[bug#34647] [PATCH] gnu: python-petsc4py: Update to 10.3.1.

[Leo Famulari]

On Mon, Feb 25, 2019 at 01:26:09PM +0000, Paul Garlick wrote:
> * gnu/packages/maths.scm (python-petsc4py): Update to 10.3.1.

I tested this update by building fenics on top of it. On my x86-63
machine, it failed as below. Is this expected or a reason to block the
python-petsc4py update?

------
[ 95%] Building CXX object 
dolfin/CMakeFiles/dolfin.dir/nls/TAOLinearBoundSolver.cpp.o
cd /tmp/guix-build-fenics-dolfin-2018.1.0.post1.drv-0/build/dolfin && 
/gnu/store/n2p1zs14y89lwkg9da68y12pc10c6sw9-gcc-5.5.0/bin/c++  
-DDOLFIN_VERSION=\"2018.1.0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC 
-DHAS_SCOTCH -DHAS_SLEPC -DHAS_SUNDIALS -DHAS_UMFPACK -DHAS_ZLIB -DNDEBUG 
-Ddolfin_EXPORTS 
-I/tmp/guix-build-fenics-dolfin-2018.1.0.post1.drv-0/fenics-project-dolfin-948dc42cc4e0
 -I/tmp/guix-build-fenics-dolfin-2018.1.0.post1.drv-0/build 
-I/gnu/store/9ghap4fk37lqzpcxplrswvg0yfmwm64x-sundials-openmpi-3.1.1/include 
-isystem 
/gnu/store/4vciqisw09sfpb3dc5nshynwgrv7sh1d-python-fenics-ffc-2018.1.0/lib/python3.7/site-packages/ffc/backends/ufc
 -isystem 
/gnu/store/kd4byfi7fyck8i0qy298ghrr0ig8cxay-eigen-3.3.5/include/eigen3 -isystem 
/gnu/store/gw08kjck9zpib5v2vc3jdrws5a838gpd-hdf5-parallel-openmpi-1.8.21/include
 -isystem /gnu/store/2y704qn8mjljnmswf87dky0nzzlbld1d-suitesparse-4.5.5/include 
-isystem /gnu/store/xbbiqkjdl8xs018qk217p7fqqgnzdk67-pt-scotch32-6.0.6/include 
-isystem /gnu/store/nq4lsyipmfb0q7g26ra45rwwqrh3x8zw-zlib-1.2.11/include 
-isystem /gnu/store/lpd53a5zszm9mzzn68i7a1cwcf0nymvy-openmpi-4.0.0/include 
-isystem /gnu/store/pz22lgiw476i9fla6ds5f1shchndk7ny-boost-1.69.0/include  -O2 
-g -DNDEBUG -fPIC   -std=c++11 -o 
CMakeFiles/dolfin.dir/nls/TAOLinearBoundSolver.cpp.o -c 
/tmp/guix-build-fenics-dolfin-2018.1.0.post1.drv-0/fenics-project-dolfin-948dc42cc4e0/dolfin/nls/TAOLinearBoundSolver.cpp
/tmp/guix-build-fenics-dolfin-2018.1.0.post1.drv-0/fenics-project-dolfin-948dc42cc4e0/dolfin/nls/PETScSNESSolver.cpp:51:64:
 error: ‘SNESTEST’ was not declared in this scope
     {"test",         {"Tool to verify Jacobian approximation", SNESTEST}},
                                                                ^
/tmp/guix-build-fenics-dolfin-2018.1.0.post1.drv-0/fenics-project-dolfin-948dc42cc4e0/dolfin/nls/PETScSNESSolver.cpp:68:56:
 error: could not convert ‘{{"default", {"default SNES method", ""}}, 
{"newtonls", {"Line search method", "newtonls"}}, {"newtontr", {"Trust region 
method", "newtontr"}}, {"test", {"Tool to verify Jacobian approximation", 
<expression error>}}, {"ngmres", {"Nonlinear generalised minimum residual 
method", "ngmres"}}, {"nrichardson", {"Richardson nonlinear method (Picard 
iteration)", "nrichardson"}}, {"vinewtonrsls", {"Reduced space active set 
solver method (for bounds)", "vinewtonrsls"}}, {"vinewtonssls", {"Reduced space 
active set solver method (for bounds)", "vinewtonssls"}}, {"qn", {"Limited 
memory quasi-Newton", "qn"}}, {"ncg", {"Nonlinear conjugate gradient method", 
"ncg"}}, {"fas", {"Full Approximation Scheme nonlinear multigrid method", 
"fas"}}, {"nasm", {"Nonlinear Additive Schwartz", "nasm"}}, {"anderson", 
{"Anderson mixing method", "anderson"}}, {"aspin", {"Additive-Schwarz 
Preconditioned Inexact Newton", "aspin"}}, {"ms", {"Multistage smoothers", 
"ms"}}}’ from ‘<brace-enclosed initializer list>’ to ‘const 
std::map<std::__cxx11::basic_string<char>, 
std::pair<std::__cxx11::basic_string<char>, const char* const> >’
     {"ms",           {"Multistage smoothers", SNESMS}} };
                                                        ^
[ 95%] Building CXX object 
dolfin/CMakeFiles/dolfin.dir/parameter/GlobalParameters.cpp.o
cd /tmp/guix-build-fenics-dolfin-2018.1.0.post1.drv-0/build/dolfin && 
/gnu/store/n2p1zs14y89lwkg9da68y12pc10c6sw9-gcc-5.5.0/bin/c++  
-DDOLFIN_VERSION=\"2018.1.0\" -DHAS_CHOLMOD -DHAS_HDF5 -DHAS_MPI -DHAS_PETSC 
-DHAS_SCOTCH -DHAS_SLEPC -DHAS_SUNDIALS -DHAS_UMFPACK -DHAS_ZLIB -DNDEBUG 
-Ddolfin_EXPORTS 
-I/tmp/guix-build-fenics-dolfin-2018.1.0.post1.drv-0/fenics-project-dolfin-948dc42cc4e0
 -I/tmp/guix-build-fenics-dolfin-2018.1.0.post1.drv-0/build 
-I/gnu/store/9ghap4fk37lqzpcxplrswvg0yfmwm64x-sundials-openmpi-3.1.1/include 
-isystem 
/gnu/store/4vciqisw09sfpb3dc5nshynwgrv7sh1d-python-fenics-ffc-2018.1.0/lib/python3.7/site-packages/ffc/backends/ufc
 -isystem 
/gnu/store/kd4byfi7fyck8i0qy298ghrr0ig8cxay-eigen-3.3.5/include/eigen3 -isystem 
/gnu/store/gw08kjck9zpib5v2vc3jdrws5a838gpd-hdf5-parallel-openmpi-1.8.21/include
 -isystem /gnu/store/2y704qn8mjljnmswf87dky0nzzlbld1d-suitesparse-4.5.5/include 
-isystem /gnu/store/xbbiqkjdl8xs018qk217p7fqqgnzdk67-pt-scotch32-6.0.6/include 
-isystem /gnu/store/nq4lsyipmfb0q7g26ra45rwwqrh3x8zw-zlib-1.2.11/include 
-isystem /gnu/store/lpd53a5zszm9mzzn68i7a1cwcf0nymvy-openmpi-4.0.0/include 
-isystem /gnu/store/pz22lgiw476i9fla6ds5f1shchndk7ny-boost-1.69.0/include  -O2 
-g -DNDEBUG -fPIC   -std=c++11 -o 
CMakeFiles/dolfin.dir/parameter/GlobalParameters.cpp.o -c 
/tmp/guix-build-fenics-dolfin-2018.1.0.post1.drv-0/fenics-project-dolfin-948dc42cc4e0/dolfin/parameter/GlobalParameters.cpp
make[2]: *** [dolfin/CMakeFiles/dolfin.dir/build.make:2770: 
dolfin/CMakeFiles/dolfin.dir/nls/PETScSNESSolver.cpp.o] Error 1
make[2]: *** Waiting for unfinished jobs....
make[2]: Leaving directory 
'/tmp/guix-build-fenics-dolfin-2018.1.0.post1.drv-0/build'
make[1]: *** [CMakeFiles/Makefile2:276: dolfin/CMakeFiles/dolfin.dir/all] Error 
2
make[1]: Leaving directory 
'/tmp/guix-build-fenics-dolfin-2018.1.0.post1.drv-0/build'
make: *** [Makefile:144: all] Error 2
Backtrace:
           4 (primitive-load "/gnu/store/fvv87kxqx1lnw75y2qyqq5srwm7…")
In ice-9/eval.scm:
   191:35  3 (_ _)
In srfi/srfi-1.scm:
   863:16  2 (every1 #<procedure 763720 at /gnu/store/6bwkbm3a80v0x…> …)
In 
/gnu/store/6bwkbm3a80v0xab5qsicij7bjvmn5yna-module-import/guix/build/gnu-build-system.scm:
   799:28  1 (_ _)
In 
/gnu/store/6bwkbm3a80v0xab5qsicij7bjvmn5yna-module-import/guix/build/utils.scm:
    616:6  0 (invoke _ . _)

/gnu/store/6bwkbm3a80v0xab5qsicij7bjvmn5yna-module-import/guix/build/utils.scm:616:6:
 In procedure invoke:
Throw to key `srfi-34' with args `(#<condition &invoke-error [program: "make" 
arguments: ("-j" "4") exit-status: 2 term-signal: #f stop-signal: #f] 56df80>)'.
builder for 
`/gnu/store/znvp5a2xnqvzgg9sdbz4wc67wgk3ilrv-fenics-dolfin-2018.1.0.post1.drv' 
failed with exit code 1
build of 
/gnu/store/znvp5a2xnqvzgg9sdbz4wc67wgk3ilrv-fenics-dolfin-2018.1.0.post1.drv 
failed
View build log at 
'/var/log/guix/drvs/zn/vp5a2xnqvzgg9sdbz4wc67wgk3ilrv-fenics-dolfin-2018.1.0.post1.drv.bz2'.
cannot build derivation 
`/gnu/store/v152180dwfgwjk6bpxxf0bni8dcd013n-fenics-2018.1.0.post1.drv': 1 
dependencies couldn't be built
guix build: error: build of 
`/gnu/store/v152180dwfgwjk6bpxxf0bni8dcd013n-fenics-2018.1.0.post1.drv' failed
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