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CHANGELOG
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= Enzo Changelog =
== Version 2.6 ==
_Release Date - 8-2-2019
* New Feature: Conversion from Mercurial+BitBucket to Git+GitHub
* New Feature: Automated testing on GitHub with CircleCI (GH PR #55)
* New Feature: Fuzzy dark matter evolution module + test problems (GH PR #61)
* New Feature: Subgrid-scale turbulence modeling framework (BB PR #407)
* New Feature: Magnetic supernova feedback (BB PR #346)
* New Feature: Active particle framework + docs (GH PR #57, PR #83, PR #85)
* Enhancement: Two new types of refinement regions: “Must refine” and “cooling-based refinement” regions, both of which move. (GH PR #59)
* Enhancement: Star particle mass ramp added (GH PR #68)
* Enhancement: Zeldovich Pancake includes dark matter particles (BB PR #435)
* Enhancement: Python scripts in repository upgraded to Python 3 (BB PR #351, PR #363, PR #437)
* Enhancement: All physical constants consolidated into a single header file (BB PR #417, 428, )
* Enhancement: Cosmology simulations added to test suite (BB PR #419)
* Enhancement: Test suite provides more information about running and crashing tests (BB PR #339)
* Enhancement: Particle splitter has many new features (BB PR #426)
* Enhancement: Updated MPI error handler to MPI 2+ standards (BB PR #430)
* Enhancement: Additional must-refine particle capabilities: cell de-refinement (BB PR #424), ability for more complex conditionals (BB PR #369)
* Enhancement: Adjust Grackle UV background treatment at high redshift (BB PR #423)
* Enhancement: H- and H2II photodetachment added to radiation transport and transport chemistry network and tests (BB PR #390, PR #401, PR 409, PR #410)
* Enhancement: EvolveLevel and EvolveLevel_RK combined (BB PR #364)
* Enhancement: Problem initializers now all use AllocatedGrids (BB PR #404)
* Enhancement: All test problems now use power-of-two refinement factor (BB PR #340)
* Enhancement: Expansion parameter/redshift now use tables, enabling non-standard cosmologies (BB PR #393)
* Enhancement: Added stellar wind option to CollapseTest (BB PR #388)
* Enhancement: Expanded feedback options in idealized SMBH and elliptical galaxy simulations (BB PR #387)
* Enhancement: Grackle updated to use H2 self-shielding approximation (BB PR #349)
* Enhancement: Grackle supports user-supplied redshift in non-cosmological simulations (BB PR #334)
* Enhancement: Updated Grackle interface to support Grackle 3.x (Grackle 2.x support discontinued) (BB PR #347)
* Enhancement: Test suite updated to work with yt-3 (BB PR #304)
* Enhancement: Particles supported in GalaxySimulation when using DiskGravity (BB PR #336)
* Enhancement: Improved documentation:
Dedner MHD (BB PR #415)
Enzo flowchart update (BB PR #418)
Recombined Enzo parameter list and expansion of physics/analysis capabilities section (BB PR #412)
Added MUSIC IC description (BB PR #376)
Updated Quick-start guide (BB PR #376)
Updated FAQ including table of contents (BB PR #377)
Updated parameter descriptions (BB PR #367)
Updated tutorial (BB PR #372)
* Bugfix: Fixes to map RadiationRedshift* parameters to Grackle (GH PR #81)
* Bugfix: Small tweak to hierarchy file reader - patch for pre-AP simulations (GH PR #80)
* Bugfix: Documentation updated to reflect hg->git conversion (GH PR #63)
* Bugfix: Makefile hg->git conversion (GH PR #58)
* Bugfix: Test that boundary condition files are correctly read (GH PR #58)
* Bugfix: Magnetic supernovae function with mixed precision (GH PR #58)
* Bugfix: Libconfig removed (GH PR #67)
* Bugfix: 128-bit particles compilation errors fixed (BB PR #433), 32-bit compilation errors fixed (BB PR #416, PR #425)
* Bugfix: Memory leak in magnetic supernovae (BB PR #421)
* Bugfix: Misc. small runtime bug fixes (BB PR #427, PR #429, PR #382, PR #355, PR #353, PR #348)
* Bugfix: Cooling time calculation should include ghost zones (BB PR #414)
* Bugfix: Unused parameters removed (BB PR #408, PR #385, PR #378, PR #367, PR #342)
* Bugfix: ErrorException.h cleanup (BB PR #411)
* Bugfix: MHD-RK memory fix (BB PR #405)
* Bugfix: Grackle + radiation transport timestep fix (BB PR #391, PR #354)
* Bugfix: Many small compilation bugs fixed (BB PR #380, PR #332, PR #328)
* Bugfix: Removal of many uncompiled files (BB PR #386)
* Bugfix: CT MHD color species advection fixed (BB PR #361)
* Bugfix: HDF5 1.10 compatibility fix (BB PR #371)
* Bugfix: Fix Ray tracing load balance crash (BB PR #370)
* Bugfix: Conduction timestep properly saved (BB PR #341)
* Bugfix: Fixed rarefaction fan calculation in flux_twoshock.F (BB PR #338)
* Bugfix: Density floor in PPM solver (euler.F) changed from hard-coded to using pre-existing SmallRho parameter (BB PR #333)
== Version 2.5 ==
_Release date - 3-10-2016
* New Feature: AGORA isolated galaxy problem and related Goldbaum,
Forbes & Krumholz feedback routines (PR #253, PR #295)
* New Feature: Grackle 2.0 support (PR #260)
* New Feature: Support for several new test problems for MHD (PR #244,
PR #299)
* New Feature: Implementation of stochastic forcing in turbulence
problems (PR #251)
* New Feature: Refinement by metal mass (PR #288)
* New Feature: Must Refine particles (PR #309)
* New Feature: New 2D test problems for hydro and MHD (PR #305)
* New Feature: Power-of-2 memory allocation (enhances memory
performance) (PR #297)
* New Feature: Cosmic ray pressure/diffusion/injection (PR #300)
* New Feature: Simpson et al. Kinetic stellar feedback (PR #277)
* Enhancement: HDF5 hierarchy output no longer default due to code slowdown
(PR #245)
* Enhancement: New Stampede makefiles (intel and gnu compilers) (PR
#246)
* Enhancement: Ignore grid hydro parameters on restart - use global
values (PR #250)
* Enhancement: FLD solver speedup and scaling improvement (PR #254, PR #264)
* Enhancement: RNG streams now reproducible in parallel (PR #262)
* Enhancement: Updated default value of solar metallicity to be
consistent with Cloudy (PR #272)
* Enhancement: Minor performance improvements (PR #273)
* Enhancement: hydro_rk solver speedups (PR #286)
* Enhancement: Misc. small fixes/updates from John Wise regarding star
particles and sink particles (PR #287)
* Enhancement: Updates to Enzo's inline FOF halo finder (PR #283)
* Enhancement: Can now calculate dust temperature from command line (PR #282)
* Enhancement: Ray tracing has several optimizations and new features,
most of which promote speed and/or stability
(PR #294)
* Enhancement: Enzo native chemistry solver updated with timestep
limiter, H2 self-shielding, non-cosmological redshift (PR #289)
* Enhancement: CollapseTest and PhotonTest updated for correctness and
flexibility (PR #298)
* Enhancement: Pop III star star cluster formation and feedback
improvements and new features (PR #293)
* Enhancement: UniformGravity support in MUSCL (PR #310)
* Enhancement: UngridTranspose=2 is now default (PR #313)
* Enhancement: GalaxySimulation enhancements (PR #300)
* Enhancement: MHD CT cosmology update (PR #318)
* Bugfix: Misc. MHD bug fixes and cleanup (PR #243, PR #257, PR #265, PR
#269, PR #271, PR #278)
* Bugfix: Makefile updates and fixes (PR #256, PR #285, PR #301, PR #302)
* Bugfix: Typo in TurbulenceSimulation (PR #248)
* Bugfix: Doc cleanup (PR #252, PR #259, PR #263, PR #267)
* Bugfix: Fixed "output cooling time only" and "output smoothed dm field
only" options (PR #255)
* Bugfix: Fixed MaximumGravityRefinementLevel to work with SiblingList
(PR #238)
* Bugfix: CommunicationLoadBalanceGrids fix for MinProc (PR #258)
* Bugfix: Small stability/reproducibility fixes (PR #261, PR #266, PR #275)
* Bugfix: Removed excessive unnecessary code warnings (PR #268)
* Bugfix: Added missing input file in CoolingTest_Grackle (PR #279)
* Bugfix: Fix to Grid::CheckForExternalReflections doing right side
incorrectly (PR #274)
* Bugfix: Enzo-performance module hang in parallel (PR #296)
* Bugfix: MUSCL pressure support for EOS=0 corrected (PR #281)
* Bugfix: Color density floor to PPM reconstruction (PR #284)
* Bugfix: ReadParameterFile memory leak (PR #306)
* Bugfix: StochasticForcing works with all solvers (PR #308)
* Bugfix: Compilation problem with new-problem-types-yes (PR #307)
* Bugfix: WriteParameterFile doesn't write correct TimeActionTime (PR #312)
* Bugfix: LoadBalancing when all grids have equal work (PR #311)
* Bugfix: Flux correction for metal fields (PR #314)
* Bugfix: Minor bugs in gFLDSplit and gFLDProblem solvers (PR #317)
* Bugfix: mismatched new/delete in Grid_ProjectSolutionToParentGrid (PR #319)
* Bugfix: float/double mismatches (PR #320)
* Bugfix: compiler warnings found with -Werror (PR #321)
* Bugfix: 2D simulation segfault (PR #322)
* Bugfix: Enhancing compilibility w/photon-no (PR #323)
* Bugfix: Checking of cosmic ray fluid parameteters upon startup (PR #325)
== Version 2.4 ==
_Release date - 8-8-2014
* New Feature: A progess meter script has been added to the bin directory
(PR #233)
* New Feature: Added a rotating turbulent sphere test problem (PR #206)
* New Feature: Hierarchy rebuilds can now be controlled dynamically (PR #196)
* New Feature: Grackle chemistry and cooling (PR #194)
* Enhancement: Conversion factors from code units to CGS units are now written
with increased precision (PR 239)
* Enhancement: Improved compatibility for cosmology simulations that include
FLD, chemistry, and cooling. (PR #230)
* Enhancement: Significant updates for the unigrid FLD solver (PR #216)
* Enhancement: Particle splitting has been reimplemented with an improved
algorithm (PR #188)
* Enhancement: CosmologySimulation can now be run with MHDCT (PR #223)
* Enhancement: PPM simulations that use MinimumPressureSupport now use an
improved algorithm for runs with cooling (PR #220)
* Enhancement: Added a parameter that allows fully manual control over the root
grid decomposition (PR #219, PR#226)
* Enhancement: Documentation on how to add a new BaryonField has been added.
(PR #221)
* Enhancement: The galaxy simulation can now be run without using comoving
coordinates (PR #204)
* Enhancement: Added a timestep-independent star particle creation mechanism
(PR #197)
* Enhancement: Improvements for the tracer particle implementation (PR #193)
* Enhancement: Improvements for the Kelvin-Helmholtz test problem (PR #192)
* Enhancement: Buffer zones on processor boundaries will now be properly
flagged for refinement. (PR #190, PR #218)
* Enhancement: The shear refinement criterion is now compatible with more
simulation types (PR #189)
* Enhancement: AccelerationBoundary is now compatible with point source gravity
(PR #117)
* Enhancement: Test problems will generate more efficient hierarchies during
problem initialization (PR #182)
* Enhancement: Improvements for the CPU and GPU Dedner MHD solvers
(PR #177, PR #200)
* Enhancement: New refine region mechanics (PR #155, PR #172, PR #227)
* Enhancement: MHDCT works with outflow boundary conditions (PR #176, PR#198)
* Bugfix: Fixed an issue with the emissivity field in the FLD module having
incorrect units (PR 241)
* Bugfix: Compilation issues for the FLD module in 32-bit mode have been
resolved (PR 240)
* Bugfix: The internal energy field is no longer made conservative during flux
correction if cooling is turned on (PR 228)
* Bugfix: Fixed an issue where incorrect fluxes were being generated for
the internal energy in simulations that used flux correction. This
may improve stability in some applications. (PR 217)
* Bugfix: FinalRedshift is no longer derived from StopTime, preventing
desynchronization between these parameters (PR 236)
* Bugfix: The FLD radiative transfer parameter file is now only written by
the root processor (PR #235)
* Bugfix: Fixed issues with mpgrafic and P-GroupFinder (PR #215)
* Bugfix: Fixed issues with transport of color fields at refinement boundaries.
(PR #199)
* Bugfix: Remove AddParticleAttributes, which sometimes causes particle
metadata to be incorrectly zeroed out (PR #208)
* Bugfix: The -g command line option now works as expected (PR #207)
* Bugfix: A buggy MIN macro was causing ComputeTimestep to be called twice
(PR #200)
* Bugfix: Fix for simulations that use ExternalGravity but no self gravity
(PR #201)
* Bugfix: Inits now uses increased precision when writing subgrid locations.
(PR #195)
* Bugfix: Use Agg as the plotting backend for performance_tools (PR #191)
* Bugfix: AddFeedbackSphere is now compatible with the Zeus hydro solver
(PR 187)
* Bugfix: Fixed issues MHD test problems (PR #185, PR #186)
* Bugfix: Fixes for uninitialized memory errors reported by valgrind
(PR #181, PR #184)
* Bugfix: Fixed issues with compiling in mixed precision mode (PR #181)
* Bugfix: Fixed an issue with NumberOfOutputsBeforeExit functionality (PR #179)
* Bugfix: Fixed an issue with header include order in the RK solvers (PR #178)
* Bugfix: MagneticField is not set to NULL after being deleted (PR #175)
* Bugfix: Fixed an issue that caused the build to fail if hg is not
present (PR #174)
* Bugfix: Fixed Haardt & Madau 2012 radiation field rates (PR #171)
== Version 2.3 ==
_Release date - July 9, 2013_
* New Feature: MHDCT, divergence free MHD ( PR #121, PR #156, PR #160)
* New Feature: New Haard & Madau 2012 radiation background ( PR #143)
* New Feature: Second derivative refinement criteria ( PR #164)
* New Feature: New TestOrbit problem for orbiting point masses ( PR #152)
* New Feature: New magnetic reconnection test ( PR #121)
* New Feature: CUDA PPM solver ( PR #78)
* New Feature: Supermassive black hole feedback ( PR #119)
* Enhancement: New additions to the RefineRegion mechanics ( PR #155)
* Enhancement: Improvements to the gravity solver ( PR #120, PR #124, PR #131 PR #163, )
* Enhancement: Improvements to the CUDA MHD solver
* Enhancement: New output mechanism for debugging difficult code ( PR #103)
* Enhancement: Updates to documentation ( PR #94, PR #104, PR #140, PR #141)
* Enhancement: Performance timers for communication ( PR #139)
* Enhancement: Updates to test problems, test runner, and inits ( PR #87, PR #89,
PR #91, PR #93, PR #95, PR #96, PR #97, PR #98, PR #99, PR #100,
PR #101, PR #102, PR #107, PR #108, PR #110, PR #113 PR #123,
PR #132, PR #133, PR #149, PR #146, PR #151, PR #154, PR #161, PR #167, )
* Enhancement: Improvements to the enzo/yt inline interface ( PR #131)
* Enhancement: NumberOfGhostZones is now a run-time parameter ( PR #84)
* Bugfix: OutputOnDensity fixes ( PR #122, PR #136)
* Bugfix: Cooling fixes ( PR #126, PR #136)
* Bugfix: Ray tracer bugfixes for isolaced BCs, constant dt, memory bug ( PR #144, PR #158)
* Bugfix: Timestep bug fixed for multispecies ( PR #153)
* Bugfix: Sink particle fix ( PR #129)
* Bugfix: Set acceleration boundary updates ( PR #88)
== Version 2.2 ==
_Release date - Nov 30, 2012_
* New Feature: Supernova Ia feedback (no PR)
* New Feature: H2-regulated star formation prescription (PR #41)
* New Feature: Light-weight timing and performance measuring tool (PR #35)
* Enhancement: Fortran precisions are now explicit. (PR #80)
* Enhancement: Improved inline yt analysis. (PR #13)
* Enhancement: Support for ghost-zone input/output. (PR #8)
* Enhancement: Reorganized and improved code documentation. (PR #79, and many more)
* Enhancement: Improvements to answer testing. (PR #82, and many more)
* Enhancement: Docs for enzo performance measurement/analysis. (PR #38)
* Bugfix: Generalizing the conversion to conserved quantities. (PR #75)
* Bugfix: Fixing the set-acceleration-boundary compile flag. (PR #77)
* Bugfix: Bug fix in hydro shock tubes initialization (PR #76)
* Bugfix: Fix precision settings in WriteParameterFile. (PR #74)
* Bugfix: Fixing create_config_info.py to replace ^M with \n in the output of 'hg diff'. (PR #73)
* Bugfix: MAX_ANY_DIRECTION check (PR #72)
* Bugfix: Fixing memory leak. (PR #71)
* Bugfix: Shocks on output bugfix (PR #70)
* Bugfix: Backporting Mike's hdf5 hierarchy fixes. (PR #69)
* Bugfix: fix too-many-files issue with make dep (PR #65)
* Bugfix: Changing MAX_ANY_SINGLE_DIRECTION from 3079 to 1024. (PR #62)
* Bugfix: Minor fixes to H2 chemistry & cooling (PR #61)
* Bugfix: Removing extra 1/dom factor in MetalCooling = 1 (PR #59)
* Bugfix: Removing unused experimental chemistry code (PR #60)
* Bugfix: Adding -fdefault-double-8 for example machine files for GNU v4.6+ (PR #54)
* Bugfix: Change default setting for (the inaccurately named) bitwise-identicality setting to no (PR #47)
* Bugfix: Subgrid size change and FOF bugfix (PR #46)
* Bugfix: Fixed tracer particle allocation (PR #44)
* Bugfix: Sink particle merging fixes (PR #40)
* Bugfix: Fixed small errorPartition Grid only if not already partitioned (PR #28)
* Bugfix: Small changes for GENum in AddFeedbackSphere and IdentifyPhysicalQuantites to avoid confusion with DensNum. (PR #25)
* Bugfix: Fix for Ghost Zone IO (PR #34)
* Bugfix: Fixing some errors in the description of Cen & Ostriker star (PR #33)
* Bugfix: moved ENZO_FAIL before the loop to see if fields already exist. this loop will be infinite if OldNumberOfBaryonFields + FieldsToAdd > MAX_NUMBER_OF_BARYON_FIELDS, so it's best to do the check first. (PR #31)
* Bugfix: Corrected Make.config.target's transposition of branch and revision info (PR #30)
* Bugfix: Fixing small error (3.5%) in TemperatureUnits in CosmologyGetUnits.C (PR #26)
* Bugfix: Small doc fix. (PR #22)
* Bugfix: Changing enzo_unit_tests.h to Unix file format (PR #19)
* Bugfix: Bugfix MetalCooling=1 missing a factor of density (PR #16)
* Bugfix: Make inits work for 2D cosmology simulations (PR #12)
* Bugfix: Deleting LevelArray variable after HDF5 hierarchy is written (PR #9)
* Bugfix: make HDF5Hierarchy work with particles-128 (PR #11)
* Bugfix: Fix urgent Ghost Zone bug (PR #14)
* Bugfix: dtPhoton lower limit (PR #5)
* Bugfix: HDF5 Hierarchy fix (PR #1)
* Bugfix: Fix the rotating cylinder test problem (PR #4)
== Version 2.1.1 ==
_Release date - Oct 27, 2011_
* Enhancement: Test suite is now fully operational. See run/README for more details.
* Enhancement: The “must refine” region can move with a user-defined, time-dependent refine region (parameter RefineRegionFile and refinement option 12)
* Bugfix: Enzo now compiles with HDF5 v1.6.x (Michael Kuhlen)
* Bugfix: User-defined time-dependent refine region now works with code time (David Collins)
* Bugfix: Photon timesteps no longer go to tiny numbers (~1e-20) in certain situations when using the HII-restricted timestepping algortihm.
== Version 2.1.0 ==
_Release date - Oct 17, 2011_
* New feature: Isotropic and anisotropic heat conduction
* New feature: X-ray ionization and heating
* New feature: Massive black hole particles
* New feature: Testing suite
* New feature: Shock tracking
* New feature: Distributed stellar feedback across multiple cells
* Enhancement: Improved molecular hydrogen chemistry at high densities
* Enhancement: Fourth-order accurate gravity solver
* Enhancement: HDF5 based hierarchy file (off by default)
* Enhancement: Dust cooling -- Molecular hydrogen formation on dust grains
* Enhancement: Time-dependent Lyman-Werner radiation backgrounds
* Enhancement: Type Ia SNe and planetary nebulae feedback
* Enhancement: HLLC and HLL Riemann solvers for HD (HydroMethod=0)
* Enhancement: HLLD Riemann solver for MHD
* Enhancement: Improved inline analysis with yt
* Enhancement: Simplifed multi-mesh cosmological initial conditions with inits.
* Enhancement: Improved and expanded documentation
* Performance improvement: Load balancing on a space-filling curve
* Performance improvement: Parallel ray tracing
* Performance improvement: Ray tracing load balancing
* Changed all FORTRAN files to .F instead of .src to remove the pre-processing step.
* Various bugfixes over the past year.