[petsc-dev] new configuration/compile system for PETSc

Dmitry Karpeev karpeev at mcs.anl.gov
Sun Jul 10 21:11:48 CDT 2011

This is probably implied by what's already on the list, but we need an
easy way for the *users* to build individual
examples, as well as to add new examples, when they experiment with
PETSc.  The ability to incorporate PETSc
into new and/or existing codes that use other packages (that aren't a
part of the PETSc build) has already been
discussed.  It's a natural extension of writing and building small
examples.  It's probably implied by one of the below
list items, but I'm not sure which :-), so I thought I'd mention it again.


On Sat, Jul 9, 2011 at 10:17 PM, Barry Smith <bsmith at mcs.anl.gov> wrote:
>   Ok, here's the current list of requirements. What is missing?
>  Requirements:
>     X    1) Portability to Windows, Cygwin, Unix (all versions)
>         2) Compatible with GUI development systems (Xcode, Eclipse, Emacs, ...)
>         3) Able to run parallel configures and builds (on shared memory system enough?, distcc?)
>         4) Able to work with batch systems
>         5) Able to handle dependencies between packages (given dependencies between packages builds everything in the correct order)
>         6) Able to utilize clang and similar systems
>         7) Works seamlessly with GNU autoconf, Cmake, pkconfig packages (that is will build these packages automatically and maybe generate them)
>         8) Can download and install packages by given URL
>         9) Easy to add configurations for packages such as SuperLU, etc that have no decent configuration
>     x   10) Can test for available functionalities (include files, etc)
>     X   11) Easy to add new types of compilers, new tests
>        12) Does dependency analysis and rebuilds only what needs to be rebuilt
>        13) Able to manage test suites
>        14) Compatible with and able to use revision control systems
>        15) Completely command-line controlled but also with a GUI frontend that gives one full control as well
>        16) Able to build for bizarre-assed systems like the iPAD and GPUs.
>        17) Able to manage the concept of abstract packages such as MPI and BLAS/LAPACK and particular implementations
>        18) Able to handle already installed packages and detect if that package uses something incompatable with other packages: for example HDF5 installed with OpenMPI and someone building other packages with MPICH.
>        19) Able to manage several different compilers of the same type (for example 2 C compilers) being used for different packages.
>        20) Incrementable builds, that is more packages can be installed later based on packages already installed. Say add SLEPc later.
>    X  - does,   x - does some
> On Jul 9, 2011, at 7:45 PM, Dmitry Karpeev wrote:
>> Observe that PETSc's configure deals with the problem of consistently
>> configuring MULTIPLE
>> packages, while most tools I have heard of typically deal with a
>> SINGLE package.  That's a
>> qualitative difference, in my opinion.
>> Separately, I would suggest having the new build system allow the user
>> to install PETSc in one
>> go.  Something like 'cll install --with-clanguage=c++ ...', because
>> it's rare for users to stop after
>> configuring, and then end up executing an easily automatable sequence of steps:
>> configure --with-clanguage=c++ ...
>> make PETSC_DIR= ... all
>> make PETSC_DIR= ... PETSC_ARCH=... test
>> Of course, we should provide intermediate stages as well -- 'cll
>> configure' -- etc.
>> In particular, if cll were able to configure "arbitrary" collections
>> of packages, it may be desirable
>> to leave the "top" package configured, but not built, as it has to be
>> built repeatedly (as part of
>> a development cycle) using make or cmake, etc.
>> Dmitry.
>> On Sat, Jul 9, 2011 at 7:37 PM, Dmitry Karpeev <karpeev at mcs.anl.gov> wrote:
>>> On Sat, Jul 9, 2011 at 7:18 PM, Harald Pfeiffer
>>> <pfeiffer at cita.utoronto.ca> wrote:
>>>> We happen to use Petsc with our own makefiles.  PETSc is compiled entirely
>>>> separately (or we use system-provided PETSc-modules).   We then manually set
>>>> the appropriate include- and library-paths in our makefiles, for example:
>>>> PETSC_INCLUDE = -I$(PETSC_DIR)/include -I$(PETSC_DIR)/$(PETSC_ARCH)/include
>>>> PETSC_LIB = -L$(PETSC_DIR)/$(PETSC_ARCH)/lib -lpetsc -lX11
>>>> ...
>>>> other stuff here
>>>> ...
>>>> Not elegant, but has been working like a charm for the last 12 years.
>>> I'm not saying it can't be made to work.
>>> I'm saying it might not be trivial for someone just starting to use
>>> PETSc and not even necessarily
>>> that familiar with make: there are a lot of potential users like that.
>>>  And even for more sophisticated
>>> users it might take a while to work out the kinks.
>>> Dmitry.
>>>> Harald
>>>> On 7/10/11 1:02 AM, Dmitry Karpeev wrote:
>>>>> On Sat, Jul 9, 2011 at 6:42 PM, Jed Brown<jedbrown at mcs.anl.gov>  wrote:
>>>>>> On Sat, Jul 9, 2011 at 18:30, Dmitry Karpeev<karpeev at mcs.anl.gov>  wrote:
>>>>>>>  If a user could write a
>>>>>>> simple foo.py that configured/built their
>>>>>>> favorite package with PETSc as a dependency, they could then proceed
>>>>>>> to modify the FOO code and jack
>>>>>>> PETSc into it.
>>>>>> But this just a different form of asking them to adopt our build system,
>>>>>> except that makefiles are a de-facto standard and our system won't be
>>>>>> familiar to anyone. Any system has to be easily usable from other systems
>>>>>> (at least makefiles, automake, and cmake).
>>>>> Yes, but there is also a practical problem: an engineer or a scientist,
>>>>> not
>>>>> intimately familiar with automake, cmake, etc., has taken the effort
>>>>> to understand
>>>>> PETSc so that our linear solvers can be substituted for FOO's.  How can we
>>>>> make it easier for these people to insert PETSc into their code?  Here
>>>>> I only mean
>>>>> the build process.  Maybe making them write foo.py is not the right
>>>>> approach,
>>>>> but we should have a usable approach (and, maybe, an example of doing it).
>>>>> In particular, is it sufficient to export linklibs, or do we also need
>>>>> to export the
>>>>> compiler (e.g., to ensure consistent Fortrant name mangling)?  There are
>>>>> a good number of Fortran users that want to use PETSc too.
>>>>> Dmitry.
>>>> --
>>>> Harald Pfeiffer
>>>> Assistant Professor
>>>> Cdn. Institute for Theoretical Astrophysics
>>>> University of Toronto
>>>> pfeiffer at cita.utoronto.ca
>>>> Tel. ++1 416-978-8497

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