Re: [sage-devel] Re: multi-polynomial subs memory leak

[Dima Pasechnik]

Singular's  subst() command itself
appears to be very leaky, I don't know why we expect to be able to plug
these leaks in libSingular.


On Sat, 8 May 2021, 13:41 Markus Wageringel, 
wrote:

> vdelecroix schrieb am Freitag, 7. Mai 2021 um 10:09:59 UTC+2:
>
>> I propose to switch to naive symbolic
>> evaluation. This is infinitely slower but at least does not
>> leak memory.
>>
>
> Recently, I have looked into performance problems of multivariate power
> series. One of the bottlenecks is the use of subs() of polynomials, so I am
> worried that the proposed change has an unforeseen impact on performance in
> other places, especially if this is rushed into 9.3 at this point. This is
> a trade-off between running out of memory and running out of time in
> computations.
>
> --
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> 
> .
>

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[sage-devel] Re: Preliminary bug [Re: Boolean expressions]

[Emmanuel Charpentier]

Le vendredi 7 mai 2021 à 22:41:36 UTC+2, Nils Bruin a écrit :

> On Friday, May 7, 2021 at 12:37:41 PM UTC-7 emanuel wrote:
>

[ Snip... ] 

Unless you advise me not to do so (and explain why), I’ll file a ticket on 
>> this issue, propose a branch replacing those null strings with a single 
>> space, and try to break the damn thing.
>>
> I'm sure you'll succeed and discover why it was decided to strip out 
> whitespace.
>

Well, I tried and failed to break a patched version. So Trac#31796 
 await reviews...
 

> Or you could do some archaeology and see if you can find records of why 
> this was done. It looks like the change goes back to 2007:
>
> https://github.com/sagemath/sage/commit/7a2aa2c06c9fb5c21ae9c08ce31eaee60ac452a2
>

That was helpful. Thank you..
 

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Re: [sage-devel] [abi:cxx11] in givaro prevents linking to system givaro on Fedora 32

[Steven Trogdon]

Building Givaro on Gentoo I have

CXXFLAGS=-O2 -pipe -march=native -O2 -pipe   -fabi-version=6   -msse -msse2 
-msse3 -mssse3 -msse4.1 -msse4.2 -mavx

Your Redhat has

CXXFLAGS=-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 
-Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong 
-grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 
-specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic 
-fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection

Could the  abi-version=6 be the issue?

On Saturday, May 8, 2021 at 6:01:02 AM UTC-6 dim...@gmail.com wrote:

> one has 
> https://kojipkgs.fedoraproject.org//packages/givaro/4.1.1/1.fc32/data/logs/x86_64/build.log
> and other logs there
>
> On Saturday, May 8, 2021 at 12:45:07 PM UTC+1 Dima Pasechnik wrote:
>
>> On Saturday, May 8, 2021 at 12:34:11 PM UTC+1 François Bissey wrote:
>>
>>> What compiler and flags have used to compile fedora 32 givaro? Can we 
>>> easily find out?
>>
>>
>> the compiler used to build Sage is g++ 10.2.1
>>
>> $ g++ -v
>> Using built-in specs.
>> COLLECT_GCC=/usr/bin/g++
>> COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-redhat-linux/10/lto-wrapper
>> OFFLOAD_TARGET_NAMES=nvptx-none
>> OFFLOAD_TARGET_DEFAULT=1
>> Target: x86_64-redhat-linux
>> Configured with: ../configure --enable-bootstrap 
>> --enable-languages=c,c++,fortran,objc,obj-c++,ada,go,d,lto --prefix=/usr 
>> --mandir=/usr/share/man --infodir=/usr/share/info --with-bugurl=
>> http://bugzilla.redhat.com/bugzilla --enable-shared 
>> --enable-threads=posix --enable-checking=release --enable-multilib 
>> --with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions 
>> --enable-gnu-unique-object --enable-linker-build-id 
>> --with-gcc-major-version-only --with-linker-hash-style=gnu --enable-plugin 
>> --enable-initfini-array --with-isl --enable-offload-targets=nvptx-none 
>> --without-cuda-driver --enable-gnu-indirect-function --enable-cet 
>> --with-tune=generic --with-arch_32=i686 --build=x86_64-redhat-linux
>> Thread model: posix
>> Supported LTO compression algorithms: zlib zstd
>> gcc version 10.2.1 20201125 (Red Hat 10.2.1-9) (GCC) 
>>
>>  
>>
>>>
>>>
>>> > On 8/05/2021, at 23:31, Dima Pasechnik  wrote: 
>>> > 
>>> > With system Givaro, one gets 
>>> > 
>>> > [dochtml] ImportError: 
>>> /home/scratch2/dimpase/sage/sage/local/lib64/python3.8/site-packages/sage/matrix/
>>> matrix_modn_sparse.cpython-38-x86_64-linux-gnu.so: undefined symbol: 
>>> _ZNK6Givaro7IntegercvNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEB5cxx11Ev
>>>  
>>>
>>> > make[3]: *** [Makefile:2280: doc-html] Error 1 
>>> > 
>>> > which demangled says 
>>> > 
>>> > $ c++filt 
>>> _ZNK6Givaro7IntegercvNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEB5cxx11Ev
>>>  
>>>
>>> > Givaro::Integer::operator std::__cxx11::basic_string>> std::char_traits, std::allocator >[abi:cxx11]() const 
>>> > 
>>> > The system library has Givaro::Integer::operator 
>>> std::__cxx11::basic_string, 
>>> std::allocator >() const 
>>> > 
>>> > (no of that weird [abi:cxx11] qualifier) 
>>> > 
>>> > Any ideas how to fix this? (besides not using system Givaro) ? 
>>> > 
>>> > Dima 
>>> > 
>>> > -- 
>>> > You received this message because you are subscribed to the Google 
>>> Groups "sage-devel" group. 
>>> > To unsubscribe from this group and stop receiving emails from it, send 
>>> an email to sage-devel+...@googlegroups.com. 
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>>> https://groups.google.com/d/msgid/sage-devel/b187faf3-50c4-42c4-ae37-77c5a3902bbcn%40googlegroups.com.
>>>  
>>>
>>>
>>>

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[sage-devel] Re: [abi:cxx11] in givaro prevents linking to system givaro on Fedora 32

[Matthias Koeppe]

On Saturday, May 8, 2021 at 4:31:12 AM UTC-7 Dima Pasechnik wrote:

> With system Givaro, one gets
>
> [dochtml] ImportError: 
> /home/scratch2/dimpase/sage/sage/local/lib64/python3.8/site-packages/sage/matrix/
> matrix_modn_sparse.cpython-38-x86_64-linux-gnu.so: undefined symbol: 
> _ZNK6Givaro7IntegercvNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEB5cxx11Ev
> make[3]: *** [Makefile:2280: doc-html] Error 1
>

fedora-32-standard (https://github.com/sagemath/sage/runs/2479588038) built 
without errors -- what's different on your system?


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[sage-devel] Re: multi-polynomial subs memory leak

[Markus Wageringel]

vdelecroix schrieb am Freitag, 7. Mai 2021 um 10:09:59 UTC+2:

> I propose to switch to naive symbolic 
> evaluation. This is infinitely slower but at least does not 
> leak memory.
>

Recently, I have looked into performance problems of multivariate power 
series. One of the bottlenecks is the use of subs() of polynomials, so I am 
worried that the proposed change has an unforeseen impact on performance in 
other places, especially if this is rushed into 9.3 at this point. This is 
a trade-off between running out of memory and running out of time in 
computations. 

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Re: [sage-devel] [abi:cxx11] in givaro prevents linking to system givaro on Fedora 32

[Dima Pasechnik]

one 
has 
https://kojipkgs.fedoraproject.org//packages/givaro/4.1.1/1.fc32/data/logs/x86_64/build.log
and other logs there

On Saturday, May 8, 2021 at 12:45:07 PM UTC+1 Dima Pasechnik wrote:

> On Saturday, May 8, 2021 at 12:34:11 PM UTC+1 François Bissey wrote:
>
>> What compiler and flags have used to compile fedora 32 givaro? Can we 
>> easily find out?
>
>
> the compiler used to build Sage is g++ 10.2.1
>
> $ g++ -v
> Using built-in specs.
> COLLECT_GCC=/usr/bin/g++
> COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-redhat-linux/10/lto-wrapper
> OFFLOAD_TARGET_NAMES=nvptx-none
> OFFLOAD_TARGET_DEFAULT=1
> Target: x86_64-redhat-linux
> Configured with: ../configure --enable-bootstrap 
> --enable-languages=c,c++,fortran,objc,obj-c++,ada,go,d,lto --prefix=/usr 
> --mandir=/usr/share/man --infodir=/usr/share/info --with-bugurl=
> http://bugzilla.redhat.com/bugzilla --enable-shared 
> --enable-threads=posix --enable-checking=release --enable-multilib 
> --with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions 
> --enable-gnu-unique-object --enable-linker-build-id 
> --with-gcc-major-version-only --with-linker-hash-style=gnu --enable-plugin 
> --enable-initfini-array --with-isl --enable-offload-targets=nvptx-none 
> --without-cuda-driver --enable-gnu-indirect-function --enable-cet 
> --with-tune=generic --with-arch_32=i686 --build=x86_64-redhat-linux
> Thread model: posix
> Supported LTO compression algorithms: zlib zstd
> gcc version 10.2.1 20201125 (Red Hat 10.2.1-9) (GCC) 
>
>  
>
>>
>>
>> > On 8/05/2021, at 23:31, Dima Pasechnik  wrote: 
>> > 
>> > With system Givaro, one gets 
>> > 
>> > [dochtml] ImportError: 
>> /home/scratch2/dimpase/sage/sage/local/lib64/python3.8/site-packages/sage/matrix/
>> matrix_modn_sparse.cpython-38-x86_64-linux-gnu.so: undefined symbol: 
>> _ZNK6Givaro7IntegercvNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEB5cxx11Ev
>>  
>>
>> > make[3]: *** [Makefile:2280: doc-html] Error 1 
>> > 
>> > which demangled says 
>> > 
>> > $ c++filt 
>> _ZNK6Givaro7IntegercvNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEB5cxx11Ev
>>  
>>
>> > Givaro::Integer::operator std::__cxx11::basic_string> std::char_traits, std::allocator >[abi:cxx11]() const 
>> > 
>> > The system library has Givaro::Integer::operator 
>> std::__cxx11::basic_string, 
>> std::allocator >() const 
>> > 
>> > (no of that weird [abi:cxx11] qualifier) 
>> > 
>> > Any ideas how to fix this? (besides not using system Givaro) ? 
>> > 
>> > Dima 
>> > 
>> > -- 
>> > You received this message because you are subscribed to the Google 
>> Groups "sage-devel" group. 
>> > To unsubscribe from this group and stop receiving emails from it, send 
>> an email to sage-devel+...@googlegroups.com. 
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>> https://groups.google.com/d/msgid/sage-devel/b187faf3-50c4-42c4-ae37-77c5a3902bbcn%40googlegroups.com.
>>  
>>
>>
>>

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Re: [sage-devel] [abi:cxx11] in givaro prevents linking to system givaro on Fedora 32

[Dima Pasechnik]

On Saturday, May 8, 2021 at 12:34:11 PM UTC+1 François Bissey wrote:

> What compiler and flags have used to compile fedora 32 givaro? Can we 
> easily find out?


the compiler used to build Sage is g++ 10.2.1

$ g++ -v
Using built-in specs.
COLLECT_GCC=/usr/bin/g++
COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-redhat-linux/10/lto-wrapper
OFFLOAD_TARGET_NAMES=nvptx-none
OFFLOAD_TARGET_DEFAULT=1
Target: x86_64-redhat-linux
Configured with: ../configure --enable-bootstrap 
--enable-languages=c,c++,fortran,objc,obj-c++,ada,go,d,lto --prefix=/usr 
--mandir=/usr/share/man --infodir=/usr/share/info 
--with-bugurl=http://bugzilla.redhat.com/bugzilla --enable-shared 
--enable-threads=posix --enable-checking=release --enable-multilib 
--with-system-zlib --enable-__cxa_atexit --disable-libunwind-exceptions 
--enable-gnu-unique-object --enable-linker-build-id 
--with-gcc-major-version-only --with-linker-hash-style=gnu --enable-plugin 
--enable-initfini-array --with-isl --enable-offload-targets=nvptx-none 
--without-cuda-driver --enable-gnu-indirect-function --enable-cet 
--with-tune=generic --with-arch_32=i686 --build=x86_64-redhat-linux
Thread model: posix
Supported LTO compression algorithms: zlib zstd
gcc version 10.2.1 20201125 (Red Hat 10.2.1-9) (GCC) 

 

>
>
> > On 8/05/2021, at 23:31, Dima Pasechnik  wrote: 
> > 
> > With system Givaro, one gets 
> > 
> > [dochtml] ImportError: 
> /home/scratch2/dimpase/sage/sage/local/lib64/python3.8/site-packages/sage/matrix/
> matrix_modn_sparse.cpython-38-x86_64-linux-gnu.so: undefined symbol: 
> _ZNK6Givaro7IntegercvNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEB5cxx11Ev
>  
>
> > make[3]: *** [Makefile:2280: doc-html] Error 1 
> > 
> > which demangled says 
> > 
> > $ c++filt 
> _ZNK6Givaro7IntegercvNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEB5cxx11Ev
>  
>
> > Givaro::Integer::operator std::__cxx11::basic_string std::char_traits, std::allocator >[abi:cxx11]() const 
> > 
> > The system library has Givaro::Integer::operator 
> std::__cxx11::basic_string, 
> std::allocator >() const 
> > 
> > (no of that weird [abi:cxx11] qualifier) 
> > 
> > Any ideas how to fix this? (besides not using system Givaro) ? 
> > 
> > Dima 
> > 
> > -- 
> > You received this message because you are subscribed to the Google 
> Groups "sage-devel" group. 
> > To unsubscribe from this group and stop receiving emails from it, send 
> an email to sage-devel+...@googlegroups.com. 
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>  
>
>
>

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Re: [sage-devel] [abi:cxx11] in givaro prevents linking to system givaro on Fedora 32

[François Bissey]

Interestingly on Gentoo I currently have both symbols
fbissey@moonloop ~ $ nm -D /usr/lib64/libgivaro.so.9.1.1 | grep 
_ZNK6Givaro7IntegercvNSt7__cxx1112basic_stringIcSt11char | c++filt -n
000180b0 T Givaro::Integer::operator std::__cxx11::basic_string, std::allocator >[abi:cxx11]() const
000180b0 T Givaro::Integer::operator std::__cxx11::basic_string, std::allocator >() const

Last compile was with gcc-11.1.0

> On 8/05/2021, at 23:34, François Bissey  wrote:
> 
> What compiler and flags have used to compile fedora 32 givaro? Can we easily 
> find out?
> 
>> On 8/05/2021, at 23:31, Dima Pasechnik  wrote:
>> 
>> With system Givaro, one gets
>> 
>> [dochtml] ImportError: 
>> /home/scratch2/dimpase/sage/sage/local/lib64/python3.8/site-packages/sage/matrix/matrix_modn_sparse.cpython-38-x86_64-linux-gnu.so:
>>  undefined symbol: 
>> _ZNK6Givaro7IntegercvNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEB5cxx11Ev
>> make[3]: *** [Makefile:2280: doc-html] Error 1
>> 
>> which demangled says
>> 
>> $ c++filt 
>> _ZNK6Givaro7IntegercvNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEB5cxx11Ev
>> Givaro::Integer::operator std::__cxx11::basic_string> std::char_traits, std::allocator >[abi:cxx11]() const
>> 
>> The system library has Givaro::Integer::operator 
>> std::__cxx11::basic_string, 
>> std::allocator >() const
>> 
>> (no of that weird [abi:cxx11] qualifier)
>> 
>> Any ideas how to fix this? (besides not using system Givaro) ?
>> 
>> Dima
>> 
>> -- 
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>> "sage-devel" group.
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> 

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Re: [sage-devel] [abi:cxx11] in givaro prevents linking to system givaro on Fedora 32

[François Bissey]

What compiler and flags have used to compile fedora 32 givaro? Can we easily 
find out?

> On 8/05/2021, at 23:31, Dima Pasechnik  wrote:
> 
> With system Givaro, one gets
> 
> [dochtml] ImportError: 
> /home/scratch2/dimpase/sage/sage/local/lib64/python3.8/site-packages/sage/matrix/matrix_modn_sparse.cpython-38-x86_64-linux-gnu.so:
>  undefined symbol: 
> _ZNK6Givaro7IntegercvNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEB5cxx11Ev
> make[3]: *** [Makefile:2280: doc-html] Error 1
> 
> which demangled says
> 
> $ c++filt 
> _ZNK6Givaro7IntegercvNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEB5cxx11Ev
> Givaro::Integer::operator std::__cxx11::basic_string std::char_traits, std::allocator >[abi:cxx11]() const
> 
> The system library has Givaro::Integer::operator 
> std::__cxx11::basic_string, std::allocator 
> >() const
> 
> (no of that weird [abi:cxx11] qualifier)
> 
> Any ideas how to fix this? (besides not using system Givaro) ?
> 
> Dima
> 
> -- 
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[sage-devel] [abi:cxx11] in givaro prevents linking to system givaro on Fedora 32

[Dima Pasechnik]

With system Givaro, one gets

[dochtml] ImportError: 
/home/scratch2/dimpase/sage/sage/local/lib64/python3.8/site-packages/sage/matrix/matrix_modn_sparse.cpython-38-x86_64-linux-gnu.so:
 
undefined symbol: 
_ZNK6Givaro7IntegercvNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEB5cxx11Ev
make[3]: *** [Makefile:2280: doc-html] Error 1

which demangled says

$ c++filt 
_ZNK6Givaro7IntegercvNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEB5cxx11Ev
Givaro::Integer::operator std::__cxx11::basic_string, std::allocator >[abi:cxx11]() const

The system library has Givaro::Integer::operator 
std::__cxx11::basic_string, 
std::allocator >() const

(no of that weird [abi:cxx11] qualifier)

Any ideas how to fix this? (besides not using system Givaro) ?

Dima

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