Re: [deal.II] Re: Synchronization issue for parallel computation of material forces

2017-02-04 Thread Jean-Paul Pelteret 
Seyed,

Thats a compile-time error, not a run-time error. I bet that your 
output_results() function is marked as const, so you cannot modify the 
configurational_forces vector unless its mutable. But if you have any doubts, 
stick to what’s done in step-40. I’m not particularly familiar with the way 
that one does things with PETSc vectors, but the principles that I mentioned 
earlier still apply.

Best,
Jean-Paul

> On 04 Feb 2017, at 23:09, 'Seyed Ali Mohseni' via deal.II User Group 
>  wrote:
> 
> output_results()

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[deal.II] Re: Synchronization issue for parallel computation of material forces

2017-02-04 Thread 'Seyed Ali Mohseni' via deal.II User Group 
Thanks, Jean-Paul. I was thinking maybe something in the same way like 
step-40.

I tried your approach, but can I just set it equal to each other?

I did the following:

*Main class*
LA::MPI::Vector configurational_forces;
LA::MPI::Vector local_configurational_forces;

*setup_system() class*
configurational_forces.reinit(locally_owned_dofs, locally_relevant_dofs, 
mpi_com);

*compute_config_forces() class*
Vector cell_cf(dofs_per_cell); // Cell Configurational forces

typename DoFHandler::active_cell_iterator cell = 
dof_handler.begin_active(), endc = dof_handler.end();
for (; cell != endc; ++cell)
{
if ( cell->is_locally_owned() )
{
fe_values.reinit(cell);

cell_cf = 0;

...

// Configurational force computation ...

...

cell->get_dof_indices(local_dof_indices);

constraints.distribute_local_to_global(cell_cf, 
local_dof_indices, *local_configurational_forces*);
}
}

*local_configurational_forces*.compress(VectorOperation::add);

*output_results() class*
// [ CONFIGURATIONAL FORCES 
]==

configurational_forces = local_configurational_forces;  *(here I receive an 
error!)*

std::vector configurational_forces_magnitude(dim, 
"config_forces");

std::vector 
configurational_forces_interpretation(dim, 
DataComponentInterpretation::component_is_part_of_vector);

data_out.add_data_vector(configurational_forces, 
configurational_forces_magnitude, DataOut::type_dof_data, 
configurational_forces_interpretation);


I receive the following error:

make all 
Scanning dependencies of target solid_mechanics
[ 50%] Building CXX object 
CMakeFiles/solid_mechanics.dir/solid_mechanics.cc.o
/home/seyedali/fe_models/deal.II/solid_mechanics/solid_mechanics.cc(950): 
error: no operator "=" matches these operands
operand types are: const 
dealii::LinearAlgebraPETSc::MPI::Vector = const 
dealii::LinearAlgebraPETSc::MPI::Vector
  configurational_forces = local_configurational_forces;
^
  detected during:
instantiation of "void 
SolidMechanics::do_initial_timestep() [with dim=2]" at line 1081
instantiation of "void SolidMechanics::run() [with dim=2]" 
at line 1113

compilation aborted for 
/home/seyedali/fe_models/deal.II/solid_mechanics/solid_mechanics.cc (code 2)
make[2]: *** [CMakeFiles/solid_mechanics.dir/solid_mechanics.cc.o] Fehler 2
CMakeFiles/solid_mechanics.dir/build.make:62: die Regel für Ziel 
„CMakeFiles/solid_mechanics.dir/solid_mechanics.cc.o“ scheiterte
CMakeFiles/Makefile2:195: die Regel für Ziel 
„CMakeFiles/solid_mechanics.dir/all“ scheiterte
make[1]: *** [CMakeFiles/solid_mechanics.dir/all] Fehler 2
Makefile:83: die Regel für Ziel „all“ scheiterte
make: *** [all] Fehler 2

I assume the size doesn't match. Can I really just write it like you 
suggested?

Kind regards,
S. A. Mohseni

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Re: [deal.II] Re: Re_Error during installation of dealii.8.4.1

2017-02-04 Thread Wolfgang Bangerth 

On 02/04/2017 07:18 AM, Timo Heister wrote:

Now the installation says that there is no write permission on that
particular drive after 100% completion.


what is your CMAKE_INSTALL_PREFIX set to? It should be set to
something in your home directory.


In particular you set it to /path/to/install/dir/, which is a path you want to 
replace by the one where you want to install deal.II in :-)


Best
 W.

--

Wolfgang Bangerth  email: bange...@colostate.edu
   www: http://www.math.colostate.edu/~bangerth/

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Re: [deal.II] Re: Re_Error during installation of dealii.8.4.1

2017-02-04 Thread Timo Heister 
> Now the installation says that there is no write permission on that
> particular drive after 100% completion.

what is your CMAKE_INSTALL_PREFIX set to? It should be set to
something in your home directory. See
https://urldefense.proofpoint.com/v2/url?u=https-3A__www.dealii.org_8.4.1_readme.html-23configuration=CwIBaQ=Ngd-ta5yRYsqeUsEDgxhcqsYYY1Xs5ogLxWPA_2Wlc4=4k7iKXbjGC8LfYxVJJXiaYVu6FRWmEjX38S7JmlS9Vw=-HpOF3nZO7usbZKUqlFkmaY55JD5H1TJKYm_LqE5jeM=xVW8CkEyPPj4GOOvH56EdREUuEBa0kS8w5Mt65X6hxc=
 

-- 
Timo Heister
http://www.math.clemson.edu/~heister/

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Re: [deal.II] Re: Re_Error during installation of dealii.8.4.1

2017-02-04 Thread Sathish Kumar 
Hi Bruno and Wolfgang

I performed a clean installation in a new directory and it still does not 
work. Now the installation says that there is no write permission on that 
particular drive after 100% completion. 

*[100%] Built target deal_II.g*
*Install the project...*
*-- Install configuration: "DebugRelease"*
*CMake Error at cmake/scripts/cmake_install.cmake:36 (FILE):*
*  file cannot create directory: 
/path/to/install/dir/share/deal.II/scripts.*
*  Maybe need administrative privileges.*
*Call Stack (most recent call first):*
*  cmake_install.cmake:37 (INCLUDE)*


*make: *** [install] Error 1*


I have attached the complete summary and log files. Kindly let me know what 
can be done.

Kind regards
Sathish

On Friday, 3 February 2017 00:04:11 UTC+1, Wolfgang Bangerth wrote:
>
> On 02/02/2017 03:41 PM, Sathish Kumar wrote: 
> > // 
> > /icpc: command line warning #10006: ignoring unknown option 
> '-fuse-ld=gold'/ 
> > /lac/CMakeFiles/obj_lac.debug.dir/sparse_matrix_inst2.cc.o: file not 
> > recognized: File format not recognized/ 
>
> This typically happens if you compile in the same directory in which a 
> previous compile job aborted because of a compiler error, because you 
> were out of memory, or some other reason. In that case, the previous 
> compiler run left an unfinished object file that the subsequent compiler 
> run recognizes as "up to date" (because it's newer than its source 
> files) but can't read successfully. 
>
> The solution is to do 'make clean' or just to blow away the build 
> directory and start again. 
>
> Best 
>   W. 
>
> -- 
>  
> Wolfgang Bangerth  email: bang...@colostate.edu 
>  
> www: http://www.math.colostate.edu/~bangerth/ 
>

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###
#
#  deal.II configuration:
#CMAKE_BUILD_TYPE:   DebugRelease
#BUILD_SHARED_LIBS:  ON
#CMAKE_INSTALL_PREFIX:   /path/to/install/dir
#CMAKE_SOURCE_DIR:   /data/leuven/313/vsc31383/dealii/deal.II
#(version 8.4.1)
#CMAKE_BINARY_DIR:   /data/leuven/313/vsc31383/dealii/build
#CMAKE_CXX_COMPILER: Intel 15.0.0.20140723 on platform Linux x86_64
#
/apps/leuven/thinking/2014a/software/icc/2015.0.090/bin/icpc
#CMAKE_C_COMPILER:   
/apps/leuven/thinking/2014a/software/icc/2015.0.090/bin/icc
#CMAKE_Fortran_COMPILER: 
/apps/leuven/thinking/2014a/software/ifort/2013.5.192/bin/intel64/ifort
#CMAKE_GENERATOR:Unix Makefiles
#
#  Base configuration (prior to feature configuration):
#DEAL_II_CXX_FLAGS:-fpic -ansi -w2 -wd68 -wd135 -wd175 
-wd177 -wd191 -wd193 -wd279 -wd327 -wd383 -wd981 -wd1418 -wd1478 -wd1572 
-wd2259 -wd21 -wd2536 -wd15531 -wd111 -wd128 -wd185 -wd280 -qopenmp-simd 
-Wno-return-type
#DEAL_II_CXX_FLAGS_RELEASE:-O2 -no-ansi-alias -ip -funroll-loops 
-no-vec
#DEAL_II_CXX_FLAGS_DEBUG:  -O0 -g -gdwarf-2 -grecord-gcc-switches
#DEAL_II_LINKER_FLAGS: -Wl,--as-needed -shared-intel -rdynamic 
-fuse-ld=gold -qopenmp
#DEAL_II_LINKER_FLAGS_RELEASE: 
#DEAL_II_LINKER_FLAGS_DEBUG:   
#DEAL_II_DEFINITIONS:  
#DEAL_II_DEFINITIONS_RELEASE:  
#DEAL_II_DEFINITIONS_DEBUG:DEBUG
#DEAL_II_USER_DEFINITIONS: 
#DEAL_II_USER_DEFINITIONS_REL: 
#DEAL_II_USER_DEFINITIONS_DEB: DEBUG
#DEAL_II_INCLUDE_DIRS  
#DEAL_II_USER_INCLUDE_DIRS:
#DEAL_II_BUNDLED_INCLUDE_DIRS: 
#DEAL_II_LIBRARIES:m
#DEAL_II_LIBRARIES_RELEASE:
#DEAL_II_LIBRARIES_DEBUG:  
#
#  Configured Features (DEAL_II_ALLOW_BUNDLED = ON, DEAL_II_ALLOW_AUTODETECTION 
= ON):
#  ( DEAL_II_WITH_64BIT_INDICES = OFF )
#  ( DEAL_II_WITH_ARPACK = OFF )
#DEAL_II_WITH_BOOST set up with bundled packages
#BOOST_BUNDLED_INCLUDE_DIRS = 
/data/leuven/313/vsc31383/dealii/deal.II/bundled/boost-1.56.0/include
#BOOST_LIBRARIES = rt
#  ( DEAL_II_WITH_BZIP2 = OFF )
#  ( DEAL_II_WITH_CXX11 = OFF )
#  ( DEAL_II_WITH_CXX14 = OFF )
#  ( DEAL_II_WITH_HDF5 = OFF )
#DEAL_II_WITH_LAPACK set up with external dependencies
#LAPACK_LINKER_FLAGS = 
#LAPACK_LIBRARIES =