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Questions tagged [petsc]

PETSc, pronounced PET-see (the S is silent), is a suite of data structures and routines for the scalable (parallel) solution of scientific applications modeled by partial differential equations.

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How to pass array of PETSc Vec to a function

I am trying to pass an array of Vec's in PETSc to a function, modify it internally and retrieve the results. A pseudocode is as follows: PetscErrorCode foo(Vec *y, int n) { // ... ierr = VecDuplicateVecs(x, n, &y); CHKERRQ(ierr); …
Rubem_blah
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Accessing NSGA2 population size using pyoptsparse driver with OpenMDAO

I am attempting to modify the GA population size for when using the NSGA2 optimizer through OpenMDAO's pyoptsparse driver. I tried accessing PopSize from pyNSGA2.py using opt_settings dictionary as follows: prob.driver =…
Peter
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Installing Petsc on Windows

I installed cygwin with python, make and diffutils. When I am using the command: ./configure --with-cc=gcc --with-cxx=g++ --with-fc=gfortran --download-mpich --download-fblaslapack I am getting an error "Windows Python Detected. Please rerun…
user8210645
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There has been an error in the installation of petcs. How to solve it?

Computer configuration: my computer is maosx system, in the virtual machine installed ubuntu, the original system install ladder (VPN), Linux did not install a successful ladder (VPN). Environment configuration: install petsc in the virtual…
Kexin Tian
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Issue installing petsc4py with Anaconda using pip, to indicate external PETSc directory

I) The issue I cannot install petsc4py in my Anaconda environment using pip. Installing with conda doesn't work because it won't check my predefined PETSC_DIR and PETSC_ARCH environment variables during installation. numpy and cython are…
Breno
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parallel computing use Petsc in C

I learn how to use Petsc in C, I want to solve linear system with KSP ( find x in Ax=b, A is matrix(nxn), b is vector (n)) in Petsc. The library provides some tools to compute parallel in C. However, I have a trouble and find the answer, I hope to…
Nguyen
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PETSc hangs on MatView()

I'm trying to create and print MATDENSE matrix in PETSc. My MWE looks like this: static char help[] = ""; #include #include int main(int argc,char **args) { Mat A; PetscInt Istart,Iend,m = 2,n =…
Eenoku
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"out of memory" issue with PETsc in Ubuntu

I am running an OpenMDAO code that uses 2 parallel groups. I have installed PETSc4py and mpi4py inside a virtual python environment. I am getting the following error while running my code. The error reads as follows: "Out of memory. Allocated: 0,…
arnab marik
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How to call PetscFinalize from the root processor only?

In my Fortran program, I call an external function only at the root processor. I have a few checks to ensure that the function worked. If it doesn't work, then I stopthe program and call PetscFinalize. For example: if(rank==0) then call_status =…
psoo
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Corrupted heap despite correct allocation and deallocation

Here's an interesting problem that doesn't seem to have an obvious solution. After allocating a pointer to be a 16 element long PetscReal vector, filling it with data, and pulling the data from it, on deallocate() this error is thrown: *** Error in…
Daniel R. Livingston
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Using PETSc to efficiently solve a small system sequentially?

I require solving a large set of (independent) Ax=b linear problems. This cannot be parallelized (or more specifically, this is within each processor's responsibility anyway). The Ax=b sets are small (say 10x10 at most) but are dense (Usually all…
TheWhitestOfFangs
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Construct sparse matrix with vectors using Petsc library

I'm learning to use petsc in c/c++ in order to use a sparse matrix factorization function (MatICCFactor) in it. The first step I did is to read a toy matrix into petsc to create a sparse matrix and view the matrix before I do anything with it. I'm a…
Wendy
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Make error: main.o: Command not found Makefile: recipe for target 'all' failed

# Makefile for Defmod FFLAGS = FPPFLAGS = LDLIBS = -include ${PETSC_DIR}/conf/variables -include ${PETSC_DIR}/conf/rules -include ${PETSC_DIR}/lib/petsc/conf/variables -include ${PETSC_DIR}/lib/petsc/conf/rules OBJS = main.o m_global.o m_local.o…
Ck Mo
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Installing Petsc from source, Specified destDir same as current PETSC_DIR/PETSC_ARCH

I'm doing my best to install petsc from source. Here's what I did: $ git clone -b maint https://bitbucket.org/petsc/petsc petsc $ cd petsc/ $ pwd /Users/kilojoules/install_petsc/petsc $ export PETSC_DIR=/Users/kilojoules/install_petsc/petsc $ make …
kilojoules
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Difference between "ASCII" and "Binary" formats in PETSc

I wanted to know what the difference is between binary format and ASCII format. The thing is I need to use PETSc to do some matrix manipulations and all my matrices are stored in text files. PETSc has different set of rules for dealing with these…
smilingbuddha
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