April 2017 Commit Log

Number of Commits:
62
Number of Active Developers:
12
allen 2017-04-27 12:01 Rev.: 56492

added check for null dw

3 lines of code changed in 1 file:

allen 2017-04-26 17:43 Rev.: 56491

wrong location for the offset

2 lines of code changed in 1 file:

allen 2017-04-26 17:36 Rev.: 56490

added offset back in temporarily

1 lines of code changed in 1 file:

allen 2017-04-26 17:36 Rev.: 56489

commented out example code

5 lines of code changed in 1 file:

allen 2017-04-26 17:36 Rev.: 56488

added output for addtion stats

50 lines of code changed in 1 file:

allen 2017-04-26 16:44 Rev.: 56487

removed debug statement

7 lines of code changed in 3 files:

allen 2017-04-26 16:35 Rev.: 56486

added check for empty stats

3 lines of code changed in 1 file:

jthornoc 2017-04-26 16:20 Rev.: 56485

Added the new sigma closure model. Most credit to Minmin for pulling
this together.

511 lines of code changed in 9 files:

allen 2017-04-26 15:48 Rev.: 56484

clean up of the output / checkpint timing and added a misc timing option

487 lines of code changed in 14 files:

dav 2017-04-26 15:32 Rev.: 56483


Make the "cleanreally" and "reallyclean" targets do the same thing. Added some
comments on what is being cleaned. Removed some superfluous "rm"s.

14 lines of code changed in 1 file:

bisaac 2017-04-26 12:14 Rev.: 56482

Fixed the MW for CO2 in the OFC4_smith.ups regression test, and added the impact of gasification reactions on the heat of reaction for char oxidation. This will break OFC4_smith

32 lines of code changed in 3 files:

ahumphrey 2017-04-25 23:11 Rev.: 56481

Fix compiler error for GPU builds.

1 lines of code changed in 1 file:

ahumphrey 2017-04-25 22:40 Rev.: 56480

* Significant cleanup for RuntimeStats usage. Correspondingly, this cleans up the execute() methods for all schedulers.

* Consolidate Dout objects in RuntimeStats class - MPIStats, WaitTimes, and coopted ExecTimes SCI_DEBUG env vars now all work well. Note that MPIStats makes use of the individual timers for each MPI call in UintahMPI.h. This is the most accurate, per-MPI-call info we can get, e.g. Count, Time and number of messages for several message size categories.

* runTask() methods in MPIScheduler and UnifiedScheduler now feed the loadblancer contribution and exectimes map the same values (task execution time from beginning of doit() to end of done() ), computed by the DetailedTasks themselves.

* Removed more usage of usingMPI() condition. This method will ultimately be removed as it is meaningless now, because Uintah is always "usingMPI", meaning for even 1 MPI proc runs, Uintah inits the MPI runtime.

* Updated environmentalFlags.txt to reflect new offerings from RuntimeStats class.

350 lines of code changed in 14 files:

allen 2017-04-25 14:03 Rev.: 56479

moved timer around for the insitu

16 lines of code changed in 2 files:

tsaad 2017-04-25 13:31 Rev.: 56478

fix a possible compilation complaint.

1 lines of code changed in 1 file:

jthornoc 2017-04-24 14:55 Rev.: 56477

Add a little noise in the demoninator to get rid of NaN in walls.

2 lines of code changed in 1 file:

derekhar 2017-04-21 18:58 Rev.: 56476

Removed limit of 0.5 m^-1 absorption coefficient contribution from soot.

1 lines of code changed in 1 file:

jthornoc 2017-04-21 16:06 Rev.: 56475

Typo and unused variable.

2 lines of code changed in 1 file:

jthornoc 2017-04-21 16:06 Rev.: 56474

Had the order incorrect for updating boundary temperatures. The
intrusion temperature was overwritting the wallHT model result.

2 lines of code changed in 1 file:

jthornoc 2017-04-21 16:06 Rev.: 56473

Missing a comma. Also, turning off cuda tests based on comment in
ARCHES.py for the other OFC4 tests, which is probably due to an
unresolved clash with RadProps.

2 lines of code changed in 1 file:

jthornoc 2017-04-21 16:06 Rev.: 56472

Added new RT test.

3 lines of code changed in 1 file:

jthornoc 2017-04-21 16:06 Rev.: 56471

Changed the DO_RadProps RT problem to run on 3 cores to be consistent
with numbers of patches in the UPS. This will cause the test to fail.

I have added the ability to set the initial wall temperature using the <Grid><BoundaryCondition> node in the
input file (just like we set BC for any other variable). This temperature will remain constant at that value
unless one turns on the wallHT model, in which case the walls will then heat or cool depending on the local
heat fluxes, etc. Currently, the only valid condition is the Dirichlet condition.
We could add others, including functions or time/space etc as needed.
Added the OFC4_initial_hotwall test to demonstrate the capability.

169 lines of code changed in 9 files:

ahumphrey 2017-04-21 12:06 Rev.: 56470

Fix and re-enable RuntimeStats class. Have co-opted SCI_DEBUG for MPIStats:+ to give detailed and accurate information about specific MPI calls within Uintah (see sample output below), e.g. COUNT, TIME, VOLUME. This also gives message volume by size class and a coarse histogram. This now makes uses of all the timers in UintahMPI.h (e.g. Impl::SendTimer, etc). We can now accurately track all MPI traffic very specifically (per MPI call) within Uintah. Timers::ThreadedTripTimer still needs some work.

Please note: stdout reporting is perfectly aligned for everything referenced in this commit log. The sample outputs provided here are slightly whacky, but serve to illustrate what one will see when exporting "SCI_DEBUG=MPIReport:+,ExecTimes:+,WaitTimes:+". This info is crucial for infrastructure debugging and quite useful to component developers.

Co-opted SCI_DEBUG for WaitTimes:+, moving away from the horeendously non-scalable, file-per-proc approach previously used. This reports (to stdout) per-task min, max, evg with a coarse histogram (see sample output below). Would like to deprecate the file-per-proc approach.

Co-opted SCI_DEBUG for ExecTimes:+, moving away from the horeendously non-scalable, file-per-proc approach previously used. This reports (to stdout) per-task min, max, evg with a coarse histogram (see sample output below). Would like to deprecate the file-per-proc approach.

Note that this is all thread-safe and maintains complete backward compatibility for those who use scripts to parse files generated with ExecTimes and WaitTimes env vars. Also note this does not impede or break Allen Sanderson's InfoMapper class in any way, and in fact works in unison with this.

Have also fixed the per-thread wait_time within Unified scheduler.

--------------------------------------------------------------------------------
MPIStats:+
--------------------------------------------------------------------------------
Name: Total: Avg: Min: Max: Max rank: Hist % [ Q1 | Q2 | Q3 | Q4 ]: %Load Imbalance
Count: Bcas: 4 1 1 1 3 100.0 0.0 0.0 0.0 0.0
Count: Recv: 96 24 24 24 3 100.0 0.0 0.0 0.0 0.0
Count: Redu: 12 3 3 3 3 100.0 0.0 0.0 0.0 0.0
Count: Send: 24 6 6 6 3 100.0 0.0 0.0 0.0 0.0
Count: Test: 886 222 81 468 1 50.0 25.0 0.0 25.0 52.7
Count: Wait: 7 1.75 0 3 1 25.0 0.0 50.0 25.0 41.7
Time: Bcas: 0.106 s 26.5 ms 4.11e+03 ns 44 ms 3 25.0 0.0 25.0 50.0 39.8
Time: Recv: 5.14 ms 1.29 ms 0.102 ms 4.19 ms 2 75.0 0.0 0.0 25.0 69.3
Time: Redu: 0.409 s 0.102 s 27.7 ms 0.307 s 0 75.0 0.0 0.0 25.0 66.7
Time: Send: 1.19 ms 0.298 ms 0.0916 ms 0.575 ms 2 50.0 0.0 25.0 25.0 48.1
Time: Test: 0.189 ms 0.0473 ms 8.22e+03 ns 0.154 ms 1 75.0 0.0 0.0 25.0 69.3
Time: Wait: 0.011 ms 2.74e+03 ns 0 ns 4.02e+03 ns 3 25.0 0.0 0.0 75.0 31.7
Volume Recv TOTAL : 1.75 MB 448 KB 446 KB 451 KB 0 75.0 0.0 0.0 25.0 0.8
Volume Recv0: <= 64B: 7 1.75 1 2 3 25.0 0.0 0.0 75.0 12.5
Volume Recv1: <= 4KB: 39 9.75 8 15 0 75.0 0.0 0.0 25.0 35.0
Volume Recv2: <= 2MB: 64 16 16 16 3 100.0 0.0 0.0 0.0 0.0
Volume Send TOTAL : 1.76 MB 451 KB 451 KB 451 KB 0 75.0 0.0 0.0 25.0 0.0
Volume Send0: <= 64B: 5 1.25 1 2 0 75.0 0.0 0.0 25.0 37.5
Volume Send1: <= 4KB: 60 15 15 15 3 100.0 0.0 0.0 0.0 0.0
Volume Send2: <= 2MB: 64 16 16 16 3 100.0 0.0 0.0 0.0 0.0


--------------------------------------------------------------------------------
WaitTimes:+
--------------------------------------------------------------------------------
Name: Total: Avg: Min: Max: Max rank: Hist % [ Q1 | Q2 | Q3 | Q4 ]: %Load Imbalance
Coarsen_Q_abskg: 0.0266 ms 6.64e+03 ns 4.42e+03 ns 9.6e+03 ns 0 50.0 25.0 0.0 25.0 30.8
Coarsen_Q_sigmaT4: 0.014 ms 3.5e+03 ns 1.82e+03 ns 5.78e+03 ns 2 50.0 0.0 25.0 25.0 39.5
carryForward_Var: abskg: 0.0296 ms 7.4e+03 ns 2.4e+03 ns 0.0105 ms 1 25.0 0.0 25.0 50.0 29.5
carryForward_Var: cellType: 0.0753 ms 0.0188 ms 0.0106 ms 0.0373 ms 3 75.0 0.0 0.0 25.0 49.5
carryForward_Var: color: 0.0413 ms 0.0103 ms 5.88e+03 ns 0.0168 ms 3 50.0 25.0 0.0 25.0 38.6
DataArchiver::outputReductionVars: 0.0128 ms 3.2e+03 ns 0 ns 0.0128 ms 0 75.0 0.0 0.0 25.0 75.0
DataArchiver::outputVariables: 0.029 ms 7.25e+03 ns 6.16e+03 ns 9.31e+03 ns 3 75.0 0.0 0.0 25.0 22.2
DataArchiver::outputVariables (CheckpointReduction): 4.11e+03 ns 1.03e+03 ns 0 ns 4.11e+03 ns 0 75.0 0.0 0.0 25.0 75.0
DataArchiver::outputVariables(checkpoint): 0.0323 ms 8.07e+03 ns 7.51e+03 ns 8.97e+03 ns 2 50.0 25.0 0.0 25.0 10.1
RMCRTCommon::sigmaT4: 0.019 ms 4.76e+03 ns 1.68e+03 ns 7.75e+03 ns 0 25.0 0.0 50.0 25.0 38.6
RMCRT_Test::computeStableTimestep: 0.178 ms 0.0444 ms 0.0294 ms 0.0708 ms 3 50.0 25.0 0.0 25.0 37.2
Ray::rayTrace_dataOnion: 15.2 ms 3.8 ms 0.0223 ms 7.92 ms 1 50.0 0.0 0.0 50.0 52.0
Ray::setBoundaryConditions: 0.0595 ms 0.0149 ms 0.0121 ms 0.0213 ms 0 75.0 0.0 0.0 25.0 30.2
reduceSysVar: 65.3 ms 16.3 ms 6.7 ms 32 ms 2 50.0 0.0 25.0 25.0 48.9


--------------------------------------------------------------------------------
ExecTimes:+
--------------------------------------------------------------------------------
Name: Total: Avg: Min: Max: Max rank: Hist % [ Q1 | Q2 | Q3 | Q4 ]: %Load Imbalance
Coarsen_Q_abskg: 2.83 ms 0.707 ms 0.55 ms 1.02 ms 3 75.0 0.0 0.0 25.0 30.5
Coarsen_Q_sigmaT4: 2.82 ms 0.705 ms 0.588 ms 0.993 ms 3 75.0 0.0 0.0 25.0 29.0
carryForward_Var: abskg: 5.48 ms 1.37 ms 0.0281 ms 5.26 ms 3 75.0 0.0 0.0 25.0 73.9
carryForward_Var: cellType: 4.64 ms 1.16 ms 0.887 ms 1.54 ms 3 50.0 0.0 25.0 25.0 24.7
carryForward_Var: color: 1.98 ms 0.495 ms 0.0327 ms 1.41 ms 0 50.0 25.0 0.0 25.0 64.9
DataArchiver::outputReductionVars: 0.0116 ms 2.91e+03 ns 0 ns 0.0116 ms 0 75.0 0.0 0.0 25.0 75.0
DataArchiver::outputVariables: 29 ms 7.24 ms 3.22 ms 14 ms 3 50.0 25.0 0.0 25.0 48.3
DataArchiver::outputVariables (CheckpointReduction): 0.159 ms 0.0398 ms 0 ns 0.159 ms 0 75.0 0.0 0.0 25.0 75.0
DataArchiver::outputVariables(checkpoint): 66.8 ms 16.7 ms 13.8 ms 20.6 ms 3 50.0 0.0 25.0 25.0 18.8
RMCRTCommon::sigmaT4: 1.86 ms 0.465 ms 0.395 ms 0.577 ms 1 50.0 25.0 0.0 25.0 19.4
RMCRT_Test::computeStableTimestep: 0.661 ms 0.165 ms 0.0678 ms 0.267 ms 1 25.0 25.0 25.0 25.0 38.2
Ray::rayTrace_dataOnion: 8.4 s 2.1 s 1.4 s 2.88 s 2 50.0 0.0 0.0 50.0 27.0
Ray::setBoundaryConditions: 6.96 ms 1.74 ms 1.46 ms 2.06 ms 0 25.0 25.0 25.0 25.0 15.5
reduceSysVar: 0.128 s 31.9 ms 15.9 ms 42 ms 0 25.0 25.0 0.0 50.0 24.1

130 lines of code changed in 10 files:

allen 2017-04-21 11:22 Rev.: 56469

additional cleanup and sync'ing of wall time usage

74 lines of code changed in 3 files:

allen 2017-04-20 17:44 Rev.: 56468

reverted timestep check

7 lines of code changed in 1 file:

allen 2017-04-20 16:43 Rev.: 56467

added comments and fixed start wall time for checkpointing

67 lines of code changed in 1 file:

jas 2017-04-20 13:34 Rev.: 56466

Remove old SCIRun files.

0 lines of code changed in 2 files:

jas 2017-04-20 13:28

Update copyright.

399 lines of code changed in 513 files:

jas 2017-04-20 13:22

Update copyright.

900 lines of code changed in 1483 files:

jas 2017-04-20 13:15

Update copyright.

870 lines of code changed in 1500 files:

jas 2017-04-20 12:52 Rev.: 56449

Update copyright.

57 lines of code changed in 101 files:

allen 2017-04-19 13:14 Rev.: 56448

corrected to the next wall time

1 lines of code changed in 1 file:

allen 2017-04-18 21:28 Rev.: 56447

moved include from header to cc file

1 lines of code changed in 2 files:

allen 2017-04-18 21:10 Rev.: 56446

reverted include of time.h

1 lines of code changed in 1 file:

allen 2017-04-18 21:09 Rev.: 56445

removed needless incude of time.h

2 lines of code changed in 12 files:

allen 2017-04-18 20:37 Rev.: 56444

removed time.h

0 lines of code changed in 1 file:

allen 2017-04-18 20:33 Rev.: 56443

changed from time to tmp_time

1 lines of code changed in 1 file:

harman 2017-04-17 14:26 Rev.: 56441

On cyrus changed:

gcc -> mpicc
g++ -> mpi++

Allen's recent commits triggered a linking error.

lib/libCCA_Components_Solvers.so: undefined reference to `ompi_mpi_cxx_op_intercept'
lib/libCCA_Components_Solvers.so: undefined reference to `MPI::Datatype::Free()'
lib/libCCA_Components_Solvers.so: undefined reference to `MPI::Comm::Comm()'
lib/libCCA_Components_Solvers.so: undefined reference to `MPI::Win::Free()'

this fixes it.


2 lines of code changed in 1 file:

jthornoc 2017-04-17 14:12 Rev.: 56440

Zero out this term in walls.

2 lines of code changed in 1 file:

jthornoc 2017-04-14 14:50 Rev.: 56437

Move the location of the git repo in the comment.

3 lines of code changed in 1 file:

jthornoc 2017-04-14 14:50 Rev.: 56436

Missed a compute location for the dissipation rate in the previous commit.

4 lines of code changed in 1 file:

jthornoc 2017-04-14 14:50 Rev.: 56435

Fix a previous failed merge attempt and add dissipation rate calc. to
the turb model.

125 lines of code changed in 9 files:

jthornoc 2017-04-14 14:50 Rev.: 56434

Add a geometric region specification in the constant_property model.
Also let the methane_RCCE.ups RT test use the model.
This will break methane_RCCE because of the addition of new variables.

97 lines of code changed in 1 file:

jthornoc 2017-04-14 14:50 Rev.: 56433

Fix a bug and comment out the output of the xml file fragment. Still
working on a way to output this fragment in a clean way.

2 lines of code changed in 1 file:

jthornoc 2017-04-14 14:50 Rev.: 56432

For TaskAlgebra:
* Created a temp variable that is initialized to zero and can be used as an extra degree of freedom
* Allow for an operation to sum into the dep variable (dep = dep + f(ind1,[ind2]) )
* Created an “EQUALS” operation so that dep = ind1

also:
* Update the wall_thermal_resitance to use the changes in TaskAlgebra

190 lines of code changed in 2 files:

jthornoc 2017-04-14 14:50 Rev.: 56431

Add some more flexibility to the TaskAlgebra method so that
1) One can create a temp variable on-the-fly
2) One can use the temp variable as an ind
3) Get everthing modifiable(even if it is not), which silences a warning that the
TaskInterface is throwing in cases when the user is using the same
variable as a dep and ind.

Now, using the above improvements, create a taskAlgebra task on-the-fly
based on user input for the total effective wall resistance, which is
really just a sum of discrete resistances.

212 lines of code changed in 3 files:

derekhar 2017-04-14 14:26 Rev.: 56430

Fixed mis-label in soot model when computing the radiation properties.

1 lines of code changed in 1 file:

allen 2017-04-14 10:01 Rev.: 56429

replaced starts with resets

5 lines of code changed in 3 files:

allen 2017-04-13 19:04 Rev.: 56428

removed time call

9 lines of code changed in 1 file:

allen 2017-04-13 18:42 Rev.: 56427

fixed typos

2 lines of code changed in 3 files:

allen 2017-04-13 16:53 Rev.: 56426

change to SimTime

23 lines of code changed in 18 files:

allen 2017-04-13 16:40 Rev.: 56425

removed Time.h

0 lines of code changed in 1 file:

allen 2017-04-13 16:33

removed Time.h

0 lines of code changed in 2 files:

allen 2017-04-13 16:29 Rev.: 56422

Fixed spelling Timers.hpp

1 lines of code changed in 1 file:

allen 2017-04-13 16:24 Rev.: 56421

Removed Time.h and replaced with Timers.hpp

1325 lines of code changed in 93 files:

jbhooper 2017-04-09 19:18 Rev.: 56406

-- Fix UCNH constitutive model to initialize CM shared data appropriately.

25 lines of code changed in 1 file:

bisaac 2017-04-06 11:53 Rev.: 56395

Fixed a bug in the new tc model. This won't change any answers.

1 lines of code changed in 1 file:

harman 2017-04-06 09:41 Rev.: 56394

minor tweaks for extracting tarballs

5 lines of code changed in 1 file:

derekhar 2017-04-05 17:20 Rev.: 56392

Updated absorption property model to be more modular.
The primary motivation of this commit is to progress towards removing dependence on radprops.
Also, this commit cleaned up years of "hacks" aimed at quickly adapting the code to fit the needs of the center.
This commit will change every radiation test, most of which are due to round-off differences.
In some instances, a bug of using inconsistent data-warehouses was also present.

1399 lines of code changed in 26 files:

guilkey 2017-04-05 13:37 Rev.: 56390

Initialize pLocalized_new if it hasn't already been done.

5 lines of code changed in 1 file:

allen 2017-04-05 12:31 Rev.: 56389

updated member name

9 lines of code changed in 1 file:

milo 2017-04-05 11:26 Rev.: 56388

added zeroth order porosity model, it doesn't change any answers

10 lines of code changed in 1 file:

March 2017 »

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