paulkoerbitz
commented
13 years ago /home/paul/.virtualenvs/np/bin/pip run on Tue May 10 11:51:38 2011 Downloading/unpacking pymc Getting page http://pypi.python.org/simple/pymc URLs to search for versions for pymc:
-
http://pypi.python.org/simple/pymc/ Getting page http://pypi.python.org/simple/pymc/pymc.googlecode.com Could not fetch URL http://pypi.python.org/simple/pymc/pymc.googlecode.com (from http://pypi.python.org/simple/pymc/): HTTP Error 404: Not Found (pymc/pymc.googlecode.com) Will skip URL http://pypi.python.org/simple/pymc/pymc.googlecode.com when looking for download links for pymc Analyzing links from page http://pypi.python.org/simple/pymc/ Skipping link http://pypi.python.org/packages/2.5/p/pymc/pymc-2.0rc2-py2.5-macosx-10.3-i386.egg#md5=11a2ba103884aac783e68eaee94d5389 (from http://pypi.python.org/simple/pymc/); unknown archive format: .egg Found link http://pypi.python.org/packages/source/p/pymc/pymc-2.0dev974.tar.gz#md5=b1726d3c1df41dce4402cbf7da23097a (from http://pypi.python.org/simple/pymc/), version: 2.0dev974 Found link http://pypi.python.org/packages/source/p/pymc/pymc-2.0.beta.tar.gz#md5=a63b644c4c831778aba32837e5ca0384 (from http://pypi.python.org/simple/pymc/), version: 2.0.beta Found link http://pypi.python.org/packages/source/p/pymc/pymc-2.1alpha.zip#md5=9ec74087d01a06707c8bcb3d1169cf80 (from http://pypi.python.org/simple/pymc/), version: 2.1alpha Found link http://pypi.python.org/packages/source/p/pymc/pymc-2.0rc1.tar.gz#md5=b8e8bc8e72b23a0215d10e13839738d8 (from http://pypi.python.org/simple/pymc/), version: 2.0rc1 Skipping link http://pypi.python.org/packages/2.6/p/pymc/pymc-2.1beta-py2.6-macosx-10.6-universal.egg#md5=9c7513869c28d94fb618d8ef140a768e (from http://pypi.python.org/simple/pymc/); unknown archive format: .egg Found link http://pypi.python.org/packages/source/p/pymc/pymc-2.1beta.zip#md5=265be6fe114f2d52359d59f2c8b912ff (from http://pypi.python.org/simple/pymc/), version: 2.1beta Found link http://pypi.python.org/packages/2.5/p/pymc/pymc-2.0.beta.macosx-10.3-i386.tar.gz#md5=ae60e52ae04f4abf50bd650192ab8ccc (from http://pypi.python.org/simple/pymc/), version: 2.0.beta.macosx-10.3-i386 Skipping link http://pypi.python.org/packages/2.5/p/pymc/pymc-2.0-py2.5-macosx-10.3-i386.egg#md5=23886f86615004f777a0470c69edf265 (from http://pypi.python.org/simple/pymc/); unknown archive format: .egg Found link http://pypi.python.org/packages/source/p/pymc/pymc-2.0.tar.gz#md5=ef673f20c89d845520516111c9c0db08 (from http://pypi.python.org/simple/pymc/), version: 2.0 Skipping link http://pypi.python.org/packages/2.6/p/pymc/pymc-2.1beta.win32-py2.6.exe#md5=50b8c75e52195bb174d9f75f4aa68d3e (from http://pypi.python.org/simple/pymc/); unknown archive format: .exe Skipping link http://pypi.python.org/packages/2.5/p/pymc/pymc-2.0.win32-py2.5.exe#md5=a96a9c90edd4848bffdff8a809b901e8 (from http://pypi.python.org/simple/pymc/); unknown archive format: .exe Skipping link http://pypi.python.org/packages/2.5/p/pymc/pymc-2.0rc1.win32-py2.5.exe#md5=0d13a32b45449fe2e61239700d773089 (from http://pypi.python.org/simple/pymc/); unknown archive format: .exe Skipping link http://pypi.python.org/packages/2.5/p/pymc/pymc-2.0rc2.win32-py2.5.exe#md5=26a558984131d209ec66e05432a03645 (from http://pypi.python.org/simple/pymc/); unknown archive format: .exe Skipping link http://pypi.python.org/packages/2.6/p/pymc/pymc-2.1alpha.win32-py2.6.exe#md5=df576bfe6ca2145861dcb30c4812a549 (from http://pypi.python.org/simple/pymc/); unknown archive format: .exe Found link http://pypi.python.org/packages/source/p/pymc/pymc-2.0rc2.tar.gz#md5=90cece18c207872386a55ad76e958f32 (from http://pypi.python.org/simple/pymc/), version: 2.0rc2 Skipping link http://pypi.python.org/packages/2.5/p/pymc/pymc-2.1alpha.win32-py2.5.exe#md5=fa4bc61d8321ed3a70ea527a2a002951 (from http://pypi.python.org/simple/pymc/); unknown archive format: .exe Skipping link http://pypi.python.org/packages/2.5/p/pymc/pymc-2.1beta.win32-py2.5.exe#md5=fdba7f86d41ab515f718b4a5889ed140 (from http://pypi.python.org/simple/pymc/); unknown archive format: .exe Skipping link http://pypi.python.org/simple/pymc/pymc.googlecode.com (from http://pypi.python.org/simple/pymc/); unknown archive format: .com Using version 2.1beta (newest of versions: 2.1beta, 2.1alpha, 2.0, 2.0rc2, 2.0rc1, 2.0.beta.macosx-10.3-i386, 2.0.beta, 2.0dev974) Downloading from URL http://pypi.python.org/packages/source/p/pymc/pymc-2.1beta.zip#md5=265be6fe114f2d52359d59f2c8b912ff (from http://pypi.python.org/simple/pymc/) Running setup.py egg_info for package pymc /usr/lib/python2.6/dist-packages/numpy/distutils/command/config.py:361: DeprecationWarning: +++++++++++++++++++++++++++++++++++++++++++++++++ Usage of get_output is deprecated: please do not use it anymore, and avoid configuration checks involving running executable on the target machine. +++++++++++++++++++++++++++++++++++++++++++++++++
DeprecationWarning)Could not locate executable g77 Could not locate executable f77 Could not locate executable ifort Could not locate executable ifc Could not locate executable lf95 Could not locate executable pgf90 Could not locate executable pgf77 Could not locate executable f90 Found executable /usr/bin/f95 Could not locate executable fort Could not locate executable efort Could not locate executable efc Found executable /usr/bin/gfortran ATLAS version 3.6.0 built by root on Thu Jun 3 21:13:07 UTC 2004: UNAME : Linux ravel 2.6.5 #3 SMP Tue Apr 13 13:41:54 UTC 2004 x86_64 GNU/Linux INSTFLG : MMDEF : /home/camm/atlas3-3.6.0/CONFIG/ARCHS/HAMMER64SSE2/gcc/gemm ARCHDEF : /home/camm/atlas3-3.6.0/CONFIG/ARCHS/HAMMER64SSE2/gcc/misc F2CDEFS : -DAdd__ -DStringSunStyle CACHEEDGE: 720896 F77 : /home/camm/usr/bin/g77, version GNU Fortran (GCC) 3.3.3 (Debian 20040422) F77FLAGS : -fomit-frame-pointer -O -m64 CC : /usr/bin/gcc, version gcc (GCC) 3.3.3 (Debian 20040422) CC FLAGS : -fomit-frame-pointer -O -mfpmath=387 -m64 MCC : /usr/bin/gcc, version gcc (GCC) 3.3.3 (Debian 20040422) MCCFLAGS : -fomit-frame-pointer -O -mfpmath=387 -m64 compiling '_configtest.c':
/* This file is generated from numpy/distutils/systeminfo.py / void ATL_buildinfo(void); int main(void) { ATL_buildinfo(); return 0; } running egg_info running build_src building extension "pymc.flib" sources f2py options: ['skip:ppnd7'] f2py:> build/src.linux-x86_64-2.6/pymc/flibmodule.c creating build creating build/src.linux-x86_64-2.6 creating build/src.linux-x86_64-2.6/pymc IOError: [Errno 2] No such file or directory: 'skip:ppnd7'. Skipping file "skip:ppnd7". rmbadname1: Replacing "index" with "index_bn". updatevars: "character curterms(20)_24" is mapped to "character curterms(20,24)" updatevars: "character septerms(20)24" is mapped to "character septerms(20,24)" updatevars: "character tokens(maxtok)()" is mapped to "character tokens(maxtok,())" rmbadname1: Replacing "index" with "index_bn". rmbadname1: Replacing "len" with "len_bn". sortvarnames: failed to compute dependencies because of cyclic dependencies between x, nx sortvarnames: failed to compute dependencies because of cyclic dependencies between w, x, nx sortvarnames: failed to compute dependencies because of cyclic dependencies between n, nx, bin0, delta, x, d "object of type 'builtin_function_or_method' has no len()" in evaluating 'len(ord)' (available names: []) Reading fortran codes... Reading file 'pymc/flib.f' (format:fix,strict) Reading file 'pymc/histogram.f' (format:fix,strict) Reading file 'pymc/flib_blas.f' (format:fix,strict) Reading file 'pymc/math.f' (format:fix,strict) Reading file 'pymc/gibbsit.f' (format:fix,strict) Line #1125 in pymc/gibbsit.f:" DOUBLE PRECISION INTENT(CACHE,HIDE), DIMENSION(2_ITERACNT) :: WORK" updatevars: attempt to change the type of "work" ("integer") to "double precision". Ignoring. Post-processing... Block: flib Block: symmetrize Block: logsum Block: logsum_cpx Block: combinationln Block: expand_triangular Block: mod_to_circle Block: standardize Block: gammln Block: mvgammln Block: factrl Block: factln Block: rskewnorm Block: uniform_like Block: duniform_like Block: exponweib Block: exponweib_ppf Block: constrain Block: poisson Block: trpoisson Block: t Block: multinomial Block: weibull Block: logistic Block: normal Block: hnormal Block: lognormal Block: arlognormal Block: gev Block: gev_ppf Block: gamma Block: igamma Block: hyperg Block: geometric Block: dirichlet Block: cauchy Block: negbin Block: negbin2 Block: binomial Block: bernoulli Block: beta_like Block: betabin_like Block: mvhyperg Block: dirmultinom Block: wishart Block: trace Block: gamfun Block: gammds Block: gser Block: gcf Block: gammq Block: trans Block: matmult Block: dtrm Block: elgs Block: bico Block: chol Block: hermpoly Block: uniform Block: set_uniform Block: categorical Block: rcat Block: logit Block: invlogit Block: stukel_logit Block: stukel_invlogit Block: vonmises Block: fixed_binsize Block: weighted_fixed_binsize Block: fixed_binsize_nd Block: qsorti Block: checksymm Block: chol_mvnorm Block: cov_mvnorm Block: prec_mvnorm Block: blas_wishart Block: blas_wishart_cov Block: blas_inv_wishart Block: dtrsm_wrap Block: dtrmm_wrap Block: dchdc_wrap Block: dpotrs_wrap Block: ppnd16 Block: calerf Block: derf Block: derfc Block: derfcx Block: gibbsit Block: matinput Block: vecinput Block: oneparse Block: gibbmain Block: empquant Block: dichot Block: thin Block: mctest Block: indtest Block: mcest Block: ppnd7 Block: ssort Post-processing (stage 2)... Building modules... Building module "flib"... Constructing wrapper function "symmetrize"... symmetrize(c,[cmin,cmax]) Constructing wrapper function "logsum"... s = logsum(x) Constructing wrapper function "logsum_cpx"... s = logsum_cpx(x) Creating wrapper for Fortran function "combinationln"("combinationln")... Constructing wrapper function "combinationln"... combinationln = combinationln(n,k) Constructing wrapper function "expand_triangular"... t = expand_triangular(d,f) Constructing wrapper function "mod_to_circle"... mx = mod_to_circle(x,u,l) Constructing wrapper function "standardize"... z = standardize(x,loc,scale) Creating wrapper for Fortran function "gammln"("gammln")... Constructing wrapper function "gammln"... gammln = gammln(xx) Creating wrapper for Fortran function "mvgammln"("mvgammln")... Constructing wrapper function "mvgammln"... mvgammln = mvgammln(x,k) Creating wrapper for Fortran function "factrl"("factrl")... Constructing wrapper function "factrl"... factrl = factrl(n) Creating wrapper for Fortran function "factln"("factln")... Constructing wrapper function "factln"... factln = factln(n) Constructing wrapper function "rskewnorm"... x = rskewnorm(nx,mu,tau,alph,rn) Constructing wrapper function "uniform_like"... like = uniform_like(x,lower,upper) Constructing wrapper function "duniform_like"... like = duniform_like(x,lower,upper) Constructing wrapper function "exponweib"... like = exponweib(x,a,c,loc,scale) Constructing wrapper function "exponweib_ppf"... ppf = exponweib_ppf(q,a,c) Constructing wrapper function "constrain"... pass = constrain(x,a,b,allow_equal) Constructing wrapper function "poisson"... like = poisson(x,mu) Constructing wrapper function "trpoisson"... like = trpoisson(x,mu,k) Constructing wrapper function "t"... like = t(x,nu) Constructing wrapper function "multinomial"... like = multinomial(x,n,p) Constructing wrapper function "weibull"... like = weibull(x,alpha,beta) Constructing wrapper function "logistic"... like = logistic(x,mu,tau) Constructing wrapper function "normal"... like = normal(x,mu,tau) Constructing wrapper function "hnormal"... like = hnormal(x,tau) Constructing wrapper function "lognormal"... like = lognormal(x,mu,tau) Constructing wrapper function "arlognormal"... like = arlognormal(x,mu,sigma,rho,beta) Constructing wrapper function "gev"... like = gev(x,xi,mu,sigma) Constructing wrapper function "gev_ppf"... ppf = gev_ppf(q,xi) Constructing wrapper function "gamma"... like = gamma(x,alpha,beta) Constructing wrapper function "igamma"... like = igamma(x,alpha,beta) Constructing wrapper function "hyperg"... like = hyperg(x,draws,success,total) Constructing wrapper function "geometric"... like = geometric(x,p) Constructing wrapper function "dirichlet"... like = dirichlet(x,theta) Constructing wrapper function "cauchy"... like = cauchy(x,alpha,beta) Constructing wrapper function "negbin"... like = negbin(x,r,p) Constructing wrapper function "negbin2"... like = negbin2(x,mu,a) Constructing wrapper function "binomial"... like = binomial(x,n,p) Constructing wrapper function "bernoulli"... like = bernoulli(x,p) Constructing wrapper function "beta_like"... like = beta_like(x,alpha,beta) Constructing wrapper function "betabin_like"... like = betabin_like(x,alpha,beta,n) Constructing wrapper function "mvhyperg"... like = mvhyperg(x,color) Constructing wrapper function "dirmultinom"... like = dirmultinom(x,theta) Constructing wrapper function "wishart"... like = wishart(x,n,sigma) Constructing wrapper function "trace"... trace(mat,tr,[k]) Constructing wrapper function "gamfun"... gx = gamfun(xx) Creating wrapper for Fortran function "gammds"("gammds")... Constructing wrapper function "gammds"... gammds = gammds(y,p,ifault) Constructing wrapper function "gser"... gser(gamser,a,x,gln) Constructing wrapper function "gcf"... gcf(gammcf,a,x,gln) Creating wrapper for Fortran function "gammq"("gammq")... Constructing wrapper function "gammq"... gammq = gammq(a,x) Constructing wrapper function "trans"... tmat = trans(mat) Constructing wrapper function "matmult"... prod = matmult(mat1,mat2) Constructing wrapper function "dtrm"... d = dtrm(a) Constructing wrapper function "elgs"... elgs(a,indx,[n]) Creating wrapper for Fortran function "bico"("bico")... Constructing wrapper function "bico"... bico = bico(n,k) Constructing wrapper function "chol"... c = chol(a,[n]) Constructing wrapper function "hermpoly"... cx = hermpoly(n,x) Creating wrapper for Fortran function "uniform"("uniform")... Constructing wrapper function "uniform"... uniform = uniform() Constructing wrapper function "set_uniform"... set_uniform(seed1,seed2) Constructing wrapper function "categorical"... like = categorical(x,p) Constructing wrapper function "rcat"... s = rcat(p,rands) Constructing wrapper function "logit"... ltheta = logit(theta) Constructing wrapper function "invlogit"... theta = invlogit(ltheta) Constructing wrapper function "stukel_logit"... ltheta = stukel_logit(theta,a1,a2,[overwrite_theta]) Constructing wrapper function "stukel_invlogit"... theta = stukel_invlogit(ltheta,a1,a2,[overwrite_ltheta]) Constructing wrapper function "vonmises"... like = vonmises(x,mu,kappa) Constructing wrapper function "fixed_binsize"... h = fixed_binsize(x,bin0,delta,n) Constructing wrapper function "weighted_fixed_binsize"... h = weighted_fixed_binsize(x,w,bin0,delta,n) Constructing wrapper function "fixed_binsize_nd"... count = fixed_binsize_nd(x,bin0,delta,n,nc) Constructing wrapper function "qsorti"... qsorti(ord,a,[n]) Constructing wrapper function "checksymm"... cs = checksymm(x) Constructing wrapper function "chol_mvnorm"... like = chol_mvnorm(x,mu,sig,[overwrite_x,overwrite_mu]) Constructing wrapper function "cov_mvnorm"... like = cov_mvnorm(x,mu,c,[overwrite_x,overwrite_mu,overwrite_c]) Constructing wrapper function "prec_mvnorm"... like = prec_mvnorm(x,mu,tau,[overwrite_x,overwrite_mu,overwrite_tau]) Constructing wrapper function "blas_wishart"... like = blas_wishart(x,n,t,[overwrite_x,overwrite_t]) Constructing wrapper function "blas_wishart_cov"... like = blas_wishart_cov(x,n,v,[overwrite_x,overwrite_v]) Constructing wrapper function "blas_inv_wishart"... like = blas_inv_wishart(x,n,t,[overwrite_x,overwrite_t]) Constructing wrapper function "dtrsm_wrap"... dtrsm_wrap(a,b,side,transa,uplo) Constructing wrapper function "dtrmm_wrap"... dtrmm_wrap(a,b,side,transa,uplo) Constructing wrapper function "dchdc_wrap"... piv,info = dchdc_wrap(a) Constructing wrapper function "dpotrs_wrap"... info = dpotrs_wrap(cholfac,b,[uplo]) Creating wrapper for Fortran function "ppnd16"("ppnd16")... Constructing wrapper function "ppnd16"... ppnd16 = ppnd16(p,ifault) Constructing wrapper function "calerf"... calerf(arg,result,jint) Creating wrapper for Fortran function "derf"("derf")... Constructing wrapper function "derf"... derf = derf(x) Creating wrapper for Fortran function "derfc"("derfc")... Constructing wrapper function "derfc"... derfc = derfc(x) Creating wrapper for Fortran function "derfcx"("derfcx")... Constructing wrapper function "derfcx"... derfcx = derfcx(x) Constructing wrapper function "matinput"... matinput(uid,matout,rowused,colused,r15,[rowmax,colmax]) Constructing wrapper function "vecinput"... vecinput(uid,vecout,vecused,r15,[vecmax]) Constructing wrapper function "oneparse"... getarrdims:warning: assumed shape array, using 0 instead of '()' oneparse(instring,delimit,tokens,tokcnt,r15,[maxtok]) Constructing wrapper function "gibbmain"... nmin,kthin,nburn,nprec,kmind = gibbmain(original,q,r,s,epsilon) Creating wrapper for Fortran function "empquant"("empquant")... Constructing wrapper function "empquant"... getarrdims:warning: assumed shape array, using 0 instead of '_' empquant = empquant(data,q,work,[iteracnt]) Constructing wrapper function "dichot"... dichot(data,cutpt,zt,[iteracnt]) Constructing wrapper function "thin"... thin(series,kthin,result,thincnt,[iteracnt]) Constructing wrapper function "mctest"... mctest(data,g2,bic,[datacnt]) Constructing wrapper function "indtest"... indtest(data,g2,bic,[datacnt]) Constructing wrapper function "mcest"... mcest(data,alpha,beta,[datacnt]) Creating wrapper for Fortran function "ppnd7"("ppnd7")... Constructing wrapper function "ppnd7"... ppnd7 = ppnd7(p,ifault) Constructing wrapper function "ssort"... ssort(x,y,kflag,[n]) Constructing COMMON block support for "unif_seeds"... s1,s2 Wrote C/API module "flib" to file "build/src.linux-x86_64-2.6/pymc/flibmodule.c" Fortran 77 wrappers are saved to "build/src.linux-x86_64-2.6/pymc/flib-f2pywrappers.f" adding 'build/src.linux-x86_64-2.6/fortranobject.c' to sources. adding 'build/src.linux-x86_64-2.6' to include_dirs. copying /usr/lib/python2.6/dist-packages/numpy/f2py/src/fortranobject.c -> build/src.linux-x86_64-2.6 copying /usr/lib/python2.6/dist-packages/numpy/f2py/src/fortranobject.h -> build/src.linux-x86_64-2.6 adding 'build/src.linux-x86_64-2.6/pymc/flib-f2pywrappers.f' to sources. building extension "pymc.LazyFunction" sources building extension "pymc.Container_values" sources building extension "pymc.gp.linalg_utils" sources f2py options: [] f2py:> build/src.linux-x86_64-2.6/pymc/gp/linalg_utilsmodule.c creating build/src.linux-x86_64-2.6/pymc/gp Reading fortran codes... Reading file 'pymc/gp/linalg_utils.f' (format:fix,strict) Post-processing... Block: linalg_utils Block: remove_duplicates Block: check_repeats Block: dcopy_wrap Block: diag_call Block: cov_fun Block: basis_diag_call Block: dtrmm_wrap Block: dtrsm_wrap Block: dpotrf_wrap Block: gp_array_logp Block: asqs Post-processing (stage 2)... Building modules... Constructing call-back function "cb_cov_fun_in_diag_calluserroutines" def cov_fun(xe): return q Building module "linalg_utils"... Constructing wrapper function "remove_duplicates"... nr,rf,rt,nu,xu,ui = remove_duplicates(x) Constructing wrapper function "check_repeats"... f,new_indices,n_new_indices = check_repeats(x,x_sofar,f_sofar) Constructing wrapper function "dcopy_wrap"... dcopy_wrap(x,y) Constructing wrapper function "diag_call"... v = diag_call(x,cov_fun,[cov_fun_extra_args]) Constructing wrapper function "basis_diag_call"... v = basis_diag_call(basis_x) Constructing wrapper function "dtrmm_wrap"... dtrmm_wrap(a,b,[uplo,transa]) Constructing wrapper function "dtrsm_wrap"... dtrsm_wrap(a,b,[uplo,transa,alpha]) Constructing wrapper function "dpotrf_wrap"... info = dpotrf_wrap(a) Constructing wrapper function "gp_array_logp"... like = gp_array_logp(x,mu,sig,[overwrite_x,overwrite_mu]) Constructing wrapper function "asqs"... asqs(c,s,[cmin,cmax]) Wrote C/API module "linalg_utils" to file "build/src.linux-x86_64-2.6/pymc/gp/linalg_utilsmodule.c" adding 'build/src.linux-x86_64-2.6/fortranobject.c' to sources. adding 'build/src.linux-x86_64-2.6' to include_dirs. building extension "pymc.gp.incomplete_chol" sources f2py options: [] f2py:> build/src.linux-x86_64-2.6/pymc/gp/incomplete_cholmodule.c Reading fortran codes... Reading file 'pymc/gp/incomplete_chol.f' (format:fix,strict) Post-processing... Block: incomplete_chol Block: ichol_continue Block: rowfun Block: ichol Block: rowfun Block: ichol_basis Block: ichol_full Post-processing (stage 2)... Building modules... Constructing call-back function "cb_rowfun_in_ichol_continueuserroutines" def rowfun(itot,x,rowvec): return Constructing call-back function "cb_rowfun_in_icholuserroutines" def rowfun(i,x,rowvec): return Building module "incomplete_chol"... Constructing wrapper function "ichol_continue"... m,piv = ichol_continue(sig,diag,piv,reltol,x,rowfun,mold,[overwrite_x,rowfun_extra_args]) Constructing wrapper function "ichol"... sig,m,piv = ichol(diag,reltol,x,rowfun,rl,[overwrite_x,rowfun_extra_args]) Constructing wrapper function "ichol_basis"... sig,p,m = ichol_basis(basis,nug,reltol) Constructing wrapper function "ichol_full"... sig,m,p = ichol_full(c,reltol) Wrote C/API module "incomplete_chol" to file "build/src.linux-x86_64-2.6/pymc/gp/incomplete_cholmodule.c" adding 'build/src.linux-x86_64-2.6/fortranobject.c' to sources. adding 'build/src.linux-x86_64-2.6' to include_dirs. building extension "pymc.gp.cov_funs.isotropic_cov_funs" sources f2py options: [] f2py:> build/src.linux-x86_64-2.6/pymc/gp/cov_funs/isotropic_cov_funsmodule.c creating build/src.linux-x86_64-2.6/pymc/gp/cov_funs Reading fortran codes... Reading file 'pymc/gp/cov_funs/isotropic_cov_funs.f' (format:fix,strict) Reading file 'blas/BLAS/dscal.f' (format:fix,strict) Post-processing... Block: isotropic_cov_funs Block: imul Block: symmetrize Block: stein_spatiotemporal Block: matern Block: gaussian Block: exponential Block: brownian Block: frac_brownian Block: pow_exp Block: sphere Block: quadratic Block: dgamma Block: rkbesl Block: dscal Post-processing (stage 2)... Building modules... Building module "isotropic_cov_funs"... Constructing wrapper function "imul"... imul(c,a,[cmin,cmax,symm]) Constructing wrapper function "symmetrize"... symmetrize(c,[cmin,cmax]) Constructing wrapper function "stein_spatiotemporal"... stein_spatiotemporal(c,gt,origin_val,[cmin,cmax,symm]) Constructing wrapper function "matern"... matern(c,diff_degree,[cmin,cmax,symm]) Constructing wrapper function "gaussian"... gaussian(c,[cmin,cmax,symm]) Constructing wrapper function "exponential"... exponential(c,[cmin,cmax,symm]) Constructing wrapper function "brownian"... brownian(c,x,y,[cmin,cmax,symm]) Constructing wrapper function "frac_brownian"... frac_brownian(c,x,y,h,[cmin,cmax,symm]) Constructing wrapper function "pow_exp"... powexp(c,pow,[cmin,cmax,symm]) Constructing wrapper function "sphere"... sphere(c,[cmin,cmax,symm]) Constructing wrapper function "quadratic"... quadratic(c,phi,[cmin,cmax,symm]) Creating wrapper for Fortran function "dgamma"("dgamma")... Constructing wrapper function "dgamma"... dgamma = dgamma(x) Constructing wrapper function "rkbesl"... bk = rkbesl(x,alpha,nb,ize,ncalc) Constructing wrapper function "dscal"... getarrdims:warning: assumed shape array, using 0 instead of '' dscal(n,da,dx,incx) Wrote C/API module "isotropic_cov_funs" to file "build/src.linux-x86_64-2.6/pymc/gp/cov_funs/isotropic_cov_funsmodule.c" Fortran 77 wrappers are saved to "build/src.linux-x86_64-2.6/pymc/gp/cov_funs/isotropic_cov_funs-f2pywrappers.f" adding 'build/src.linux-x86_64-2.6/fortranobject.c' to sources. adding 'build/src.linux-x86_64-2.6' to include_dirs. adding 'build/src.linux-x86_64-2.6/pymc/gp/cov_funs/isotropic_cov_funs-f2pywrappers.f' to sources. building extension "pymc.gp.cov_funs.distances" sources f2py options: [] f2py:> build/src.linux-x86_64-2.6/pymc/gp/cov_funs/distancesmodule.c Reading fortran codes... Reading file 'pymc/gp/cov_funs/distances.f' (format:fix,strict) Post-processing... Block: distances Block: euclidean Block: geographic Block: paniso_geo_rad Block: aniso_geo_rad Post-processing (stage 2)... Building modules... Building module "distances"... Constructing wrapper function "euclidean"... euclidean(d,x,y,[cmin,cmax,symm]) Constructing wrapper function "geographic"... geographic(d,x,y,[cmin,cmax,symm]) Constructing wrapper function "paniso_geo_rad"... paniso_geo_rad(d,x,y,ctrs,scals,[cmin,cmax,symm]) Constructing wrapper function "aniso_geo_rad"... aniso_geo_rad(d,x,y,inc,ecc,[cmin,cmax,symm]) Wrote C/API module "distances" to file "build/src.linux-x86_64-2.6/pymc/gp/cov_funs/distancesmodule.c" adding 'build/src.linux-x86_64-2.6/fortranobject.c' to sources. adding 'build/src.linux-x86_64-2.6' to include_dirs. creating pip-egg-info/pymc.egg-info writing pip-egg-info/pymc.egg-info/PKG-INFO writing top-level names to pip-egg-info/pymc.egg-info/top_level.txt writing dependency_links to pip-egg-info/pymc.egg-info/dependency_links.txt writing manifest file 'pip-egg-info/pymc.egg-info/SOURCES.txt' warning: manifestmaker: standard file '-c' not found reading manifest file 'pip-egg-info/pymc.egg-info/SOURCES.txt' writing manifest file 'pip-egg-info/pymc.egg-info/SOURCES.txt' Installing collected packages: pymc Running setup.py install for pymc Running command /home/paul/.virtualenvs/np/bin/python -c "import setuptools;file='/home/paul/.virtualenvs/np/build/pymc/setup.py';exec(compile(open(file).read().replace('\r\n', '\n'), file, 'exec'))" install --single-version-externally-managed --record /tmp/pip-Qgy9U-record/install-record.txt --install-headers /home/paul/.virtualenvs/np/include/site/python2.6 /usr/lib/python2.6/dist-packages/numpy/distutils/command/config.py:361: DeprecationWarning: +++++++++++++++++++++++++++++++++++++++++++++++++ Usage of get_output is deprecated: please do not use it anymore, and avoid configuration checks involving running executable on the target machine. +++++++++++++++++++++++++++++++++++++++++++++++++
DeprecationWarning)Could not locate executable g77 Could not locate executable f77 Could not locate executable ifort Could not locate executable ifc Could not locate executable lf95 Could not locate executable pgf90 Could not locate executable pgf77 Could not locate executable f90 Found executable /usr/bin/f95 Could not locate executable fort Could not locate executable efort Could not locate executable efc Found executable /usr/bin/gfortran ATLAS version 3.6.0 built by root on Thu Jun 3 21:13:07 UTC 2004: UNAME : Linux ravel 2.6.5 #3 SMP Tue Apr 13 13:41:54 UTC 2004 x86_64 GNU/Linux INSTFLG : MMDEF : /home/camm/atlas3-3.6.0/CONFIG/ARCHS/HAMMER64SSE2/gcc/gemm ARCHDEF : /home/camm/atlas3-3.6.0/CONFIG/ARCHS/HAMMER64SSE2/gcc/misc F2CDEFS : -DAdd__ -DStringSunStyle CACHEEDGE: 720896 F77 : /home/camm/usr/bin/g77, version GNU Fortran (GCC) 3.3.3 (Debian 20040422) F77FLAGS : -fomit-frame-pointer -O -m64 CC : /usr/bin/gcc, version gcc (GCC) 3.3.3 (Debian 20040422) CC FLAGS : -fomit-frame-pointer -O -mfpmath=387 -m64 MCC : /usr/bin/gcc, version gcc (GCC) 3.3.3 (Debian 20040422) MCCFLAGS : -fomit-frame-pointer -O -mfpmath=387 -m64 compiling '_configtest.c':
/* This file is generated from numpy/distutils/system_info.py */ void ATL_buildinfo(void); int main(void) { ATL_buildinfo(); return 0; } running install running build running config_cc unifing config_cc, config, build_clib, build_ext, build commands --compiler options running config_fc unifing config_fc, config, build_clib, build_ext, build commands --fcompiler options running build_src building extension "pymc.flib" sources f2py options: ['skip:ppnd7'] adding 'build/src.linux-x86_64-2.6/fortranobject.c' to sources. adding 'build/src.linux-x86_64-2.6' to include_dirs. adding 'build/src.linux-x86_64-2.6/pymc/flib-f2pywrappers.f' to sources. building extension "pymc.LazyFunction" sources building extension "pymc.Container_values" sources building extension "pymc.gp.linalg_utils" sources f2py options: [] adding 'build/src.linux-x86_64-2.6/fortranobject.c' to sources. adding 'build/src.linux-x86_64-2.6' to include_dirs. building extension "pymc.gp.incomplete_chol" sources f2py options: [] adding 'build/src.linux-x86_64-2.6/fortranobject.c' to sources. adding 'build/src.linux-x86_64-2.6' to include_dirs. building extension "pymc.gp.cov_funs.isotropic_cov_funs" sources f2py options: [] adding 'build/src.linux-x86_64-2.6/fortranobject.c' to sources. adding 'build/src.linux-x86_64-2.6' to include_dirs. adding 'build/src.linux-x86_64-2.6/pymc/gp/cov_funs/isotropic_cov_funs-f2pywrappers.f' to sources. building extension "pymc.gp.cov_funs.distances" sources f2py options: [] adding 'build/src.linux-x86_64-2.6/fortranobject.c' to sources. adding 'build/src.linux-x86_64-2.6' to include_dirs. running build_py creating build/lib.linux-x86_64-2.6 creating build/lib.linux-x86_64-2.6/pymc copying pymc/Matplot.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/NormalApproximation.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/threadpool.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/Node.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/MCMC.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/Model.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/ScipyDistributions.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/init.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/PyMCObjects.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/decorators.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/graph.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/StepMethods.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/diagnostics.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/distributions.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/CommonDeterministics.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/Container.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/utils.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/InstantiationDecorators.py -> build/lib.linux-x86_64-2.6/pymc copying pymc/CircularStochastic.py -> build/lib.linux-x86_64-2.6/pymc creating build/lib.linux-x86_64-2.6/pymc/database copying pymc/database/hdf5.py -> build/lib.linux-x86_64-2.6/pymc/database copying pymc/database/txt.py -> build/lib.linux-x86_64-2.6/pymc/database copying pymc/database/init.py -> build/lib.linux-x86_64-2.6/pymc/database copying pymc/database/ram.py -> build/lib.linux-x86_64-2.6/pymc/database copying pymc/database/mysql.py -> build/lib.linux-x86_64-2.6/pymc/database copying pymc/database/base.py -> build/lib.linux-x86_64-2.6/pymc/database copying pymc/database/sqlite.py -> build/lib.linux-x86_64-2.6/pymc/database copying pymc/database/pickle.py -> build/lib.linux-x86_64-2.6/pymc/database copying pymc/database/no_trace.py -> build/lib.linux-x86_64-2.6/pymc/database creating build/lib.linux-x86_64-2.6/pymc/examples copying pymc/examples/simple_von_mises.py -> build/lib.linux-x86_64-2.6/pymc/examples copying pymc/examples/model_2.py -> build/lib.linux-x86_64-2.6/pymc/examples copying pymc/examples/custom_step.py -> build/lib.linux-x86_64-2.6/pymc/examples copying pymc/examples/weibull_fit.py -> build/lib.linux-x86_64-2.6/pymc/examples copying pymc/examples/init.py -> build/lib.linux-x86_64-2.6/pymc/examples copying pymc/examples/simple.py -> build/lib.linux-x86_64-2.6/pymc/examples copying pymc/examples/model_4.py -> build/lib.linux-x86_64-2.6/pymc/examples copying pymc/examples/model_3.py -> build/lib.linux-x86_64-2.6/pymc/examples copying pymc/examples/straightlinefit.py -> build/lib.linux-x86_64-2.6/pymc/examples copying pymc/examples/gelman_bioassay.py -> build/lib.linux-x86_64-2.6/pymc/examples copying pymc/examples/DisasterModel.py -> build/lib.linux-x86_64-2.6/pymc/examples copying pymc/examples/model_1_gof.py -> build/lib.linux-x86_64-2.6/pymc/examples copying pymc/examples/model_1.py -> build/lib.linux-x86_64-2.6/pymc/examples copying pymc/examples/run_simple_von_mises.py -> build/lib.linux-x86_64-2.6/pymc/examples copying pymc/examples/model_1_missing.py -> build/lib.linux-x86_64-2.6/pymc/examples copying pymc/examples/run_simple.py -> build/lib.linux-x86_64-2.6/pymc/examples creating build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_MCMCSampler.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_distributions.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/objectmodel.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_container.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_norm_approx.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_AM.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_basiscov.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_binary_step.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_instantiation.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_observation.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/init.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_interactive.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_adaptive.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_LazyFunction.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_convergence.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_special_methods.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_mean.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_graph.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_database.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_cov.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_realization.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_GP_MCMC.py -> build/lib.linux-x86_64-2.6/pymc/tests copying pymc/tests/test_utils.py -> build/lib.linux-x86_64-2.6/pymc/tests creating build/lib.linux-x86_64-2.6/pymc/gp copying pymc/gp/Mean.py -> build/lib.linux-x86_64-2.6/pymc/gp copying pymc/gp/BasisCovariance.py -> build/lib.linux-x86_64-2.6/pymc/gp copying pymc/gp/gp_submodel.py -> build/lib.linux-x86_64-2.6/pymc/gp copying pymc/gp/Realization.py -> build/lib.linux-x86_64-2.6/pymc/gp copying pymc/gp/FullRankCovariance.py -> build/lib.linux-x86_64-2.6/pymc/gp copying pymc/gp/step_methods.py -> build/lib.linux-x86_64-2.6/pymc/gp copying pymc/gp/init.py -> build/lib.linux-x86_64-2.6/pymc/gp copying pymc/gp/Covariance.py -> build/lib.linux-x86_64-2.6/pymc/gp copying pymc/gp/NearlyFullRankCovariance.py -> build/lib.linux-x86_64-2.6/pymc/gp copying pymc/gp/gpplots.py -> build/lib.linux-x86_64-2.6/pymc/gp copying pymc/gp/GPutils.py -> build/lib.linux-x86_64-2.6/pymc/gp creating build/lib.linux-x86_64-2.6/pymc/gp/cov_funs copying pymc/gp/cov_funs/brownian.py -> build/lib.linux-x86_64-2.6/pymc/gp/cov_funs copying pymc/gp/cov_funs/init.py -> build/lib.linux-x86_64-2.6/pymc/gp/cov_funs copying pymc/gp/cov_funs/cov_utils.py -> build/lib.linux-x86_64-2.6/pymc/gp/cov_funs copying pymc/gp/cov_funs/wrapped_distances.py -> build/lib.linux-x86_64-2.6/pymc/gp/cov_funs copying pymc/gp/cov_funs/bases.py -> build/lib.linux-x86_64-2.6/pymc/gp/cov_funs running build_ext customize UnixCCompiler customize UnixCCompiler using build_ext customize GnuFCompiler customize IntelFCompiler customize LaheyFCompiler customize PGroupFCompiler customize AbsoftFCompiler customize NAGFCompiler customize VastFCompiler customize GnuFCompiler customize CompaqFCompiler customize IntelItaniumFCompiler customize IntelEM64TFCompiler customize Gnu95FCompiler customize Gnu95FCompiler customize Gnu95FCompiler using build_ext building 'pymc.flib' extension compiling C sources C compiler: gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fPIC
creating build/temp.linux-x86_64-2.6 creating build/temp.linux-x86_64-2.6/cephes creating build/temp.linux-x86_64-2.6/build creating build/temp.linux-x86_64-2.6/build/src.linux-x86_64-2.6 creating build/temp.linux-x86_64-2.6/build/src.linux-x86_64-2.6/pymc compile options: '-DATLAS_INFO="\"3.6.0\"" -I/usr/include -Ibuild/src.linux-x86_64-2.6 -I/usr/lib/python2.6/dist-packages/numpy/core/include -I/usr/include/python2.6 -c' gcc: cephes/c2f.c cephes/c2f.c:9: warning: function declaration isn’t a prototype gcc: cephes/chbevl.c gcc: build/src.linux-x86_64-2.6/pymc/flibmodule.c build/src.linux-x86_64-2.6/pymc/flibmodule.c:16:20: error: Python.h: No such file or directory In file included from /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:61, from /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/arrayobject.h:14, from build/src.linux-x86_64-2.6/fortranobject.h:13, from build/src.linux-x86_64-2.6/pymc/flibmodule.c:17: /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/npy_common.h:71:2: error: #error Must use Python with unicode enabled. In file included from /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/arrayobject.h:14, from build/src.linux-x86_64-2.6/fortranobject.h:13, from build/src.linux-x86_64-2.6/pymc/flibmodule.c:17: /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:181: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:182: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘npyuintp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:284: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:285: error: expected ‘)’ before ‘_’ token /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:287: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:287: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:288: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:298: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:298: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:300: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:300: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:301: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:303: error: expected declaration specifiers or ‘...’ before ‘npyintp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:308: error: expected ‘)’ before ‘’ token /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:313: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:315: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:316: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:316: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:318: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:322: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:324: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:325: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:326: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:327: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:327: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:328: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:328: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:332: error: expected specifier-qualifier-list before ‘npy_intp’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:345: error: expected specifier-qualifier-list before ‘PyArray_GetItemFunc’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:446: error: expected specifier-qualifier-list before ‘PyObject_HEAD’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:478: error: expected specifier-qualifier-list before ‘PyObject’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:488: error: expected specifier-qualifier-list before ‘PyObject_HEAD’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:513: error: expected specifier-qualifier-list before ‘PyObject_HEAD’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:521: error: expected specifier-qualifier-list before ‘PyObject_HEAD’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:528: error: expected declaration specifiers or ‘...’ before ‘PyObject’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:670: error: expected specifier-qualifier-list before ‘PyObject_HEAD’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:817: error: expected specifier-qualifier-list before ‘PyObject_HEAD’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:871: error: expected specifier-qualifier-list before ‘PyObject_HEAD’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:1084: error: expected specifier-qualifier-list before ‘npy_intp’ In file included from /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/ndarrayobject.h:1099, from /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/arrayobject.h:14, from build/src.linux-x86_64-2.6/fortranobject.h:13, from build/src.linux-x86_64-2.6/pymc/flibmodule.c:17: /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/multiarray_api.h: In function ‘_import_array’: /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/multiarray_api.h:971: error: ‘PyObject’ undeclared (first use in this function) /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/__multiarray_api.h:971: error: (Each undeclared identifier is reported only once /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/multiarray_api.h:971: error: for each function it appears in.) /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/multiarray_api.h:971: error: ‘numpy’ undeclared (first use in this function) /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/multiarray_api.h:971: warning: implicit declaration of function ‘PyImport_ImportModule’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/multiarray_api.h:972: error: ‘c_api’ undeclared (first use in this function) /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/__multiarray_api.h:972: error: ‘NULL’ undeclared (first use in this function) /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/multiarray_api.h:974: warning: implicit declaration of function ‘PyObject_GetAttrString’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/multiarray_api.h:975: warning: implicit declaration of function ‘Py_DECREF’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/multiarray_api.h:976: warning: implicit declaration of function ‘PyCObject_Check’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/multiarray_api.h:977: warning: implicit declaration of function ‘PyCObject_AsVoidPtr’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/multiarray_api.h:984: warning: implicit declaration of function ‘PyErr_Format’ /usr/lib/python2.6/dist-packages/numpy/core/include/numpy/__multiarray_api.h:984: error: ‘PyExc_RuntimeError’ undeclared (first use in this function) In file included from build/src.linux-x86_64-2.6/pymc/flibmodule.c:17: build/src.linux-x86_64-2.6/fortranobject.h: At top level: build/src.linux-x86_64-2.6/fortranobject.h:61: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ build/src.linux-x86_64-2.6/fortranobject.h:63: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ build/src.linux-x86_64-2.6/fortranobject.h:73: error: expected specifier-qualifier-list before ‘npy_intp’ build/src.linux-x86_64-2.6/fortranobject.h:85: error: expected specifier-qualifier-list before ‘PyObject_HEAD’ build/src.linux-x86_64-2.6/fortranobject.h:94: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute’ before ‘PyFortran_Type’ build/src.linux-x8664-2.6/fortranobject.h:95: error: expected ‘)’ before ‘’ token build/src.linux-x8664-2.6/fortranobject.h:96: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/fortranobject.h:97: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x86_64-2.6/fortranobject.h:111: error: expected declaration specifiers or ‘...’ before ‘npy_intp’ build/src.linux-x86_64-2.6/fortranobject.h:114: error: expected declaration specifiers or ‘...’ before ‘PyObject’ build/src.linux-x8664-2.6/pymc/flibmodule.c:22: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:23: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x86_64-2.6/pymc/flibmodule.c:175: error: expected declaration specifiers or ‘...’ before ‘PyObject’ build/src.linux-x86_64-2.6/pymc/flibmodule.c: In function ‘int_from_pyobj’: build/src.linux-x86_64-2.6/pymc/flibmodule.c:176: error: ‘PyObject’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:176: error: ‘tmp’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:177: warning: implicit declaration of function ‘PyInt_Check’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:177: error: ‘obj’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:178: warning: implicit declaration of function ‘PyInt_AS_LONG’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:181: warning: implicit declaration of function ‘PyNumber_Int’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:187: warning: implicit declaration of function ‘PyComplex_Check’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:189: warning: implicit declaration of function ‘PyString_Check’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:191: warning: implicit declaration of function ‘PySequence_Check’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:192: warning: implicit declaration of function ‘PySequence_GetItem’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:194: warning: implicit declaration of function ‘PyErr_Clear’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:195: error: too many arguments to function ‘int_from_pyobj’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:199: error: ‘err’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:199: warning: implicit declaration of function ‘PyErr_Occurred’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:200: error: ‘flib_error’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:201: warning: implicit declaration of function ‘PyErr_SetString’ build/src.linux-x86_64-2.6/pymc/flibmodule.c: At top level: build/src.linux-x86_64-2.6/pymc/flibmodule.c:206: error: expected declaration specifiers or ‘...’ before ‘PyObject’ build/src.linux-x86_64-2.6/pymc/flibmodule.c: In function ‘double_from_pyobj’: build/src.linux-x86_64-2.6/pymc/flibmodule.c:207: error: ‘PyObject’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:207: error: ‘tmp’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:208: warning: implicit declaration of function ‘PyFloat_Check’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:208: error: ‘obj’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:212: warning: implicit declaration of function ‘PyFloat_AS_DOUBLE’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:216: warning: implicit declaration of function ‘PyNumber_Float’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:234: error: too many arguments to function ‘double_from_pyobj’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:238: error: ‘err’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:239: error: ‘flib_error’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c: At top level: build/src.linux-x86_64-2.6/pymc/flibmodule.c:245: error: expected declaration specifiers or ‘...’ before ‘PyObject’ build/src.linux-x86_64-2.6/pymc/flibmodule.c: In function ‘string_from_pyobj’: build/src.linux-x86_64-2.6/pymc/flibmodule.c:247: error: ‘PyObject’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:247: error: ‘tmp’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:251: error: ‘obj’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:251: error: ‘Py_None’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:254: error: ‘PyExc_MemoryError’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:258: warning: implicit declaration of function ‘PyObject_TypeCheck’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:258: error: ‘PyTypeObject’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:258: error: expected expression before ‘)’ token build/src.linux-x86_64-2.6/pymc/flibmodule.c:261: error: ‘PyArrayObject’ has no member named ‘flags’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:262: error: ‘PyExc_ValueError’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:266: error: ‘PyArrayObject’ has no member named ‘descr’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:266: warning: implicit declaration of function ‘npy_intp’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:266: error: expected expression before ‘)’ token build/src.linux-x86_64-2.6/pymc/flibmodule.c:266: error: expected ‘)’ before ‘PyArray_API’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:266: error: ‘PyArrayObject’ has no member named ‘dimensions’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:266: error: ‘PyArrayObject’ has no member named ‘nd’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:268: error: ‘PyArrayObject’ has no member named ‘data’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:273: warning: implicit declaration of function ‘Py_INCREF’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:276: warning: implicit declaration of function ‘PyObject_Str’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:279: warning: implicit declaration of function ‘PyString_GET_SIZE’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:281: warning: implicit declaration of function ‘PyString_AS_STRING’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:285: warning: implicit declaration of function ‘Py_XDECREF’ build/src.linux-x86_64-2.6/pymc/flibmodule.c:287: error: ‘err’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:288: error: ‘flib_error’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c: At top level: build/src.linux-x86_64-2.6/pymc/flibmodule.c:294: error: expected declaration specifiers or ‘...’ before ‘PyObject’ build/src.linux-x86_64-2.6/pymc/flibmodule.c: In function ‘float_from_pyobj’: build/src.linux-x86_64-2.6/pymc/flibmodule.c:296: error: ‘obj’ undeclared (first use in this function) build/src.linux-x86_64-2.6/pymc/flibmodule.c:296: error: too many arguments to function ‘double_from_pyobj’ build/src.linux-x86_64-2.6/pymc/flibmodule.c: At top level: build/src.linux-x8664-2.6/pymc/flibmodule.c:429: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:537: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:632: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:730: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:812: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:949: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:1110: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:1265: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:1340: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:1421: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:1495: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:1573: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:1769: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:1912: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:2063: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:2254: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:2412: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:2562: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:2681: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:2819: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:2938: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:3087: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:3230: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:3377: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:3523: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:3644: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:3793: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:3936: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:4106: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:4239: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:4386: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:4534: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:4706: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:4826: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:4949: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:5096: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:5243: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:5390: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:5536: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x8664-2.6/pymc/flibmodule.c:5657: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘’ token build/src.linux-x86_64-2.6/pymc/flibmodule.c:5805: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘attribute’ before ‘*’ token build/src.linux-x86_64-2.6/pymc/flibmodule.c:5977: error: expected
fonnesbeck
Hello,
when trying to install pymc on Ubuntu 10.04 today I ran into some trouble. I will attach the error message in a moment (it's quite long).
The issue was that I needed the python2.6-dev package, after that everything ran fine. Maybe there is a way to include this in the requirements for pymc, if not then I think it should be mentioned in the installation notes for ubuntu (I see that it says that it needs python 2.6, but I needed 30 minutes to figure out that it meant that I need to install python2.6-dev).
Thanks for all the great work! Paul