On Dec 13, 2012, at 7:03 PM, Jed Brown wrote:
> On Thu, Dec 13, 2012 at 5:00 PM, Barry Smith wrote:
> I suggest
>
> -snes_check_jacobian_view
>
> then MatView is just called on the appropriate viewer instead of ugly variant
> options like snes_check_jacobian_draw etc
>
> In fact
On Dec 13, 2012, at 5:34 PM, Jed Brown wrote:
> Options for drawing the result, using coloring instead of dense differencing,
> and thresholding using rtol and atol to avoid false positives. IIRC, the
> reason I added all of those variants was because I was given some Jacobian
> code that was
Run with -snes_check_jacobian_display to show difference of
>> hand-coded and finite difference Jacobian.
>> > 1.32338e-09 = ||J - Jfd||//J|| 5.27058e-07 = ||J - Jfd||
>> > 1 SNES Function norm 4.625448863612e-05
>> > Testing hand-coded Jacobian, if the ratio is O(1.e-8), the
>> hand-coded Jacobian is probably correct.
>> > Run with -snes_check_jacobian_display to show difference of
>> hand-coded and finite difference Jacobian.
>> > 1.57582e-09 = ||J - Jfd||//J|| 6.27588e-07 = ||J - Jfd||
>> > 2 SNES Function norm 4.391784647745e-14
>> > 0 SNES Function norm 6.761591873515e-01
>> > Testing hand-coded Jacobian, if the ratio is O(1.e-8), the
>> hand-coded Jacobian is probably correct.
>> >
>> >
>> >
>> >
>>
>>
>
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heck_jacobian_display to show difference of
> hand-coded and finite difference Jacobian.
> > 1.57582e-09 = ||J - Jfd||//J|| 6.27588e-07 = ||J - Jfd||
> > 2 SNES Function norm 4.391784647745e-14
> > 0 SNES Function norm 6.761591873515e-01
> > Testing hand-coded Jacobian, if the ratio is O(1.e-8), the
> hand-coded Jacobian is probably correct.
> >
> >
> >
> >
>
>
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On Dec 13, 2012, at 5:04 PM, Peter Brune wrote:
> Dangit Barry! I already started a patch moving all Jed's -snes_compare_*
> garbage in SNESComputeJacobian() over to a SNESJacobianMonitor registration
> type deal where it has functions you can register to run after computing the
> Jacobian.
On Dec 13, 2012, at 4:59 PM, Jed Brown wrote:
> Surely you were aware of the -snes_compare_* options that can be activated in
> SNESComputeJacobian().
Absolutely not. And why in hell would someone put them in a computational
routine SNESComputeJacobian() (and not tell anyone about them?).
io is O(1.e-8), the
>> hand-coded Jacobian is probably correct.
>> Run with -snes_check_jacobian_display to show difference of
>> hand-coded and finite difference Jacobian.
>> 1.57582e-09 = ||J - Jfd||//J|| 6.27588e-07 = ||J - Jfd||
>> 2 SNES Function norm 4.391784647745e-14
>> 0 SNES Function norm 6.761591873515e-01
>> Testing hand-coded Jacobian, if the ratio is O(1.e-8), the
>> hand-coded Jacobian is probably correct.
>>
>>
>>
>
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lename.dat"?
>
>Barry
>
> We'll write a utility routine that when given a viewer type returns the
> appropriate canonical form.
>
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I got sick of -snes_type test only checking the Jacobian at the initial
solution and not being able to test later Jacobians so I added
-snes_check_jacobian that allows the regular running of SNESSolve() (also
inside TS) and compares every Jacobian computed with a finite difference
version.
6
> < timestep 5: time 0.05, solution norm 0.437213
> /Users/barrysmith/Src/petsc-dev/src/ts/examples/tutorials
>
>
>
>
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Just a note: about the invoking only 'make -C {PETSC_DIR}/${PETSC_ARCH}'
It will miss redoing the dsymutil stuff - that 'cmake:' currently does.
Also I avoid -C in target 'cmake' [and use 'cd' instead] becuase -C is
gnu-make extension - and not portable.
Satish
On Thu, 13 Dec 2012, Satish Balay
you would get that behavior with:
make cmake VERBOSE=1
Satish
On Thu, 13 Dec 2012, Barry Smith wrote:
>
> Satish,
>
>No need to do this change. I would like the current make cmake to continue
> to behave exactly as it does now.
>
>Barry
>
> On Dec 13, 2012, at 3:37 PM, Satish Bal
Satish,
No need to do this change. I would like the current make cmake to continue
to behave exactly as it does now.
Barry
On Dec 13, 2012, at 3:37 PM, Satish Balay wrote:
> On Thu, 13 Dec 2012, Barry Smith wrote:
>
>>
>>
>> On Dec 13, 2012, at 3:18 PM, Jed Brown wrote:
>>
>>> I
On Thu, 13 Dec 2012, Barry Smith wrote:
>
>
> On Dec 13, 2012, at 3:18 PM, Jed Brown wrote:
>
> > It is displaying all the debugging information. You'll only get the useful
> > information if you run this:
> >
> > make -j5 -C arch-gnu
>
>Yes, your suggestion is not verbose because it do
> > 1.10818e-10 = ||J - Jfd||//J|| 4.40468e-07 = ||J - Jfd||
>>> > 2 SNES Function norm 7.677760150017e-14
>>> > 0 SNES Function norm 2.179048757949e+00
>>> > Testing hand-coded Jacobian, if the ratio is O(1.e-8), the
>>> hand-coded Jacobian is probably correct.
>>> > Run with -snes_check_jacobian_display to show difference of
>>> hand-coded and finite difference Jacobian.
>>> > 1.32338e-09 = ||J - Jfd||//J|| 5.27058e-07 = ||J - Jfd||
>>> > 1 SNES Function norm 4.625448863612e-05
>>> > Testing hand-coded Jacobian, if the ratio is O(1.e-8), the
>>> hand-coded Jacobian is probably correct.
>>> > Run with -snes_check_jacobian_display to show difference of
>>> hand-coded and finite difference Jacobian.
>>> > 1.57582e-09 = ||J - Jfd||//J|| 6.27588e-07 = ||J - Jfd||
>>> > 2 SNES Function norm 4.391784647745e-14
>>> > 0 SNES Function norm 6.761591873515e-01
>>> > Testing hand-coded Jacobian, if the ratio is O(1.e-8), the
>>> hand-coded Jacobian is probably correct.
>>> >
>>> >
>>> >
>>> >
>>>
>>>
>>
>
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I don't know the meaning of -C for make and was too lazy to do man make
until after receiving you alls mail :-(
I'm pretty sure make didn't support -C in 1986
On Dec 13, 2012, at 3:27 PM, Sean Farley wrote:
> On Thu, Dec 13, 2012 at 3:23 PM, Barry Smith wrote:
>>
>>
>> On Dec 13,
On Thu, Dec 13, 2012 at 3:23 PM, Barry Smith wrote:
>
>
> On Dec 13, 2012, at 3:18 PM, Jed Brown wrote:
>
>> It is displaying all the debugging information. You'll only get the useful
>> information if you run this:
>>
>> make -j5 -C arch-gnu
>
>Yes, your suggestion is not verbose because it
On Dec 13, 2012, at 3:18 PM, Jed Brown wrote:
> It is displaying all the debugging information. You'll only get the useful
> information if you run this:
>
> make -j5 -C arch-gnu
Yes, your suggestion is not verbose because it doesn't do anything
Barrys-MacBook-Pro:tutorials barrysmith$ m
3612e-05
> > Testing hand-coded Jacobian, if the ratio is O(1.e-8), the
> hand-coded Jacobian is probably correct.
> > Run with -snes_check_jacobian_display to show difference of
> hand-coded and finite difference Jacobian.
> > 1.57582e-09 = ||J - Jfd||//J|| 6.27588e-07 = ||J - Jfd||
> > 2 SNES Function norm 4.391784647745e-14
> > 0 SNES Function norm 6.761591873515e-01
> > Testing hand-coded Jacobian, if the ratio is O(1.e-8), the
> hand-coded Jacobian is probably correct.
> >
> >
> >
>
>
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- Jfd||
>>> 1 SNES Function norm 4.625448863612e-05
>>> Testing hand-coded Jacobian, if the ratio is O(1.e-8), the
>>> hand-coded Jacobian is probably correct.
>>> Run with -snes_check_jacobian_display to show difference of
>>> hand-coded and finite difference Jacobian.
>>> 1.57582e-09 = ||J - Jfd||//J|| 6.27588e-07 = ||J - Jfd||
>>> 2 SNES Function norm 4.391784647745e-14
>>> 0 SNES Function norm 6.761591873515e-01
>>> Testing hand-coded Jacobian, if the ratio is O(1.e-8), the
>>> hand-coded Jacobian is probably correct.
>>>
>>>
>>>
>>
>
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Jed,
When I have edited PETSc source and want to update the libraries I use make
cmake. It produces so much clutter that it is hard to see the relevant bits.
Could there be an alternative make cmakeclear that only displays the files that
have changed (and hence will be compiled), the comp
> 2 SNES Function norm 4.391784647745e-14
> 0 SNES Function norm 6.761591873515e-01
> Testing hand-coded Jacobian, if the ratio is O(1.e-8), the
> hand-coded Jacobian is probably correct.
>
>
>
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s is something Shri needs.
> >
> > Is this general enough to add to the library itself? He can write an
> > adaptive controller that hits any times he wants.
> >
> > As a library feature, I'd be more interested in having a controller that
> > attempted to hit the zeros of a user-provided functional (because that
> > could be used for other forms of model nonsmoothness).
> >
> >
>
>
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-built-on.html>
>
>
>
> On 11/26/2012 06:08 PM, Jed Brown wrote:
>
>> Point in favor of evolutionary libraries over the Matryoshka dolls that
>> arise when interfaces are frozen forever.
>>
>> http://akkartik.name/blog/**libraries2<http://akkartik.name/blog/libraries2>
>>
>
>
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Just do make -C $PETSC_DIR/$PETSC_ARCH
On Thu, Dec 13, 2012 at 1:23 PM, Barry Smith wrote:
>
>
> On Dec 13, 2012, at 3:18 PM, Jed Brown wrote:
>
> > It is displaying all the debugging information. You'll only get the
> useful information if you run this:
> >
> > make -j5 -C arch-gnu
>
>Yes
On Thu, Dec 13, 2012 at 1:23 PM, Barry Smith wrote:
>
>
> On Dec 13, 2012, at 3:18 PM, Jed Brown wrote:
>
>> It is displaying all the debugging information. You'll only get the useful
>> information if you run this:
>>
>> make -j5 -C arch-gnu
>
>Yes, your suggestion is not verbose because it
It is displaying all the debugging information. You'll only get the useful
information if you run this:
make -j5 -C arch-gnu
We can make a top-level target that does this without the verbose info, but
make doesn't have a nice way to send verbose information to a file while
displaying only terse i
ntroller that hits any times he wants.
> >
> > As a library feature, I'd be more interested in having a controller that
> attempted to hit the zeros of a user-provided functional (because that
> could be used for other forms of model nonsmoothness).
> >
> >
>
>
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for
> Research Scientists," September 6, 2006, http://nanohub.org/resources/1811.
>
> ___
> Seniors mailing list
> Seniors at ci.uchicago.edu
> https://lists.ci.uchicago.edu/cgi-bin/mailman/listinfo/seniors
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niversity of Science and Technology
> >> Tel??966?0544701599
> >>
> >>
> >> This message and its contents, including attachments are intended
> solely for the original recipient. If you are not the intended recipient or
> have received this message in error, please notify me immediately and
> delete this message from your computer system. Any unauthorized use or
> distribution is prohibited. Please consider the environment before printing
> this email.
> >>
> >
> >
> >
>
>
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On Dec 13, 2012, at 11:27 AM, Peter Brune wrote:
> An abandoned attempt at this lies dormant in src/snes/impls/multiblock. We
> could try to revive it.
Or at least give it a reasonable name :-( like SNESFIELDSPLIT
>
> - Peter
>
>
> On Thu, Dec 13, 2012 at 11:25 AM, Jed Brown wrote:
>
ng Abdullah University of Science and Technology
>>> Tel??966?0544701599
>>>
>>>
>>> --
>>> This message and its contents, including attachments are intended solely
>>> for the original recipient. If you are not the i
s email.
>
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On Thu, Dec 13, 2012 at 9:30 AM, Peter Brune wrote:
>
>
>
> On Thu, Dec 13, 2012 at 11:29 AM, Barry Smith wrote:
>>
>>
>> On Dec 13, 2012, at 11:27 AM, Peter Brune wrote:
>>
>> > An abandoned attempt at this lies dormant in src/snes/impls/multiblock.
>> > We could try to revive it.
>>
>>Or a
mailing list
> Seniors at ci.uchicago.edu
> https://lists.ci.uchicago.edu/cgi-bin/mailman/listinfo/seniors
>
>
>
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ge from your computer system. Any unauthorized use or
>> distribution is prohibited. Please consider the environment before printing
>> this email.
>
>
>
>
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