* [gentoo-science] [sage-on-gentoo] dependencies conflict
@ 2013-06-02 9:58 v_2e
2013-06-02 10:07 ` fbissey
0 siblings, 1 reply; 6+ messages in thread
From: v_2e @ 2013-06-02 9:58 UTC (permalink / raw
To: gentoo-science
Hello!
It looks like there is some error in the package dependencies in
'sage-on-gentoo' overlay. I cannot upgrade Sage because of the
following error:
dev-python/cython:0
(dev-python/cython-0.19.1-r1::sage-on-gentoo, ebuild scheduled for
merge) pulled in by (no parents that aren't satisfied by other packages
in this slot)
(dev-python/cython-0.19::sage-on-gentoo, ebuild scheduled for merge)
pulled in by ~dev-python/cython-0.19[python_targets_python2_7
(-)?,-python_single_target_python2_7(-)] required by
(sci-mathematics/sage-5.9::sage-on-gentoo, ebuild scheduled for merge)
Regards,
Vladimir
-----
<v_2e@ukr.net>
^ permalink raw reply [flat|nested] 6+ messages in thread
* Re: [gentoo-science] [sage-on-gentoo] dependencies conflict
2013-06-02 9:58 [gentoo-science] [sage-on-gentoo] dependencies conflict v_2e
@ 2013-06-02 10:07 ` fbissey
[not found] ` <20130602131750.544f949a3b936bca0ee7043e@ukr.net>
0 siblings, 1 reply; 6+ messages in thread
From: fbissey @ 2013-06-02 10:07 UTC (permalink / raw
To: gentoo-science, v_2e
Quoting v_2e@ukr.net:
> Hello!
> It looks like there is some error in the package dependencies in
> 'sage-on-gentoo' overlay. I cannot upgrade Sage because of the
> following error:
>
>
> dev-python/cython:0
>
> (dev-python/cython-0.19.1-r1::sage-on-gentoo, ebuild scheduled for
> merge) pulled in by (no parents that aren't satisfied by other packages
> in this slot)
>
> (dev-python/cython-0.19::sage-on-gentoo, ebuild scheduled for merge)
> pulled in by ~dev-python/cython-0.19[python_targets_python2_7
> (-)?,-python_single_target_python2_7(-)] required by
> (sci-mathematics/sage-5.9::sage-on-gentoo, ebuild scheduled for merge)
>
>
Hi Vladimir,
I think it may be because you have cython in your world file. Can you try
the following:
emerge --deselect cython
then try to merge again. If the problem persist I want the output of
emerge -ptuDv sage
Cheers,
Francois
^ permalink raw reply [flat|nested] 6+ messages in thread
* Re: [gentoo-science] [sage-on-gentoo] dependencies conflict
[not found] ` <20130602131750.544f949a3b936bca0ee7043e@ukr.net>
@ 2013-06-02 10:58 ` fbissey
2013-06-02 11:18 ` fbissey
0 siblings, 1 reply; 6+ messages in thread
From: fbissey @ 2013-06-02 10:58 UTC (permalink / raw
To: v_2e; +Cc: gentoo-science
Quoting v_2e@ukr.net:
> Hello, Francois!
>
> On Sun, 02 Jun 2013 22:07:54 +1200
> fbissey@slingshot.co.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
^ permalink raw reply [flat|nested] 6+ messages in thread
* Re: [gentoo-science] [sage-on-gentoo] dependencies conflict
2013-06-02 10:58 ` fbissey
@ 2013-06-02 11:18 ` fbissey
2013-06-02 11:38 ` fbissey
0 siblings, 1 reply; 6+ messages in thread
From: fbissey @ 2013-06-02 11:18 UTC (permalink / raw
To: gentoo-science
Quoting fbissey@slingshot.co.nz:
> Quoting v_2e@ukr.net:
>
>> Hello, Francois!
>>
>> On Sun, 02 Jun 2013 22:07:54 +1200
>> fbissey@slingshot.co.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.
>
Just found I forgot to commit a patch. If you miss a patch, you'll have
to sync
again.
Francois
^ permalink raw reply [flat|nested] 6+ messages in thread
* Re: [gentoo-science] [sage-on-gentoo] dependencies conflict
2013-06-02 11:18 ` fbissey
@ 2013-06-02 11:38 ` fbissey
2013-06-15 10:28 ` fbissey
0 siblings, 1 reply; 6+ messages in thread
From: fbissey @ 2013-06-02 11:38 UTC (permalink / raw
To: gentoo-science
Quoting fbissey@slingshot.co.nz:
> Quoting fbissey@slingshot.co.nz:
>
>> Quoting v_2e@ukr.net:
>>
>>> Hello, Francois!
>>>
>>> On Sun, 02 Jun 2013 22:07:54 +1200
>>> fbissey@slingshot.co.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.
>>
> Just found I forgot to commit a patch. If you miss a patch, you'll have
> to sync
> again.
>
Big issue with maxima 5.29.1-r2, try 5.30 until I fix it, or upgrade all the
dependencies to 5.30 if it is too hard to fix.
Francois
^ permalink raw reply [flat|nested] 6+ messages in thread
* Re: [gentoo-science] [sage-on-gentoo] dependencies conflict
2013-06-02 11:38 ` fbissey
@ 2013-06-15 10:28 ` fbissey
0 siblings, 0 replies; 6+ messages in thread
From: fbissey @ 2013-06-15 10:28 UTC (permalink / raw
To: gentoo-science
The problems we faced with ecls and maxima as a result of
the switch to asdf 3 are over and the sage-on-gentoo overlay
is again fully working.
A big thank to Martin Von Gagern who did the work!
Sage is fully compatible with ecls 12.12.1 and 13.1.5.
However I am warning people wanting to use maxima 5.30
that changes in the way maxima handle some assumption
may lead to some breakage.
If you don't want that to happen to you, stick to maxima 5.29.1.
The overlay currently provides its own version of
ecls 12.12.1-r5 : while Andrey integrated a patch I wrote
to sanitize asdf 3 handling in this version, it needed an extra
cherry picked patch from upstream to be completely sane.
maxima 5.29.1-r3
maxima-5.30.0-r1
Both of these ebuilds have a fix by Martin to build
the naxima ecls library that is used by sage.
Building that library, and then building a working library,
was quite challenging and I cannot thank Martin enough for
sticking at it until he was done.
Francois
^ permalink raw reply [flat|nested] 6+ messages in thread
end of thread, other threads:[~2013-06-15 10:31 UTC | newest]
Thread overview: 6+ messages (download: mbox.gz follow: Atom feed
-- links below jump to the message on this page --
2013-06-02 9:58 [gentoo-science] [sage-on-gentoo] dependencies conflict v_2e
2013-06-02 10:07 ` fbissey
[not found] ` <20130602131750.544f949a3b936bca0ee7043e@ukr.net>
2013-06-02 10:58 ` fbissey
2013-06-02 11:18 ` fbissey
2013-06-02 11:38 ` fbissey
2013-06-15 10:28 ` fbissey
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