June 2017 Commit Log

Number of Commits:
117
Number of Active Developers:
9
allen 2017-06-30 18:12 Rev.: 56722

change to g_

1 lines of code changed in 1 file:

guilkey 2017-06-30 16:52 Rev.: 56721

A bit more work on applyExternalLoads, and removing forceIncrement factor from
the implicit MPM code.

12 lines of code changed in 3 files:

guilkey 2017-06-30 16:21 Rev.: 56720

Put CNH_MMS back into the ConstitutiveModelFactory, not sure how that got turned
off.
Cleanup of the applyExternalLoad code, get rid of the ForceBC_force_increment
stuff which hasn't been used in a decade. That will ensure someone asks me
what happened to it next week...

71 lines of code changed in 4 files:

harman 2017-06-30 12:56 Rev.: 56718

sched_initialize( ) & initialize()
updated to work with DO and calc frequency > 1

68 lines of code changed in 1 file:

harman 2017-06-30 09:04 Rev.: 56717

Disable spatial scheduling.

1 lines of code changed in 1 file:

harman 2017-06-29 17:19 Rev.: 56716

sched_sigmaT4
- removed requires for sigmaT4 from the old_dw and some out dated logic.

0 lines of code changed in 1 file:

harman 2017-06-29 14:59 Rev.: 56714

initCheckpoints()
- dependencies that require patches from the fine or coarse levels are now properly
checkpointed with the patchSubset from appropriate level. For example:

tsk->requires( old_dw, variable, 0, Task::FineLevel, 0, Task::NormalDomain, d_gn, 0 );
^^^^^^^^^^^^^^^
- unwrapped 80 some of the 80 column lines
- spaces


23 lines of code changed in 1 file:

harman 2017-06-29 14:53 Rev.: 56713

removed debugging comment.

1 lines of code changed in 1 file:

ahumphrey 2017-06-29 13:40 Rev.: 56712

Fix compiler error for ray_scattering case.

7 lines of code changed in 1 file:

ahumphrey 2017-06-29 12:37 Rev.: 56711

Some cleanup while working on spatial scheduling.

55 lines of code changed in 7 files:

ahumphrey 2017-06-29 12:31 Rev.: 56710

Modify documentation on changed output from SCI_DEBUG flag.

1 lines of code changed in 1 file:

ahumphrey 2017-06-29 12:29 Rev.: 56709

Clear up compiler warnings.

21 lines of code changed in 1 file:

harman 2017-06-29 10:17 Rev.: 56708

getRegionModifiable
- More descriptive exception message.

13 lines of code changed in 1 file:

harman 2017-06-28 11:28 Rev.: 56707

Include level index when displaying output tasks.

1 lines of code changed in 1 file:

derekhar 2017-06-28 10:59 Rev.: 56706

Added absorption coefficient modifier (multiplicative), for VUQ analysis.

26 lines of code changed in 4 files:

bisaac 2017-06-27 17:24 Rev.: 56705

Fixed the logic for DepositionVelocity if one is using both coal_region and region_ht.

5 lines of code changed in 1 file:

harman 2017-06-27 09:33 Rev.: 56704

schedule_ray_tracing()
- now setting abskg_dw via the call to set_abskg_dw_perLevel()

8 lines of code changed in 1 file:

harman 2017-06-26 16:00 Rev.: 56703

RMCRT:
- abskg_dw is now a global map with the level index as the key. The component can specify
using the old/new_dw for on finest level. Abskg is always pulled from the new_dw on coarser levels.


Arches/SourceTerms/RMCRT.cc:
global - changed level->getID to level->getIndex()
No longer specifying abskg_dw when scheduling tasks, it's handled via the global vector.
Arches now uses abskg from the old_dw.

Input files:
added <stage = 0> tags.

The Arches RMCRT tests will fail, since the number of checkpoint variables increased by 1.


230 lines of code changed in 7 files:

harman 2017-06-26 13:10 Rev.: 56702

problemSetup()
- set the start/end cell indices of the ups_box. These are interior cells. The grid doesn't "know" about
extraCells at this point.

4 lines of code changed in 1 file:

harman 2017-06-26 13:07 Rev.: 56701

finetoCoarseOperator()
- slight generalization. Changed new_dw -> dw.

4 lines of code changed in 3 files:

harman 2017-06-26 13:05 Rev.: 56700

Added "None" to the enum WhichDW.

2 lines of code changed in 1 file:

derekhar 2017-06-26 11:53 Rev.: 56699

Invert loop for speed, remove if-statement intended to increase speed, will change all scattering regression tests.

16 lines of code changed in 2 files:

ahumphrey 2017-06-23 19:16 Rev.: 56698

More refinement on infrastructure timings.

29 lines of code changed in 8 files:

harman 2017-06-23 13:28 Rev.: 56697


export AUTO_UPDATE_SVN_STAMP which enables the passing svn revision to be logged

1 lines of code changed in 1 file:

harman 2017-06-23 12:42 Rev.: 56696

Changed all reference to $USER -> $LOGNAME. The environmental variable USER is not defined in the cron
environment, LOGNAME is.


12 lines of code changed in 4 files:

ahumphrey 2017-06-23 11:20 Rev.: 56695

Last bit of cleanup on infrastructure timings.

25 lines of code changed in 2 files:

ahumphrey 2017-06-22 23:57 Rev.: 56694

Fix total execution timings for all shedulers.
Add KokkosOpenMP scheduler to ups spec.

31 lines of code changed in 6 files:

ahumphrey 2017-06-22 22:12 Rev.: 56693

More refinement and fixes for infrastructure timings.
Other misc cleanup.

46 lines of code changed in 4 files:

ahumphrey 2017-06-22 21:15 Rev.: 56692

Remove cout statement .

0 lines of code changed in 1 file:

ahumphrey 2017-06-22 19:05 Rev.: 56691

Major cleanup with ComponentTimings. Fully decouple InfoMapper and RuntimeStats.

219 lines of code changed in 16 files:

harman 2017-06-22 17:55 Rev.: 56690

No longer making a copy of the ups file and modifying it when the regression test is run
on a gpu. CPU.ups == GPU.ups.


6 lines of code changed in 1 file:

harman 2017-06-22 17:13 Rev.: 56689

cleanreally & reallyclean
- When Arches was enabled and wastch was disabled there were several files (*.o & *.d) that were
not removed in the Wasatch directory. Added 'find" commands to remove any *.o *.d files in CCA/Components.


12 lines of code changed in 1 file:

harman 2017-06-22 15:40 Rev.: 56688

Enable restart tests on the non-cubic domain tests

5 lines of code changed in 1 file:

harman 2017-06-22 13:50 Rev.: 56687

- removed unnecessary machine dependencies
- fixed bug when comments contain certain punctuation characters.

5 lines of code changed in 1 file:

allen 2017-06-22 12:33 Rev.: 56686

added more comments and move some init code

10 lines of code changed in 1 file:

allen 2017-06-22 12:32 Rev.: 56685

removed old dout name

0 lines of code changed in 1 file:

bisaac 2017-06-22 12:06 Rev.: 56684

Added changes to wallHT model to make regime 3 maintain ash fluid temperature. This commit shouldn't change answers.

30 lines of code changed in 2 files:

harman 2017-06-22 09:10 Rev.: 56683

removed and assert that is covered by an exception.

0 lines of code changed in 1 file:

harman 2017-06-21 16:59 Rev.: 56682

OnDemandDataWarehouse::getRegionModifiable()
- General code clean up, code simplification.
- An exception is thrown if the nCopiedCells != nRequestedCells. Previously, the exception was never
thrown.

Level.*
getTotalCellsInRegion()
- fixed logic for computing cellsInRegion.
Added member variable isNonCubicDomain to identify when a level isn't cubic.

Grid/DataArchiver
- Added nonCubic to the variables that are checkpointed by a level.

181 lines of code changed in 5 files:

harman 2017-06-21 16:41 Rev.: 56681

Enabled the source code modification script for the gpu_rt.

4 lines of code changed in 1 file:

derekhar 2017-06-21 14:54 Rev.: 56680

Updated radiation properties to change for pressure.

27 lines of code changed in 9 files:

harman 2017-06-21 14:43 Rev.: 56679

Added $USER to the subject line of the emails.

2 lines of code changed in 1 file:

jsutherland 2017-06-21 13:19 Rev.: 56678

Update NSCBC hash

1 lines of code changed in 1 file:

derekhar 2017-06-21 10:53 Rev.: 56676

Fixed Memory leak in sweeping method.

2 lines of code changed in 1 file:

jthornoc 2017-06-21 10:08 Rev.: 56675

Initializing total number density.

27 lines of code changed in 2 files:

harman 2017-06-20 16:56 Rev.: 56674

Uintah-build:
--with-mpi=built-in << needed for the cuda builds

5 lines of code changed in 1 file:

harman 2017-06-20 16:11 Rev.: 56673

Removed albion configuration.

Added configuration for gpu_rt@uintah-build.chpc.utah.edu

35 lines of code changed in 2 files:

jsutherland 2017-06-20 12:21 Rev.: 56672

Update copyright on wasatch files.

19 lines of code changed in 36 files:

jthornoc 2017-06-19 23:58 Rev.: 56670

Get the CQMOM tests running with the latest updates re: SSP-RK for coal.

19 lines of code changed in 3 files:

jthornoc 2017-06-19 23:58 Rev.: 56669

Fixed porosity bug in thermal conductivity model.

4 lines of code changed in 1 file:

jthornoc 2017-06-19 23:58 Rev.: 56668

Added a new factory function which will schedule a group of tasks which
the developer assembles upstream.

WallHF is now using the above mechanism and is no longer associated with
a specific propertyModelV2 bin.

56 lines of code changed in 4 files:

jthornoc 2017-06-19 23:58 Rev.: 56667

Removed SimpleBirth flag.

1 lines of code changed in 1 file:

jthornoc 2017-06-19 23:58 Rev.: 56666

Move wall_hf_variable to the end of the time step. This corrects a dt
lag for the property value.

9 lines of code changed in 2 files:

jthornoc 2017-06-19 23:58 Rev.: 56665

Remove an empty model.

Minor beautification.

33 lines of code changed in 5 files:

jthornoc 2017-06-19 23:57 Rev.: 56664

SimpleBirth->BirthDeath

10 lines of code changed in 6 files:

jthornoc 2017-06-19 23:57 Rev.: 56663

SimpleBirth->BirthDeath
Death is only on when wall deposition is occurring. It is auto-parsed
from the input file and turned on for the user.

474 lines of code changed in 6 files:

jthornoc 2017-06-19 23:57 Rev.: 56661

Turning off clipping in the RK averaging for DQMOM vars. This is now
handled upstream.

37 lines of code changed in 1 file:

jthornoc 2017-06-19 23:57 Rev.: 56660

Remove DQMOM final clipping (shouldnt have been used)
Add a warning print statement - The calculation of the moments are not
functional.
Remove the _post_update_coal tasks.

15 lines of code changed in 4 files:

jthornoc 2017-06-19 23:57 Rev.: 56659

Actually added affect of dstrc src on the birth term.

2 lines of code changed in 1 file:

jthornoc 2017-06-19 23:57 Rev.: 56658

Moved deposition destruction rates into simple birth. Modified 1GW test to make them run with the combined model.

102 lines of code changed in 2 files:

jthornoc 2017-06-19 23:57 Rev.: 56657

Update the DW dependencies based on the RK higher order timestep work.

53 lines of code changed in 7 files:

jthornoc 2017-06-19 23:57 Rev.: 56656

Moved LATEST vars to NEWDW, except for gas temperature.

8 lines of code changed in 1 file:

jthornoc 2017-06-19 23:57 Rev.: 56655

Added a few notes to explain what we are doing in this model.

1 lines of code changed in 1 file:

jthornoc 2017-06-19 23:57 Rev.: 56654

Update dragmodel even though it is only a CQMOM thing currently.

6 lines of code changed in 1 file:

jthornoc 2017-06-19 23:57 Rev.: 56653

Update the style of the constant model.

4 lines of code changed in 1 file:

jthornoc 2017-06-19 23:57 Rev.: 56652

Updating coal temperature and coal density to use the correct DW values.

32 lines of code changed in 3 files:

jthornoc 2017-06-19 23:57 Rev.: 56651

Removed reduncant initialization of the deposition velocity.

1 lines of code changed in 1 file:

jthornoc 2017-06-19 23:57 Rev.: 56650

Removed redundant initialization and changed variables from MODIFIES to COMPUTES.

9 lines of code changed in 1 file:

jthornoc 2017-06-19 23:57 Rev.: 56649

Updated the DepositionVelocity.

8 lines of code changed in 1 file:

jthornoc 2017-06-19 23:56 Rev.: 56648

Added WARNING print to all CQMOM particle models.

10 lines of code changed in 5 files:

jthornoc 2017-06-19 23:56 Rev.: 56647

Hard coding the order of execution of the particle models. This is ugly,
but works. Looking for a more holistic approach for the future.

70 lines of code changed in 1 file:

jthornoc 2017-06-19 23:56 Rev.: 56646

Moving pre update particle models to post.

25 lines of code changed in 3 files:

jthornoc 2017-06-19 23:56 Rev.: 56645

This commit movies particle temperature, density, and total number density to which_dw instead of new_dw, for the CoalModel files only.

27 lines of code changed in 9 files:

jsutherland 2017-06-19 15:32 Rev.: 56643

Updates to conform to new SpatialOps API.

15 lines of code changed in 6 files:

derekhar 2017-06-19 14:58 Rev.: 56642

Added new regression test covering arches-sweeps.

1 lines of code changed in 1 file:

derekhar 2017-06-19 13:20 Rev.: 56641

Moved hypre-linear-solve discrete-oridnates radiation under the umbrella of temporal scheduling.

26 lines of code changed in 2 files:

harman 2017-06-16 10:35 Rev.: 56640

Coarse level algorithm:
The region of interest is the entire domain.

Throw an exception if a nan or inf is detected in the radiative properties when using a nonCubic domain.

3 lines of code changed in 1 file:

jthornoc 2017-06-15 17:24 Rev.: 56639

Add variable type information to the field container.
Add access to patch temporary variables.
Delete the fields from the FieldContainer in a generic way.

51 lines of code changed in 2 files:

derekhar 2017-06-15 16:40 Rev.: 56638

Fixed some RT failures. This will change the answers for all RMCRT-arches tests.
This patch more fully integrated the temporal scheduling into arches.

95 lines of code changed in 7 files:

guilkey 2017-06-15 11:52 Rev.: 56634

Minor clean up and comment addition in P_Alpha model.

3 lines of code changed in 1 file:

jthornoc 2017-06-15 10:02 Rev.: 56633

solver param -> integrator for KokkosSolver

3 lines of code changed in 1 file:

jthornoc 2017-06-15 00:04 Rev.: 56632

Add a sandbox solver. Now switching from SSPRK to Sandbox (or any other
solver one may wish to add) bsaed on user input.

148 lines of code changed in 2 files:

ahumphrey 2017-06-14 17:50 Rev.: 56630

Fully generalize temporal scheduling.

This is very component driven now and through one additional SimulationInterface virtual function ( virtual int computeTaskGraphIndex() ), task graph index (e.g. rad_calc_freq modulo) can be computed in a component-specific way. SimController now calls computeTaskGraphIndex() on the sim object and passes this to executeTimestep. This method is not pure virtual, and maintains backward compatibility for components not using temporal scheduling.

Note, this may have broken a few Arches restart tests, however I've spoken to Derek about this and we will remedy ASAP. This is due to how Arches is now finding rad_calc_freq outside of it's RMCRT object.

136 lines of code changed in 16 files:

allen 2017-06-14 11:16 Rev.: 56629

removed the timing for the simple case - should be zero but was giving odd results

8 lines of code changed in 1 file:

ahumphrey 2017-06-14 10:12 Rev.: 56628

Fix AMR bug introduced into ICE with yesterday's SimulationController modifications (Two patches on the same grid overlap).

3 lines of code changed in 1 file:

ahumphrey 2017-06-13 15:50 Rev.: 56627

* Some cleanup in working toward reanimating the checkTaskAccesses machinery.
* Move related mutex in OnDemandDW to RAII-style std::lock_guard<std::mutex>.

24 lines of code changed in 2 files:

ahumphrey 2017-06-13 15:40 Rev.: 56626

Call setRestartInitTimestep( false ) for single-level regridder case prior to 2nd scheduler->init call (this is a special case). This allows the arches-regrid test to work correctly with temporal scheduling and >1 primary task graphs.

Some other cleanup, spell checking and basic formatting while under the hood.

57 lines of code changed in 5 files:

jas 2017-06-12 14:27 Rev.: 56624

Output string names.

3 lines of code changed in 1 file:

guilkey 2017-06-12 14:19 Rev.: 56623

Bringing the calculation of normal traction, etc., out of the Friction Contact
model, put them with the normal calculation, which I should have done
originally.

28 lines of code changed in 4 files:

ahumphrey 2017-06-09 14:06 Rev.: 56621

Fix Arches regrid test. Also remove unused include and lock.
Once the RT settles down, we will better generalize the idea of temporal scheduling, and make the decision on number of primary task graphs more component driven.

1 lines of code changed in 2 files:

derekhar 2017-06-09 11:35 Rev.: 56620

Fixed memory leak causing arches-radiation tests to fail.

3 lines of code changed in 1 file:

ahumphrey 2017-06-08 13:17 Rev.: 56619

Fix memory leak related to temporal scheduling where a single task may be added to >1 Normal task graph. RefCount was getting artifiicially inflated in Task::setSets() call (call site was in TaskGraph::addTask()), and ultimately ComputeSubsets (Patch/Matl)) were not being deleted.

Some other minor cleanup while under the hood. Getting ready to remedy the checkTaskAccess machinery.

37 lines of code changed in 5 files:

derekhar 2017-06-07 18:12 Rev.: 56618

Invoking Temporal Scheduling for the sweeping method.

145 lines of code changed in 4 files:

ahumphrey 2017-06-07 18:11 Rev.: 56617

Use std::shared_ptr to manage Task pointers across multiple task graphs. This should plug the major memory leak introduced from the recent incite_dev branch reintegration.

Also turn patch caching off by default. Memory savings for majority of PSAAP runs. This change didn't originally make it in from the branch reintegration.

Use c++11 auto keyword for correct type inference and readability.

111 lines of code changed in 8 files:

jthornoc 2017-06-07 13:47 Rev.: 56616

Needed to account for periodic/nonperiodic BCs in this case. This will
change the checkpoint variables in all non-periodic cases.

2 lines of code changed in 1 file:

derekhar 2017-06-07 10:24 Rev.: 56615

Upgraded one of the sweeping approaches so that communication is isolated to the relevant patches, using the base task->requires.

351 lines of code changed in 4 files:

harman 2017-06-06 16:53 Rev.: 56614

Fixed logic to update the svn revision number in the goldstandards dir when a test passes. Only
the main nightly RT script can update it.

3 lines of code changed in 2 files:

harman 2017-06-06 15:17 Rev.: 56612

Disable the radiometer. There's a circular dependency and OSX doesn't compile with it enabled.

1 lines of code changed in 1 file:

bisaac 2017-06-06 14:58 Rev.: 56611

Fixed an issue related to char-oxidation clipping with a limiting oxidizer. This commit changes OFC_smith2016 and its restart within machine precision.

10 lines of code changed in 1 file:

ahumphrey 2017-06-06 14:26 Rev.: 56610

Update and add SCI_DEBUG flags.

3 lines of code changed in 1 file:

ahumphrey 2017-06-06 14:15 Rev.: 56609

Reintegration of incite_dev branch. Improvements/Features/Optimizations include (but not limited too):

1.) Temporal scheduling, e.g. support for multiple primary task graphs (not w-cycle)
2.) Significantly improved task graph compilation times for multi-level RMCRT at large core/patch counts
3.) GPU super patch support
4.) Highly optimized RMCRT GPU kernels
5.) Significant reduction in infrastructure memory footprint

ARCHES: methane_rmcrt test is broken due to issues with trunk code. Good luck Todd, let us know if you need another set of eyes.
WASATCH: RMCRT-Burns-Christon UDA comparison fails as the trunk input file specifies an unused variable to store. Branch code has fixed this.
-"compare_uda -ignoreVariable "VRFlux" rmcrt-burns-christon.uda.trunk rmcrt-burns-christon.uda.branch" compares exactly.
-just need to remove <save label="VRFlux"/> from original input and regenerate GS for this test.

Please let us know if anyone sees any residual issues with this commit. We are standing by to deal with any fallout.

5802 lines of code changed in 70 files:

harman 2017-06-06 12:46 Rev.: 56607

2 space indentation
- added comments
- more descriptive variable name
- added environmental variable (AUTO_UPDATE_PERF_GS) which controls if the performance
gold standards are automatically updated when the run time improve by > %5. This variable is set
to "yes" for the nightly RT and "no" for local regression testing.

79 lines of code changed in 8 files:

jthornoc 2017-06-06 11:28 Rev.: 56606

Check to make sure the current source is part of the source factory if
you are going to add it from this mechanism.

13 lines of code changed in 1 file:

jthornoc 2017-06-06 09:47 Rev.: 56605

Still had this incorrect. The grid spacing should now be fixed.

1 lines of code changed in 1 file:

jthornoc 2017-06-06 09:32 Rev.: 56604

Looks like a missing delete was causing a memory failure.

3 lines of code changed in 1 file:

bisaac 2017-06-06 00:22 Rev.: 56603

Fixed an issue related to char-oxidation clipping with a limiting oxidizer. This commit shouldn't impact regression tests.

10 lines of code changed in 1 file:

bisaac 2017-06-06 00:00 Rev.: 56602

Updated the OFC test for the 2016 char oxidation model and added to the nightly RT tests.

3 lines of code changed in 1 file:

derekhar 2017-06-02 15:04 Rev.: 56600

Fixes the unintentional removal of requires->modifies warnings.

9 lines of code changed in 1 file:

jthornoc 2017-06-02 12:25 Rev.: 56599

Update warning.

3 lines of code changed in 1 file:

jthornoc 2017-06-02 12:25 Rev.: 56598

Cleaning up print statements.

22 lines of code changed in 1 file:

bisaac 2017-06-02 07:57 Rev.: 56595

This commit removes ash_density from the deposition model and computes it from the specified ash bulk density and sb layer porosity. This commit also makes the relaxation coefficient consistent between all wall ht models and the deposition model. Due to the changes the answers in following RT tests will change: 1GW_RT, 1GW_em_tc, OFC4c, OFC4_smith, and OFC4_hybrid.

61 lines of code changed in 4 files:

allen 2017-06-01 20:52 Rev.: 56594

more comments

24 lines of code changed in 2 files:

allen 2017-06-01 20:37 Rev.: 56593

moved and documented calling order yet once forthe switcher

69 lines of code changed in 3 files:

allen 2017-06-01 19:37 Rev.: 56592

moved and documented calling order yet again

29 lines of code changed in 3 files:

allen 2017-06-01 18:47 Rev.: 56591

moved and documented calling order again

22 lines of code changed in 3 files:

allen 2017-06-01 18:06 Rev.: 56590

moved and documented calling order

8 lines of code changed in 1 file:

allen 2017-06-01 14:47 Rev.: 56589

moved the output setup up as teh sim needed it

88 lines of code changed in 3 files:

May 2017 »

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