[R-br] [OFF] Biblioteca C para matrizes.
Pedro Rafael
pedro.rafael.marinho em gmail.com
Segunda Agosto 13 00:38:23 BRT 2012
Será que é alguma coisa com o sistema operacional?
[ ],
Pedro Rafael Diniz Marinho.
Em 12 de agosto de 2012 22:36, Pedro Rafael
<pedro.rafael.marinho em gmail.com> escreveu:
> Tentei remover a biblioteca armadillo e instalar as dependências
> necessárias e no final reinstalei.
> [ ],
> Pedro Rafael Diniz Marinho.
>
>
> Em 12 de agosto de 2012 22:34, Pedro Rafael
> <pedro.rafael.marinho em gmail.com> escreveu:
>> Valeu Benilton. O problema da compilação n ocorre. Possivelmente as
>> bibliotecas necessárias estão instaladas. Ocorre erro na hora de
>> executar o programa. O erro é:
>>
>> error: det(): use of ATLAS or LAPACK needs to be enabled
>> terminate called after throwing an instance of 'std::logic_error'
>> what():
>> Abortado (imagem do núcleo gravada)
>>
>>
>> [ ],
>> Pedro Rafael Diniz Marinho.
>>
>>
>> Em 12 de agosto de 2012 22:29, beniltoncarvalho [via R-br]
>> <ml-node+s2285057n4655843h10 em n4.nabble.com> escreveu:
>>> auto correct fail
>>>
>>> -llapack -lblas
>>>
>>> Sent from a mobile device
>>>
>>> On Aug 13, 2012 2:11 AM, "Pedro Rafael" <[hidden email]> wrote:
>>>>
>>>> Olá Benilton, como vai? O programa que estou testando é bem simples.
>>>> Na verdade a matriz é pequena, 5 por 5. Veja:
>>>>
>>>> #include<iostream>
>>>> #include"armadillo"
>>>>
>>>> using namespace arma;
>>>>
>>>> int main()
>>>> {
>>>> mat A = randu<mat>(5,5);
>>>> double x = det(A);
>>>> return 0;
>>>> }
>>>>
>>>> Compilei como você me indicou e obtive o seguinte erro.
>>>>
>>>> /usr/include/armadillo_bits/compiler_setup.hpp:117:6: warning:
>>>> #warning "*** Detected GCC 4.7.0 / 4.7.1, which has a regression
>>>> (bug)" [-Wcpp]
>>>> /usr/include/armadillo_bits/compiler_setup.hpp:118:6: warning:
>>>> #warning "*** See http://gcc.gnu.org/bugzilla/show_bug.cgi?id=53549
>>>> " [-Wcpp]
>>>> /usr/include/armadillo_bits/compiler_setup.hpp:119:6: warning:
>>>> #warning "*** A partial workaround for the bug has been activated,
>>>> " [-Wcpp]
>>>> /usr/include/armadillo_bits/compiler_setup.hpp:120:6: warning:
>>>> #warning "*** which reduces some functionality in fixed-size matrices
>>>> " [-Wcpp]
>>>> /usr/bin/ld: cannot find -lapack
>>>> collect2: error: ld returned 1 exit status
>>>>
>>>>
>>>> [ ],
>>>> Pedro Rafael Diniz Marinho.
>>>> Em 12 de agosto de 2012 22:06, beniltoncarvalho [via R-br]
>>>> <[hidden email]> escreveu:
>>>>
>>>> > Vc precisa linkar p lapack blas
>>>> >
>>>> > g++ -O2 -lapack -lblas programa.cpp
>>>> >
>>>> > Obvio, não testado. Adicionalmente, p matriz grande vc deveria usar
>>>> > log_det.
>>>> >
>>>> > Sent from a mobile device
>>>> >
>>>> > On Aug 13, 2012 12:44 AM, "Pedro Rafael" <[hidden email]> wrote:
>>>> >>
>>>> >> Pessoal estou tendo um problema com a biblioteca armadillo no linux
>>>> >> fedora. Quando vou calcular o determinante de uma matriz muito pequena
>>>> >> funciona mas quando a minha matriz é grande ocorre o seguinte erro:
>>>> >>
>>>> >> error: det(): use of ATLAS or LAPACK needs to be enabled
>>>> >>
>>>> >> Já instalei as bibliotecas cmake, blas-devel, lapack-devel,
>>>> >> atlas-devel, boost-devel mas o erro permanece. Alguém já teve isso ou
>>>> >> poderia dar uma dica de como corrigir esse problema?
>>>> >>
>>>> >> Obrigado,
>>>> >> Pedro Rafael Diniz Marinho.
>>>> >>
>>>> >>
>>>> >> Em 10 de agosto de 2012 23:58, Pedro Rafael
>>>> >> <[hidden email]> escreveu:
>>>> >>
>>>> >> > Não compreendi os exemplos. Vou dar uma lida maior e buscar mais
>>>> >> > coisas
>>>> >> > na net.
>>>> >> >
>>>> >> > Obrigado,
>>>> >> > Pedro Rafael Diniz Marinho.
>>>> >> >
>>>> >> >
>>>> >> > Em 10 de agosto de 2012 23:04, beniltoncarvalho [via R-br]
>>>> >> > <[hidden email]> escreveu:
>>>> >>
>>>> >> >> No básico do basico... Envolva sua função em um extern. Dai use o
>>>> >> >> .Call
>>>> >> >>
>>>> >> >> Sent from a mobile device
>>>> >> >>
>>>> >> >> On Aug 11, 2012 2:42 AM, "Pedro Rafael" <[hidden email]> wrote:
>>>> >> >>>
>>>> >> >>> Interessante. Com o comando RcppArmadillo.package.skeleton é
>>>> >> >>> possível
>>>> >> >>> criar a estrutura de diretórios de um pacote R. Digamos que eu
>>>> >> >>> tenha
>>>> >> >>> um código C++ e queria arrumar ele para fazer um pacote para o R.
>>>> >> >>> Eu
>>>> >> >>> queria entender como se da essa comunicação. Só a filosofia mesmo.
>>>> >> >>> Eu
>>>> >> >>> entendo como criar um pacote do R utilizando o sistema de
>>>> >> >>> orientação à
>>>> >> >>> objeto S3 e sei que existe outras como S4 e R5. O que não consigo
>>>> >> >>> entender bem é como comunicar o código C/C++ com o R e como se dá a
>>>> >> >>> comunicação desses códigos (C/C++) com o R. Vi que posso chamar
>>>> >> >>> códigos do R para o C++ mas acho que o mais interessante é o
>>>> >> >>> contrário. Como chamar um código otimizado de C++ para R e criar
>>>> >> >>> um
>>>> >> >>> pacote caso seja conveniente. Alguém poderia me dar um exemplo com
>>>> >> >>> uma
>>>> >> >>> função bem simplória só para entender por alto como funciona?
>>>> >> >>>
>>>> >> >>> Obrigado,
>>>> >> >>> Pedro Rafael Diniz Marinho.
>>>> >> >>>
>>>> >> >>>
>>>> >> >>> Em 10 de agosto de 2012 22:23, beniltoncarvalho [via R-br]
>>>> >> >>> <[hidden email]> escreveu:
>>>> >> >>>
>>>> >> >>> > Sim. Mas antes de qualquer coisa, veja o pacote RcppArmadillo e
>>>> >> >>> > os
>>>> >> >>> > documentos de ajuda associados. b
>>>> >> >>> >
>>>> >> >>> > 2012/8/11 Pedro Rafael <[hidden email]>:
>>>> >> >>> >
>>>> >> >>> >> Uma última dúvida. É fácil integrar códigos C++ com o R?
>>>> >> >>> >> Utilizei
>>>> >> >>> >> as
>>>> >> >>> >> funções .C() e .Call() para chamar comandos em C para R. Nunca
>>>> >> >>> >> tentei
>>>> >> >>> >> utilizando C++. A construção de pacotes R feitos utilizando
>>>> >> >>> >> funções
>>>> >> >>> >> escritas em C++ também é tranquila?
>>>> >> >>> >>
>>>> >> >>> >>
>>>> >> >>> >> Obrigado,
>>>> >> >>> >> Pedro Rafael Diniz Marinho.
>>>> >> >>> >>
>>>> >> >>> >>
>>>> >> >>> >> Em 10 de agosto de 2012 22:04, Pedro Rafael
>>>> >> >>> >> <[hidden email]> escreveu:
>>>> >> >>> >>> Que legal Benilton, vou olhar bem esse pacote. Muito obrigado
>>>> >> >>> >>> pelas
>>>> >> >>> >>> informações. Vou brincar um pouco com esse pacote. Procurei na
>>>> >> >>> >>> web
>>>> >> >>> >>> outros pacotes de álgebra linear para C++ mas me parece que
>>>> >> >>> >>> esse é
>>>> >> >>> >>> o
>>>> >> >>> >>> pacote livre mais completo.
>>>> >> >>> >>> [ ],
>>>> >> >>> >>> Pedro Rafael Diniz Marinho.
>>>> >> >>> >>>
>>>> >> >>> >>>
>>>> >> >>> >>> Em 10 de agosto de 2012 21:31, beniltoncarvalho [via R-br]
>>>> >> >>> >>> <[hidden email]> escreveu:
>>>> >> >>> >>>> Se vc gostou do Armadillo, divirta-se com o pacote
>>>> >> >>> >>>> RcppArmadillo.
>>>> >> >>> >>>> b
>>>> >> >>> >>>>
>>>> >> >>> >>>> 2012/8/11 Pedro Rafael <[hidden email]>:
>>>> >> >>> >>>>
>>>> >> >>> >>>>> Obrigado Prof. Paulo pela informação, me ajudou bastante. Eu
>>>> >> >>> >>>>> gostei
>>>> >> >>> >>>>> muito Benilton da biblioteca de álgebra linear "armadillo".
>>>> >> >>> >>>>> Muito
>>>> >> >>> >>>>> mais
>>>> >> >>> >>>>> fácil que a GSL. Eu acho desorganizado os códigos C. O
>>>> >> >>> >>>>> problema
>>>> >> >>> >>>>> que
>>>> >> >>> >>>>> quando escrevo algum código matemático em C++ sempre tem uma
>>>> >> >>> >>>>> estrutura
>>>> >> >>> >>>>> procedural, deve ser o vício que tenho do C. Acabo usando
>>>> >> >>> >>>>> quase
>>>> >> >>> >>>>> nada
>>>> >> >>> >>>>> de Classes, Heranças, Polimorfismo, etc. Contudo, acho
>>>> >> >>> >>>>> interessante
>>>> >> >>> >>>>> a
>>>> >> >>> >>>>> facilidade de se trabalhar com vetores, matrizes e alocação
>>>> >> >>> >>>>> dinâmica
>>>> >> >>> >>>>> utilizando C++.
>>>> >> >>> >>>>> [ ],
>>>> >> >>> >>>>> Pedro Rafael Diniz Marinho.
>>>> >> >>> >>>>>
>>>> >> >>> >>>>>
>>>> >> >>> >>>>> Em 10 de agosto de 2012 20:28, beniltoncarvalho [via R-br]
>>>> >> >>> >>>>> <[hidden email]> escreveu:
>>>> >> >>> >>>>>> Pedro,
>>>> >> >>> >>>>>>
>>>> >> >>> >>>>>> Há muito deixei de procurar 'a linguagem mais <escolha o
>>>> >> >>> >>>>>> adjetivo>
>>>> >> >>> >>>>>> para <escolha a tarefa>'. Fico contente em usar qualquer
>>>> >> >>> >>>>>> linguagem
>>>> >> >>> >>>>>> que
>>>> >> >>> >>>>>> se mostre util e nao me force a reinventar a roda. Dito
>>>> >> >>> >>>>>> isso,
>>>> >> >>> >>>>>> nao
>>>> >> >>> >>>>>> vejo
>>>> >> >>> >>>>>> la essas diferencas entre C ou C++. E' obvio que algum
>>>> >> >>> >>>>>> especialista
>>>> >> >>> >>>>>> em
>>>> >> >>> >>>>>> alguma delas encontrara' inumeros casos que servem de
>>>> >> >>> >>>>>> contra-exemplo;
>>>> >> >>> >>>>>> mas enqto ele faz isso, eu sigo adiante resolvendo outros
>>>> >> >>> >>>>>> problemas.
>>>> >> >>> >>>>>>
>>>> >> >>> >>>>>> b
>>>> >> >>> >>>>>>
>>>> >> >>> >>>>>> 2012/8/10 Paulo Justiniano <[hidden email]>:
>>>> >> >>> >>>>>>
>>>> >> >>> >>>>>>> Pedro
>>>> >> >>> >>>>>>>
>>>> >> >>> >>>>>>> quando se diz em evitar inverter matrizes é porque muitas
>>>> >> >>> >>>>>>> contas
>>>> >> >>> >>>>>>> podem
>>>> >> >>> >>>>>>> ser
>>>> >> >>> >>>>>>> feitas sem a inversao explícita
>>>> >> >>> >>>>>>>
>>>> >> >>> >>>>>>> Por exemplo, a conta
>>>> >> >>> >>>>>>>
>>>> >> >>> >>>>>>> X'V^{-1}X
>>>> >> >>> >>>>>>>
>>>> >> >>> >>>>>>> pode ser feita evitando inversao a partir da cholesky de V
>>>> >> >>> >>>>>>> que pode ser aproveitada de calculos anteriores uma vez que
>>>> >> >>> >>>>>>> já
>>>> >> >>> >>>>>>> deve
>>>> >> >>> >>>>>>> ter
>>>> >> >>> >>>>>>> sido
>>>> >> >>> >>>>>>> calculada antes para obter as estimativas
>>>> >> >>> >>>>>>>
>>>> >> >>> >>>>>>> No exemplo
>>>> >> >>> >>>>>>>
>>>> >> >>> >>>>>>> cV <- chol(V)
>>>> >> >>> >>>>>>> crossprod(backsolve(cV, X, transpose=T))
>>>> >> >>> >>>>>>>
>>>> >> >>> >>>>>>> isto é ***muito*** mais rapido (compare com system.time())
>>>> >> >>> >>>>>>> do que
>>>> >> >>> >>>>>>>
>>>> >> >>> >>>>>>> t(X) %*% solve(V) %*% X
>>>> >> >>> >>>>>>>
>>>> >> >>> >>>>>>>
>>>> >> >>> >>>>>>>
>>>> >> >>> >>>>>>>
>>>> >> >>> >>>>>>> On Thu, 9 Aug 2012, Pedro Rafael wrote:
>>>> >> >>> >>>>>>>
>>>> >> >>> >>>>>>>> Com respeito a evitar de trabalhar com inversas de
>>>> >> >>> >>>>>>>> matrizes é
>>>> >> >>> >>>>>>>> fato
>>>> >> >>> >>>>>>>> mas
>>>> >> >>> >>>>>>>> infelizmente tenho que trabalhar. Para trabalhar com
>>>> >> >>> >>>>>>>> modelos
>>>> >> >>> >>>>>>>> de
>>>> >> >>> >>>>>>>> regressão heterocedásticos vou precisar de cálculo de
>>>> >> >>> >>>>>>>> inversas de
>>>> >> >>> >>>>>>>> matrizes para o cálculo da estrutura de covariância de tal
>>>> >> >>> >>>>>>>> estimador.
>>>> >> >>> >>>>>>>> [ ],
>>>> >> >>> >>>>>>>> Pedro Rafael Diniz Marinho.
>>>> >> >>> >>>>>>>>
>>>> >> >>> >>>>>>>>
>>>> >> >>> >>>>>>>> Em 9 de agosto de 2012 17:02, Pedro Rafael
>>>> >> >>> >>>>>>>> <[hidden email]> escreveu:
>>>> >> >>> >>>>>>>>>
>>>> >> >>> >>>>>>>>> Verdade Benilton inverter matrizes requer um custo
>>>> >> >>> >>>>>>>>> computacional
>>>> >> >>> >>>>>>>>> bastante elevado. Atualmente programo em C e programei
>>>> >> >>> >>>>>>>>> muito
>>>> >> >>> >>>>>>>>> pouco
>>>> >> >>> >>>>>>>>> em
>>>> >> >>> >>>>>>>>> C++ por curiosidade. Você acreditar que códigos em C++
>>>> >> >>> >>>>>>>>> perdem
>>>> >> >>> >>>>>>>>> muito
>>>> >> >>> >>>>>>>>> desempenho em comparação à C considerando que a
>>>> >> >>> >>>>>>>>> programação
>>>> >> >>> >>>>>>>>> em
>>>> >> >>> >>>>>>>>> ambas
>>>> >> >>> >>>>>>>>> as linguagens sejam eficientes? Você tem boas
>>>> >> >>> >>>>>>>>> experiências
>>>> >> >>> >>>>>>>>> na
>>>> >> >>> >>>>>>>>> utilização de C++ para programação estatística e para uso
>>>> >> >>> >>>>>>>>> em
>>>> >> >>> >>>>>>>>> simulações?
>>>> >> >>> >>>>>>>>>
>>>> >> >>> >>>>>>>>> Gostei bastante dessa biblioteca que você me passou,
>>>> >> >>> >>>>>>>>> muito
>>>> >> >>> >>>>>>>>> interessante. Não conhecia. A única biblioteca para
>>>> >> >>> >>>>>>>>> álgebra
>>>> >> >>> >>>>>>>>> linear
>>>> >> >>> >>>>>>>>> livre que eu conhecia era a GSL.
>>>> >> >>> >>>>>>>>>
>>>> >> >>> >>>>>>>>> [ ],
>>>> >> >>> >>>>>>>>> Pedro Rafael Diniz Marinho.
>>>> >> >>> >>>>>>>>>
>>>> >> >>> >>>>>>>>>
>>>> >> >>> >>>>>>>>> Em 9 de agosto de 2012 15:58, beniltoncarvalho [via R-br]
>>>> >> >>> >>>>>>>>> <[hidden email]> escreveu:
>>>> >> >>> >>>>>>>>>>
>>>> >> >>> >>>>>>>>>> Eu ainda sou do time "se vc esta' invertendo matriz,
>>>> >> >>> >>>>>>>>>> entao
>>>> >> >>> >>>>>>>>>> vc
>>>> >> >>> >>>>>>>>>> esta'
>>>> >> >>> >>>>>>>>>> fazendo algo errado"...
>>>> >> >>> >>>>>>>>>>
>>>> >> >>> >>>>>>>>>> Em C++, vc vai querer olhar o que Armadillo tem a
>>>> >> >>> >>>>>>>>>> oferecer.
>>>> >> >>> >>>>>>>>>>
>>>> >> >>> >>>>>>>>>> b
>>>> >> >>> >>>>>>>>>>
>>>> >> >>> >>>>>>>>>> 2012/8/9 Pedro Rafael <[hidden email]>:
>>>> >> >>> >>>>>>>>>>
>>>> >> >>> >>>>>>>>>>> Pessoal gostaria de saber qual uma boa biblioteca livre
>>>> >> >>> >>>>>>>>>>> de
>>>> >> >>> >>>>>>>>>>> C
>>>> >> >>> >>>>>>>>>>> para
>>>> >> >>> >>>>>>>>>>> trabalhar com operações matriciais como inversas e
>>>> >> >>> >>>>>>>>>>> produtos de
>>>> >> >>> >>>>>>>>>>> matrizes. Qualquer dica será interessante.
>>>> >> >>> >>>>>>>>>>>
>>>> >> >>> >>>>>>>>>>> [ ] Pedro Rafael Diniz Marinho.
>>>> >> >>> >>>>>>>>>>> _______________________________________________
>>>> >> >>> >>>>>>>>>>> R-br mailing list
>>>> >> >>> >>>>>>>>>>> [hidden email]
>>>> >> >>> >>>>>>>>>>>
>>>> >> >>> >>>>>>>>>>> https://listas.inf.ufpr.br/cgi-bin/mailman/listinfo/r-br
>>>> >> >>> >>>>>>>>>>> Leia o guia de postagem
>>>> >> >>> >>>>>>>>>>> (http://www.leg.ufpr.br/r-br-guia)
>>>> >> >>> >>>>>>>>>>> e
>>>> >> >>> >>>>>>>>>>> forneça
>>>> >> >>> >>>>>>>>>>> código mínimo reproduzível.
>>>> >> >>> >>>>>>>>>>
>>>> >> >>> >>>>>>>>>> _______________________________________________
>>>> >> >>> >>>>>>>>>> R-br mailing list
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>>>> >> >>> >>>>>>>>>> Leia o guia de postagem
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>>>> >> >>> >>>>>>>>>> e
>>>> >> >>> >>>>>>>>>> forneça
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>>>> >> >>> >>>>>>>>>> mínimo reproduzível.
>>>> >> >>> >>>>>>>>>>
>>>> >> >>> >>>>>>>>>>
>>>> >> >>> >>>>>>>>>> ________________________________
>>>> >> >>> >>>>>>>>>> If you reply to this email, your message will be added
>>>> >> >>> >>>>>>>>>> to
>>>> >> >>> >>>>>>>>>> the
>>>> >> >>> >>>>>>>>>> discussion
>>>> >> >>> >>>>>>>>>> below:
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>>>> >> >>> >>>>>>>>>>
>>>> >> >>> >>>>>>>>>>
>>>> >> >>> >>>>>>>>>>
>>>> >> >>> >>>>>>>>>>
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>>>> >> >>> >>>>>>>>>> NAML
>>>> >> >>> >>>>>>>>
>>>> >> >>> >>>>>>>> _______________________________________________
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>>>> >> >>> >>>>>>>
>>>> >> >>> >>>>>>>
>>>> >> >>> >>>>>>> _______________________________________________
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>>>> >> >>> >>>>>> _______________________________________________
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>>>> >> >>> >>>>>>
>>>> >> >>> >>>>>> ________________________________
>>>> >> >>> >>>>>> If you reply to this email, your message will be added to
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>>>> >> >>> >>>>>> NAML
>>>> >> >>> >>>>> _______________________________________________
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>>>> >> >>> >>>>
>>>> >> >>> >>>> ________________________________
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>>>> >> >>> >>>> NAML
>>>> >> >>> >> _______________________________________________
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>>>> >> >>> >> Leia o guia de postagem (http://www.leg.ufpr.br/r-br-guia) e
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>>>> >> >>> >
>>>> >> >>> >
>>>> >> >>> > ________________________________
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>>>> >> >>> > NAML
>>>> >> >>> _______________________________________________
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