called dyn_compile |
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ebuild.sh, line 971: Called qa_call 'src_compile' |
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environment, line 3741: Called src_compile |
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blas-atlas-3.7.11.ebuild, line 132: Called die |
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|
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Here is output from emerge --info: |
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|
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plum ~ # emerge --info |
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Portage 2.1.2-r9 (default-linux/amd64/2006.1, gcc-4.1.1, glibc-2.5-r0, |
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2.6.19-gentoo-r5 x86_64) |
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================================================================= |
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System uname: 2.6.19-gentoo-r5 x86_64 AMD Athlon(tm) 64 Processor 3000+ |
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Gentoo Base System version 1.12.1 |
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Timestamp of tree: Sun, 25 Feb 2007 01:00:08 +0000 |
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dev-lang/python: 2.4.3-r4 |
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dev-python/pycrypto: 2.0.1-r5 |
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sys-apps/sandbox: 1.2.17 |
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sys-devel/autoconf: 2.13, 2.61 |
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sys-devel/automake: 1.4_p6, 1.5, 1.6.3, 1.7.9-r1, 1.8.5-r3, 1.9.6-r2, 1.10 |
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sys-devel/binutils: 2.16.1-r3 |
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sys-devel/gcc-config: 1.3.14 |
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sys-devel/libtool: 1.5.22 |
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virtual/os-headers: 2.6.17-r1 |
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ACCEPT_KEYWORDS="amd64" |
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AUTOCLEAN="yes" |
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CBUILD="x86_64-pc-linux-gnu" |
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CFLAGS="-march=athlon64 -O2 -pipe" |
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CHOST="x86_64-pc-linux-gnu" |
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CONFIG_PROTECT="/etc /usr/kde/3.5/env /usr/kde/3.5/share/config |
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/usr/kde/3.5/shutdown /usr/share/X11/xkb /usr/share/config" |
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CONFIG_PROTECT_MASK="/etc/env.d /etc/gconf /etc/terminfo" |
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CXXFLAGS="-march=athlon64 -O2 -pipe" |
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DISTDIR="/usr/portage/distfiles" |
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FEATURES="autoconfig distlocks metadata-transfer sandbox sfperms strict" |
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GENTOO_MIRRORS="http://mirror.datapipe.net/gentoo |
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ftp://mirror.datapipe.net/gentoo http://gentoo.mirrors.tds.net/gentoo |
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http://64.158.56.55 ftp://gentoo.mirrors.tds.net/gentoo" |
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MAKEOPTS="-j4" |
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PKGDIR="/usr/portage/packages" |
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PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times |
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--compress --force --whole-file --delete --delete-after --stats |
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--timeout=300 --exclude=/distfiles --exclude=/local --exclude=/packages" |
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PORTAGE_TMPDIR="/var/tmp" |
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PORTDIR="/usr/portage" |
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PORTDIR_OVERLAY="/usr/local/portage /usr/local/sci" |
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SYNC="rsync://rsync.gentoo.org/gentoo-portage" |
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USE="amd64 apache2 berkdb bitmap-fonts cli cracklib crypt cups doc dri |
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dvdread fortran gdbm gpm iconv ipv6 isdnlog libg++ midi mysql ncurses |
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nls nptl nptlonly pam pcre perl ppds pppd python readline reflection |
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session spl ssl tcpd truetype-fonts type1-fonts unicode usb wxwindows |
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xorg zlib" ALSA_CARDS="ali5451 als4000 atiixp atiixp-modem bt87x ca0106 |
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cmipci emu10k1x ens1370 ens1371 es1938 es1968 fm801 hda-intel intel8x0 |
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intel8x0m maestro3 trident usb-audio via82xx via82xx-modem ymfpci" |
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ALSA_PCM_PLUGINS="adpcm alaw asym copy dmix dshare dsnoop empty extplug |
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file hooks iec958 ioplug ladspa lfloat linear meter mulaw multi null |
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plug rate route share shm softvol" ELIBC="glibc" INPUT_DEVICES="keyboard |
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mouse" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 |
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lb216 lcdm001 mtxorb ncurses text" USERLAND="GNU" VIDEO_CARDS="fglrx |
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radeon vesa fbdev" |
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Unset: CTARGET, EMERGE_DEFAULT_OPTS, INSTALL_MASK, LANG, LC_ALL, |
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LDFLAGS, LINGUAS, PORTAGE_RSYNC_EXTRA_OPTS |
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|
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Bill |
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|
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Sébastien Fabbro wrote: |
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> Hi Bill, |
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> |
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> You should report on bugs.gentoo.org. |
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> First make sure you synced your portage tree. |
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> Then see which cblas you have chosen with eselect show cblas. |
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> If it shows reference, atlas or threaded-atlas, and you still cannot get |
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> numpy to compile, then file a bug on the site above with en emerge |
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> --info, and I will see what I can do. acml needs more work, and is not |
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> yet supported by the ebuilds. |
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> |
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> Sebastien |
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> |
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> Bill Dandreta wrote: |
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> |
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>> I cannot get Numpy, Scipy to compile. Cblas error. |
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>> |
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>> |
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>>>>> Compiling source in |
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>>>>> |
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>> /var/tmp/portage/dev-python/numpy-1.0.1-r1/work/numpy-1.0.1 ... |
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>> !!! Error: Can't load module cblas |
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>> * You need to set cblas to atlas or reference. Do: |
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>> * eselect cblas set <impl> |
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>> * where <impl> is atlas, threaded-atlas or reference |
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>> |
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>> !!! ERROR: dev-python/numpy-1.0.1-r1 failed. |
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>> Call stack: |
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>> ebuild.sh, line 1614: Called dyn_compile |
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>> ebuild.sh, line 971: Called qa_call 'src_compile' |
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>> environment, line 3970: Called src_compile |
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>> numpy-1.0.1-r1.ebuild, line 123: Called numpy_configure |
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>> numpy-1.0.1-r1.ebuild, line 38: Called die |
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>> |
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>> eselect cblas set <anything> |
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>> |
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>> gives: |
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>> !!! Error: Can't load module cblas |
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>> Killed |
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>> |
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>> After: |
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>> |
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>> emerge -av eselect-cblas |
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>> |
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>> |
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>>>>> Compiling source in |
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>>>>> |
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>> /var/tmp/portage/dev-python/numpy-1.0.1-r1/work/numpy-1.0.1 ... |
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>> * You need to set cblas to atlas or reference. Do: |
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>> * eselect cblas set <impl> |
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>> * where <impl> is atlas, threaded-atlas or reference |
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>> |
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>> !!! ERROR: dev-python/numpy-1.0.1-r1 failed. |
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>> Call stack: |
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>> ebuild.sh, line 1614: Called dyn_compile |
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>> ebuild.sh, line 971: Called qa_call 'src_compile' |
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>> environment, line 3970: Called src_compile |
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>> numpy-1.0.1-r1.ebuild, line 123: Called numpy_configure |
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>> numpy-1.0.1-r1.ebuild, line 38: Called die |
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>> |
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>> !!! setup failed |
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>> !!! If you need support, post the topmost build error, and the call |
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>> stack if relevant. |
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>> !!! A complete build log is located at |
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>> '/var/tmp/portage/dev-python/numpy-1.0.1-r1/temp/build.log'. |
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>> |
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>> |
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>> I tried setting cblas to acml but I cannot get it to work. |
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>> |
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>> Any suggestions?? |
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>> |
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>> Bill |
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>> |
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> |
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> |
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