Re: [gentoo-science] [sage-on-gentoo] dependencies conflict

Quoting v_2e@×××.net:

>   Hello, Francois!
>
> On Sun, 02 Jun 2013 22:07:54 +1200
> fbissey@××××××××××××.nz wrote:
>
>> I think it may be because you have cython in your world file. Can you
>> try the following:
>> emerge --deselect cython
>
>   The output of
>
>     grep cython /var/lib/portage/world
>
> is empty.
>
>> then try to merge again. If the problem persist I want the output of
>> emerge -ptuDv sage
>>
>
> $ emerge -ptuDv sage
>
> These are the packages that would be merged, in reverse order:
>
> Calculating dependencies... done!
> [nomerge       ] sci-mathematics/sage-5.9::sage-on-gentoo
> [5.8-r2::sage-on-gentoo] USE="latex -lrs% -nauty% -testsuite"
> PYTHON_TARGETS="python2_7"
> [nomerge       ]  dev-lisp/ecls-12.12.1::sage-on-gentoo  USE="X
> threads unicode -debug -emacs -gengc -precisegc"
> [ebuild     U  ]   dev-lisp/gentoo-init-1.0 [0.1] 0 kB
> [nomerge       ] dev-lisp/gentoo-init-1.0 [0.1]
> [nomerge       ]  dev-lisp/asdf-3.0.1:0/3.0.1 [1.89:0/0] USE="-doc%
> (-examples%)"
> [blocks b      ]   dev-lisp/asdf-binary-locations
> ("dev-lisp/asdf-binary-locations" is blocking dev-lisp/asdf-3.0.1)
> [uninstall     ]    dev-lisp/asdf-binary-locations-20061018
> [ebuild  N     ]   dev-lisp/uiop-3.0.1  380 kB
> [ebuild     U  ]    dev-lisp/asdf-3.0.1:0/3.0.1 [1.89:0/0] USE="-doc%
> (-examples%)" 0 kB
> [ebuild     U  ] sci-mathematics/sage-5.9::sage-on-gentoo
> [5.8-r2::sage-on-gentoo] USE="latex -lrs% -nauty% -testsuite"
> PYTHON_TARGETS="python2_7" 59,992 kB
> [ebuild     U  ]  dev-python/cvxopt-1.1.6::sage-on-gentoo
> [1.1.5-r2::gentoo] USE="dsdp fftw glpk gsl -doc -examples"
> PYTHON_TARGETS="python2_7 python3_2%* -python2_6" 3,275 kB
> [ebuild     U  ]  sci-mathematics/sage-doc-5.9::sage-on-gentoo
> [5.8-r2::sage-on-gentoo] USE="html pdf" 72,019 kB
> [ebuild     U  ]  dev-python/matplotlib-1.2.1 [1.1.1] USE="cairo gtk
> gtk3%* latex -doc -examples -excel -fltk -qt4 {-test} -tk -wxwidgets"
> PYTHON_TARGETS="python2_7%* python3_2%* -python2_6% -python3_1%
> -python3_3%" 37,546 kB
> [ebuild     U  ]  sci-libs/scipy-0.12.0 [0.11.0-r1] USE="-doc
> -sparse% {-test} (-umfpack%)" PYTHON_TARGETS="python2_7 python3_2%*
> -python2_5 -python2_6 -python3_3%" 8,883 kB
> [ebuild     U  ]  sci-mathematics/sage-clib-5.9::sage-on-gentoo
> [5.8::sage-on-gentoo] 0 kB
> [ebuild     U  ]   sci-mathematics/polybori-0.8.3::sage-on-gentoo
> [0.8.2-r4::sage-on-gentoo] USE="gd -doc" 2,128 kB
> [ebuild     U  ]    dev-python/ipython-0.13.1-r1::sage-on-gentoo
> [0.13.1::sage-on-gentoo] USE="qt4 smp -doc -emacs -examples
> -matplotlib -mongodb -notebook -octave {-test} -wxwidgets"
> PYTHON_TARGETS="python2_7%* python3_2%* -python2_6% -python3_1%" 0 kB
> [ebuild     U  ]     dev-python/pyzmq-13.1.0 [2.2.0.1-r1]
> USE="-examples -green% {-test}" PYTHON_TARGETS="python2_7 python3_2
> -python2_6 -python3_1 -python3_3" 820 kB
> [ebuild     U  ]      net-libs/zeromq-3.2.3 [3.2.2] USE="-pgm
> -static-libs {-test}" 2,025 kB
> [ebuild     U  ]  dev-python/rpy-2.3.6 [2.3.4] USE="{-test}"
> PYTHON_TARGETS="python2_7" 183 kB
> [ebuild     U  ]   dev-lang/R-3.0.1 [3.0.0] USE="X bash-completion
> cairo jpeg nls openmp png readline -doc -icu -java -lapack -minimal
> -perl (-prefix) -profile -static-libs -tiff -tk" 24,911 kB
> [ebuild     U  ]  sci-mathematics/pari-2.5.4::sage-on-gentoo
> [2.5.3-r2::sage-on-gentoo] USE="X data gmp qt4 -doc -fltk" 2,659 kB
> [nomerge       ] sci-libs/scipy-0.12.0 [0.11.0-r1] USE="-doc -sparse%
> {-test} (-umfpack%)" PYTHON_TARGETS="python2_7 python3_2%* -python2_5
> -python2_6 -python3_3%"
> [ebuild     U  ]  dev-python/imaging-1.1.7-r4 [1.1.7-r3] USE="jpeg
> truetype zlib -doc -examples -lcms -scanner {-test} -tiff -tk"
> PYTHON_TARGETS="python2_7 -python2_5 -python2_6" 0 kB
> [nomerge       ] dev-python/matplotlib-1.2.1 [1.1.1] USE="cairo gtk
> gtk3%* latex -doc -examples -excel -fltk -qt4 {-test} -tk -wxwidgets"
> PYTHON_TARGETS="python2_7%* python3_2%* -python2_6% -python3_1%
> -python3_3%"
> [ebuild  NS    ]  dev-python/pygobject-3.4.2-r1:3 [2.28.6-r53:2]
> USE="cairo threads -examples {-test}" PYTHON_TARGETS="python2_7
> python3_2 -python2_6 -python3_1 -python3_3" 601 kB
> [nomerge       ] sci-mathematics/sage-5.9::sage-on-gentoo
> [5.8-r2::sage-on-gentoo] USE="latex -lrs% -nauty% -testsuite"
> PYTHON_TARGETS="python2_7"
> [nomerge       ]
> sci-mathematics/sage-notebook-0.10.4-r2::sage-on-gentoo  USE="-java
> -server {-test}" PYTHON_TARGETS="python2_7"
> [nomerge       ]
> dev-python/flask-autoindex-0.4.1-r1::sage-on-gentoo
> PYTHON_TARGETS="python2_7"
> [ebuild     U  ]    dev-python/flask-0.9-r2 [0.9-r1] USE="-examples
> {-test}" PYTHON_TARGETS="python2_7 -pypy1_9 -pypy2_0 -python2_5
> -python2_6" 0 kB
> [ebuild     U  ]  dev-python/sqlalchemy-0.8.1 [0.8.0] USE="sqlite
> -doc -examples {-test} (-firebird%) (-mssql%) (-mysql%) (-postgres%)"
> PYTHON_TARGETS="python2_7 python3_2%* -pypy1_9% -pypy2_0% -python2_5%
> -python2_6 -python3_3%" 3,688 kB
> [ebuild     UD ]  dev-python/cython-0.19::sage-on-gentoo
> [0.19.1::sage-on-gentoo] USE="-doc {-test}" PYTHON_TARGETS="python2_7
> python3_2 -python2_5 -python2_6 -python3_1 -python3_3" 1,350 kB
> [nomerge       ]
> sci-mathematics/sage-notebook-0.10.4-r2::sage-on-gentoo  USE="-java
> -server {-test}" PYTHON_TARGETS="python2_7"
> [nomerge       ]  dev-python/flask-babel-0.8  USE="-doc {-test}"
> [nomerge       ]   dev-python/Babel-0.9.6-r1
> PYTHON_TARGETS="python2_7 -pypy1_9 -pypy2_0 -python2_5 -python2_6"
> [ebuild     U  ]    dev-python/pytz-2013b [2012j]
> PYTHON_TARGETS="python2_7 python3_2 -pypy1_9 -pypy2_0 -python2_5
> -python2_6 -python3_1 -python3_3" 195 kB
> [nomerge       ] media-sound/vorbis-tools-1.4.0  USE="flac nls ogg123
> speex -kate"
> [nomerge       ]  media-libs/libao-1.1.0-r1  USE="alsa mmap nas
> -pulseaudio -static-libs"
> [nomerge       ]   media-libs/nas-1.9.3  USE="-doc -static-libs"
> [ebuild     U  ]    x11-libs/libXres-1.0.7 [1.0.6] USE="-static-libs" 277 kB
> [nomerge       ] sci-mathematics/sage-5.9::sage-on-gentoo
> [5.8-r2::sage-on-gentoo] USE="latex -lrs% -nauty% -testsuite"
> PYTHON_TARGETS="python2_7"
> [ebuild     U  ]  sci-mathematics/singular-3.1.5-r1::sage-on-gentoo
> [3.1.5::sage-on-gentoo] USE="python readline -boost -doc -emacs
> -examples {-test}" PYTHON_SINGLE_TARGET="python2_7%* -python2_6%"
> PYTHON_TARGETS="python2_7%* -python2_6%" 0 kB
> [ebuild     U  ]  sci-mathematics/gmp-ecm-6.4.4-r2::sage-on-gentoo
> [6.4.4-r1::sage-on-gentoo] USE="custom-tune -blas -gwnum -openmp
> -static-libs {-test}" 0 kB
> [nomerge       ] sci-mathematics/sage-5.9::sage-on-gentoo
> [5.8-r2::sage-on-gentoo] USE="latex -lrs% -nauty% -testsuite"
> PYTHON_TARGETS="python2_7"
> [nomerge       ]  dev-python/sympy-0.7.2-r2::sage-on-gentoo
> USE="latex opengl pdf png -doc -examples -gtk -imaging -ipython
> -mathml -pyglet {-test} -texmacs" PYTHON_TARGETS="python2_7
> -python2_6"
> [nomerge       ]   dev-texlive/texlive-fontsextra-2012  USE="-doc -source"
> [nomerge       ]    dev-texlive/texlive-basic-2012  USE="-doc -source"
> [nomerge       ]     dev-texlive/texlive-documentation-base-2012
> USE="-source"
> [nomerge       ]      app-text/texlive-core-2012-r1  USE="X -cjk -doc
> -source -tk -xetex"
> [ebuild     U  ]       x11-libs/libXp-1.0.2 [1.0.1-r1]
> USE="-static-libs" ABI_X86="(64) -32 (-x32)" 292 kB
> [nomerge       ] dev-python/matplotlib-1.2.1 [1.1.1] USE="cairo gtk
> gtk3%* latex -doc -examples -excel -fltk -qt4 {-test} -tk -wxwidgets"
> PYTHON_TARGETS="python2_7%* python3_2%* -python2_6% -python3_1%
> -python3_3%"
> [ebuild  N     ]  media-fonts/stix-fonts-1.0.0-r1  USE="X -doc" 2,697 kB
> [nomerge       ] sci-mathematics/sage-5.9::sage-on-gentoo
> [5.8-r2::sage-on-gentoo] USE="latex -lrs% -nauty% -testsuite"
> PYTHON_TARGETS="python2_7"
> [nomerge       ]  dev-lang/R-3.0.1 [3.0.0] USE="X bash-completion
> cairo jpeg nls openmp png readline -doc -icu -java -lapack -minimal
> -perl (-prefix) -profile -static-libs -tiff -tk"
> [ebuild     U  ]   dev-libs/libpcre-8.33:3 [8.32:3] USE="bzip2 cxx
> jit readline recursion-limit (unicode) zlib -libedit -pcre16 -pcre32%
> -static-libs" 1,408 kB
> [ebuild     U  ]  sci-mathematics/sage-extcode-5.9::sage-on-gentoo
> [5.8::sage-on-gentoo] 12,026 kB
> [ebuild     U  ]  sci-mathematics/sage-baselayout-5.9::sage-on-gentoo
> [5.8-r1::sage-on-gentoo] USE="X -debug -testsuite -tools"
> PYTHON_TARGETS="python2_7" 1,449 kB
> [blocks B      ] dev-lisp/gentoo-init ("dev-lisp/gentoo-init" is
> blocking dev-lisp/asdf-3.0.1)
>
> Total: 30 packages (26 upgrades, 1 downgrade, 2 new, 1 in new slot, 1
> uninstall), Size of downloads: 238,793 kB
> Conflict: 2 blocks (1 unsatisfied)
>
>  * Error: The above package list contains packages which cannot be
>  * installed at the same time on the same system.
>
>   (dev-lisp/gentoo-init-1.0::gentoo, ebuild scheduled for merge) pulled in by
>     dev-lisp/gentoo-init required by
> (dev-lisp/ecls-12.12.1::sage-on-gentoo, installed)
>
>   (dev-lisp/asdf-3.0.1::gentoo, ebuild scheduled for merge) pulled in by
>     ~dev-lisp/asdf-3.0.1 required by (dev-lisp/uiop-3.0.1::gentoo,
> ebuild scheduled for merge)
>     >=dev-lisp/asdf-2.0 required by
> (dev-lisp/gentoo-init-1.0::gentoo, ebuild scheduled for merge)
>
>

No cython there. I have just committed stuff for the lisp stuff. Martin Von
Gagern just spent the last 12 hours solving the maxima issue that was
preventing us to allow you to move to asdf-3.0.1. And I spent some time
adjusting the overlay so the dependencies allow you to do it [nay, forces you
to do it - I will need to add a few more keywords].

can you sync the overlay and try again, please. And before merging you 
may want
to unmerge ecm.

Francois