# Category emdna History

See `CONTRIBUTING.rst` for details of **required** info/format for each entry,
which **must** added in reverse chronological order (newest at the top).
It must **not** be used as a substitute for writing good git commit messages!

-------------------------------------------------------------------------------

## 2024-05-11 Gabriele Cosmo (emdna-V11-01-26)
- Fixed compilation error on macOS/clang with C++23 enabled, for the use
  of std::function in G4OctreeFinder.

## 2024-04-19 Gabriele Cosmo
- Fixed compilation error on Windows VC++ with C++20 Standard enabled.
  Added missing declarations for TG4MoleculeShoot specialisations on G4Track.
  Based on [GitHub PR#69](https://github.com/Geant4/geant4/pull/69).

## 2023-11-14 Ben Morgan (emdna-V11-01-25)
- Use G4FindDataDir to access data libraries in place of raw `getenv`.

## 2023-11-11 Hoang Tran (emdna-V11-01-24)
- correct fastercode section for dna opt6

## 2023-10-12 Hoang Tran (emdna-V11-01-23)
- correct scavenger counter for oxygen

## 2023-10-11 Hoang Tran (emdna-V11-01-22)
- Fixed the K shell bug in G4DNARuddIonisationExtendedModel.cc

## 2023-10-10 Hoang Tran (emdna-V11-01-21)
- improved equilibrium processes, introduced G4ChemEquilibrium

## 2023-09-04 Gabriele Cosmo (emdna-V11-01-20)
- In navigation classes, removed references to G4TouchableHistoryHandle,
  which is now deprecated.

## 2023-08-31 Gabriele Cosmo (emdna-V11-01-19)
- Removed references to unused G4GRSSolid and G4GRSVolume in navigator classes.

## 2023-08-29 (emdna-V11-01-18)
- Fix minor/obvious Coverity issues

## 2023-07-21 Ben Morgan (emdna-V11-01-17)
- Apply core clang-tidy fixes plus those for
  - Cons/destructor modernization
  - Readability and logic for conditionals/booleans

## 2023-07-12 Ben Morgan (emdna-V11-01-16)
- Apply patch from [GitHub PR 58](https://github.com/Geant4/geant4/pull/58)
  - Use std::erfc to avoid precision loss
  - Remove unused header

## 2023-06-10 Hoang Tran (emdna-V11-01-15)
- minor correction for DNA material in option6

## 2023-06-09 Hoang Tran (emdna-V11-01-14)
- use analytical method for DNA material in option6, water is unchanged

## 2023-06-03 Vladimir Ivanchenko (emdna-V11-01-13)
- G4DNARuddIonisationExtendedModel - model re-written: shared date between
  threads, applicable for scaled energy interval 100 eV to 100 MeV, if for
  an ion data is not available proton x-section and effective charge are
  used, sampling of delta-electron is done using two regions regression method

## 2023-05-25 Hoang Tran (emdna-V11-01-12)
- Modified DNA cross section file name to new G4EMLOW8.4

## 2023-05-19 Hoang Tran (emdna-V11-01-11)
- Add DNA cross section to dna_option6

## 2023-05-17 Hoang Tran (emdna-V11-01-10)
- Fix Compilation warnings on XCode

## 2023-05-04 Hoang Tran (emdna-V11-01-09)
- correct the initial values of G4DNAEventScheduler

## 2023-04-28 Hoang Tran (emdna-V11-01-08)
- add time structure (pulsed beam) to water radiolysis (G4VUserPulseInfo)

## 2023-04-26 Hoang Tran (emdna-V11-01-07)
- correct KDTree bug

## 2023-03-24 Hoang Tran (emdna-V11-01-06)
- icsd physicslist: deleted unused model,
- Apdated RegisterModel function with new structure
- added model data to G4DNAMaterialManager singleton

## 2023-03-08 Gabriele Cosmo (emdna-V11-01-05)
- Fixed compilation warning on macOS/XCode for implicit type conversion
  in G4DNAVacuumModel::Initialise().

## 2023-02-09 Hoang Tran (emdna-V11-01-04)
- Introduced G4DNAMaterialManager to manage available DNA material
and keeps DNA cross section data in one thread.
- minor change in G4VDNAModel

## 2023-01-27 Hoang Tran (emdna-V11-01-03)
- reorganize multiple material model of PTB model.
G4VDNAModel plays like a data layer for multiple material model.
The concrete models are independent of G4DNAModelInterface.

## 2023-01-17 Hoang Tran (emdna-V11-01-02)
- replaced string to material index and clean the files(G4DNAPTBExcitationModel,
G4DNAPTBIonisationModel, G4DNAPTBElasticModel,G4DNAPTBIonisationStructure,
G4DNAPTBExcitationStructure) - PTB models
- added material pointer members for each concrete models(PTB models)
- removed unused objects (G4DataVector())

## 2023-01-06 Hoang Tran (emdna-V11-01-01)
- clean G4DNAModelInterface file for the model combination of different materials

## 2022-12-12 Hoang Tran (emdna-V11-01-00)
- fix coverity of G4DNARuddIonisationExtendedModel, G4DNADingfelderChargeIncreaseModel
(Uninitialized scalar variable) from cand1 analysis

## 2022-11-24 Vladimir Ivanchenko (emdna-V11-00-39)
- G4DNARuddIonisationExtendedModel - fixed common work between DNA physics and
    radioactive decay module - before this update test2.in macro crash, because 
    only 5 ions have data needed for this model; with this modification of the
    model scaling relation to the carbon ion is used for any ion, which has
    no data; low-energy limit is used now more correctly - all ions are stopped 
    but not killed, because they may have radioactive decay at rest; all commented
    lines are removed from the class

## 2022-11-23 Gabriele Cosmo (emdna-V11-00-38)
- Fixed more compilation warnings for implicit type conversions.

## 2022-11-22 Hoang Tran (emdna-V11-00-37)
- delete unused tests in dna (G4DNAProcessTest.cc and G4DNATest.cc)

## 2022-11-18 Gabriele Cosmo (emdna-V11-00-36)
- Fixed compilation warnings for implicit type conversions on macOS/XCode 14.1.

## 2022-11-08 Vladimir Ivanchenko (emdna-V11-00-35)
- G4DNAUeharaScreenedRutherfordElasticModel - code cleanup; introduced 
    low and high energy limit for the model; removed missleading G4Exception

## 2022-11-01 Hoang Tran (emdna-V11-00-34)
- Fix Coverity issues for ref-09

## 2022-10-10 Hoang Tran (emdna-V11-00-33)
- minor correction of IRT-syn model (chemistry). Contact reactions should not happen
after 1 ps.

## 2022-10-21 Yann Perrot, Le Tuan Anh (emdna-V11-00-32)
- Add nitrogen models from PTra code

## 2022-10-10 Hoang Tran (emdna-V11-00-31)
- Fixed minor mistake of file name in G4DNARPWBAIonisationModel,
- Added protection for HighEnergyLimit/LowEnergyLimit in G4DNARPWBAIonisationModel and
G4DNARPWBAExcitationModel

## 2022-10-07 Gabriele Cosmo (emdna-V11-00-30)
- Fixed compilation warnings on Intel/icx compiler for variables set
  but not used in G4ITNavigator2.

## 2022-10-05 Hoang Tran (emdna-V11-00-29)
- Fix user's report for IRT model.
   If the first IRTSampling won't give any reactions, end the simu. No StepProcessor in this simu

## 2022-10-03 Hoang Tran (emdna-V11-00-28)
- Fix Coverity static analysis for ref-08
 uninit_member in G4DNAMillerGreenExcitationModel, G4DNARuddIonisationModel, G4DNADingfelderChargeDecreaseModel,
 G4DNADingfelderChargeIncreaseModel,G4DNARuddIonisationExtendedModel, G4DNAGillespieDirectMethod
 Use auto & instead of auto : G4ITFinder, G4DNAScavengerMaterial, G4MoleculeCounter, G4OCTREE

## 2022-09-08 Hoang Tran (emdna-V11-00-27)
- Resolve dependency inconsistencies :
    dna/management/include/G4ChemicalMoleculeFinder.hh includes G4Molecule.hh from G4emdna-molman
    dna/management/include/G4UserMeshAction.hh includes G4DNAMesh.hh from G4emdna-utils
    dna/management/include/G4OctreeFinder.hh includes G4IRTUtils.hh from G4emdna-utils

## 2022-09-05 Ben Morgan (emdna-V11-00-26)
- Partially resolve dependency inconsistencies
  - NB: cannot be resolved fully without introducing a cycle between
    G4emdna-man, G4emdna-molman, G4emdna-utils.

## 2022-09-01 Seth R Johnson (emdna-V11-00-25)
- Define G4CT_MAX_COUNT for changing "compile time counter" depth to fix build
  errors on NVHPC compiler.

## 2022-08-30 Vladimir Ivanchenko (emdna-V11-00-24)
- G4DNAExcitation, G4DNAVibExcitation, G4DNARotExcitation - class 
    cleanup according to the recent G4VEmProcess base class; model
    headers are moved to source; C++11 keywards are introduced. 

## 2022-06-21 Igor Semeniouk (emdna-V11-00-23)
- G4DNABornIonisationModel1.cc, G4DNACPA100ElasticModel.cc,
  G4DNACPA100IonisationModel.cc, G4DNAChampionElasticModel.cc,
  G4DNAELSEPAElasticModel.cc, G4DNAEmfietzoglouIonisationModel.cc,
  G4DNAIonElasticModel.cc, G4DNAQuinnPlasmonExcitationModel.cc,
  G4DNARPWBAIonisationModel.cc, G4DNARelativisticIonisationModel.cc,
  G4DNASancheExcitationModel.cc :
  use G4FindDataDir("G4LEDATA") to find dataset path on place of getenv.

## 2022-06-03 Hoang Tran (emdna-V11-00-22)
- correct DNA ion definitions in G4DNARuddIonisationExtendedModel.

## 2022-06-01 Hoang Tran (emdna-V11-00-21)
- G4Octree : fixed Coverity warning.

## 2022-05-24 Hoang Tran (emdna-V11-00-20)
- update data structure to improve performance of the mesoscopic model.

## 2022-05-18 Gabriele Cosmo (emdna-V11-00-19)
- G4ITTransportation: fixed misuse of bitwise '|' operator instead of logical.

## 2022-05-12 Sergio Losilla (emdna-V11-00-18)
- Added missing headers.

## 2022-05-11 Hoang Tran (emdna-V11-00-17)
- change the scavenging filter of the IRT beyond 1 us proposed by Naoki and Jose

## 2022-05-02 Hoang Tran (emdna-V11-00-16)
- Add localthread for fUse of G4VMoleculeCounter

## 2022-04-27 Miguel A. Cortes-Giraldo and Hoang Tran (emdna-V11-00-15)
- Incorporation of model based on RPWBA to transport protons at 100-300 MeV.
- Added G4DNARPWBAExcitationModel, G4DNARPWBAIonisationModel.

## 2022-04-25 Hoang Tran (emdna-V11-00-14)
- add UserBrownianAction in G4DNABrownianTransportation and
  G4DNAMolecularDissociation
- replace G4int by int64_t for width integer types
- add fResetScavenger in G4SchedulerMessenger

## 2022-04-14 Paolo Dondero (emdna-V11-00-13)
- save local instances for recurrent access to particle definition in 
  G4DNAMillerGreenExcitationModel, G4DNARuddIonisationExtendedModel and
  G4DNARuddIonisationModel
- use G4Pow and G4Log instead of std::pow and std::log
- inside G4DNARuddIonisationExtendedModel commented out ions that are not
  inside G4DNAGenericIonsManager

## 2022-04-14 Hoang Tran (emdna-V11-00-12)
- Debug the report #2235 which might be related to KDtree algorithm
- Clean code
- Delete G4ITFinder.cc

## 2022-04-04 Paolo Dondero (emdna-V11-00-11)
- save local instances for recurrent access to particle definition in 
G4DNADingfelderChargeDecreaseModel and G4DNADingfelderChargeIncreaseModel
- use G4Pow and G4Log instead of std::pow and std::log

## 2022-03-18 SI (emdna-V11-00-10)
- add protection in G4DNACPA100IonisationModel for cum. xs interpolation

## 2022-03-15 Hoang Tran (emdna-V11-00-09)
- remove macro commands to control the chemistry models in G4SchedulerMessenger
(creating models in G4SchedulerMessenger can make circular dependency problems)
- add flag OctreeFinder in IRT_syn's Initialize()

## 2022-03-04 Hoang Tran (emdna-V11-00-08)
- add macro commands to control the chemistry models,
parameters including the chemical molecules and reaction list involved in the radiolysis

## 2022-02-18 Hoang Tran (emdna-V11-00-07)
- optimize IRT-syn model, use reaction radius and reaction type from the reaction table
- delete G4VReactionType, G4DNAReactionTypeManager, G4DNATotallyDiffusionControlled,
G4DNAPartiallyDiffusionControlled
- delete G4DNAIRT_geomtries

## 2022-02-17 Jonas Hahnfeld (emdna-V11-00-06)
- `G4ITTransportation`: Make `PrepareState` more function-like, expect semicolon
- `G4DNAPolyNucleotideReactionProcess`:
  - Move `PrepareState` and `State` macros into `.cc` file
  - Make `PrepareState` more function-like, expect semicolon
  - Move variable `pMoleculeA` under `G4VERBOSE`

## 2022-02-10 Hoang Tran (emdna-V11-00-05)
- add the condition of water material for the OUTSIDE_OF_MOTHER_VOLUME
warning in G4DNAMolecularDissociation::DecayIt()

## 2022-02-3 Hoang Tran (emdna-V11-00-04)
- modify the macro in G4Molecule.cc and G4ITType.hh for linker problems on Windows

## 2022-01-18 Jonas Hahnfeld (emdna-V11-00-03)
- Prefer pointer to `const G4Material` if possible

## 2022-01-17 Jonas Hahnfeld (emdna-V11-00-02)
- Remove useless `const_cast` of `G4VSensitiveDetector`

## 2021-12-23 Hoang Tran (emdna-V11-00-01)
- add G4DNAPolyNucleotideReactionProcess, G4VDNAHitModel
  files for DNA damage applications

## 2021-12-10 Ben Morgan (emdna-V11-00-00)
- Change to new Markdown History format

---

# History entries prior to 11.0

8-11-2021, H. Tran, emdna-V10-07-15
- corrected Circular dependencies for mesoscopic model
- corrected the problem in IRT

4-11-2021, H. Tran, emdna-V10-07-14
- define a G4FakeParticleID::fLastValue in the header file,
  delete G4FakeParticleID.cc,
  solve arithmetic problems,
  Added new mesoscopic model for dna chemistry

21-10-2021, W.G.Shin, emdna-V10-07-13
- Added a virtual classes for DNA geometry - G4VDNAMolecularGeometry
  Modified classes - G4DNAIRT, G4DNAIRTMoleculeEncounterStepper,
                     G4ITModelProcessor, G4Scheduler,
                     G4DNAMolecularReactionTable

23-09-2021, A. Ribon, emdna-V10-07-12
- G4ITTransportation, G4DNAElastic, G4DNAExcitation, G4DNAIonisation,
  G4DNAVibExcitation, G4DNAAttachment, G4DNAChargeDecrease, 
  G4DNAChargeIncrease, G4DNAElectronSolvation, G4DNAMolecularDissociation,
  G4DNASecondOrderReaction, G4DNAElectronHoleRecombination,
  G4DNABrownianTransportation : replaced hardwired process-sub-types
  with enum values introduced in the new class G4LowEnergyEmProcessSubType

18-07-2021, V. Ivanchenko, emdna-V10-07-11
- G4DNABohrExcitationModel2, G4DNABohrIonisationModel2, 
  G4VLEPSModel - updated interfaces to G4PhysicsVector

16-07-2021, D. Sakata, emdna-V10-07-10
- Fixed initialization error in G4DNAELSEPAElasticModel 

28-06-2021, G. Cosmo, emdna-V10-07-09
- Fixed compilation error in G4ITMultiNavigator when compiling with c++20
  enabled.

31-05-2021, D.Sakata S. Guatelli, emdna-V10-07-08
- Added new classes G4DNADiracRMatrixExcitationModel
                    G4DNAQuinnPlasmonExcitationModel
                    G4DNARelativisticIonisationModel
                    G4DNAPlasmonExcitation
- Modified G4DNAELSEPAElasticModel for gold

9-05-2021, H.Tran, tag emdna-V10-07-07
- Add IRT-syn model

16-04-2021, B.Morgan, tag emdna-V10-07-06
- Migrate build to modular CMake API

27-04-2021, H.Tran, tag emdna-V10-07-05
- G4DNAElectronHoleRecombination: added OctreeFinder
- G4DNABrownianTransportation: modified AlongStepDoIt
- added OctreeFinder and IRTUtils

26-04-2021, V.Ivanchenko,  tag emdna-V10-07-04
- G4DNABornAngle, G4DNARuddAngle - updated print method

12-03-2021, L.Pandola, tag emdna-V10-07-03
- Move DNA-related Unit Tests from lowenergy/tests to dna/test

24-02-2021, G.Cosmo, tag emdna-V10-07-02
- Fixed dependency on g4tools, now moved to externals module.

16-02-2021, W.G.Shin, tag emdna-V10-07-01
- G4DNAElectronHoleRecombination
  Dissociation channel of electron-hole recombination moved to
  G4EmDNAChemistry, _option1, _option2, _option3
- G4DNAWaterDissociationDisplacer
  Added the fragment displacement for new dissociation channel

29-10-2020, G.Cosmo,  tag emdna-V10-06-12
- Fix thread contention on mutable data in G4DNAMolecularMaterial; might
  help resolving observed crashes in MT runs.
  Some code cleanup.

27-10-2020, V.Ivanchenko,  tag emdna-V10-06-11
- G4DNAMolecularMaterial - removed commented lines
- History file fixed

25-10-2020, V.Ivanchenko,  tag emdna-V10-06-10
- G4DNAMolecularMaterial - attempt to fix nightly problems
  in chem6 example - do not delete instance of the singleton

24-10-2020, I. Hrivnacova, tag emdna-V10-06-09
- Added dependency on analysis/g4tools in GNUmakefile,
  required after analysis update (analysis-V10-06-05)

12-06-2020, S.Incerti, W.G.Shin, tag emdna-V10-06-08
- Fixed coverity warning

10-06-2020, S.Incerti, W.G.Shin, tag emdna-V10-06-07
- Fixed coverity warnings
- Fix of IRT bug
 (protection for the crash induced by empty reaction set)

28-05-2020, B.Morgan, tag emdna-V10-06-06
- Add missing G4analysismng module dependency to G4emdna-utils

20-05-20: W.G.Shin emdna-V10-06-05
- Revised displacement of OH radicals of B1A1 dissociation
based on momentum conservation in G4DNAWaterDissociationDisplacer class
- Added missing History

26-04-20: W.G.Shin emdna-V10-06-04
- Fixed coverity test

15-04-20: G.Cosmo emdna-V10-06-03
- G4MoleculeDefinition: copy constructor and assignment operator
  are not allowed (as for G4ParticleDefinition). Now deleted.

19-02-20: W.G.Shin emdna-V10-06-02
- Fixed memory issue on G4DNAMolecularReactionTable
- Revised headeres of IRT classes

12-02-20: W.G.Shin emdna-V10-06-01
- Added protections floating point exception in G4DNAIRT class

10-01-20: W.G.Shin emdna-V10-06-00
- Added classes for IRT
- Added features in management classes for IRT (G4ITReaction,
G4ITModelProcessor ...)
- Added features in G4DNAMolecularReactionTable for GFDE
- Added molecules of Plante et al. (2017) (Oxygen, O2, O3, HO2)

15-11-19: G.Cosmo emdna-V10-05-11
- Fixed cases of implicit type conversions from size_t to G4int.

8-11-19: HT, tag emdna-V10-05-10
- Fixed the exception divide by zero of diffusionCoefficient in
G4DNABrownianTransportation::AlongStepGetPhysicalInteractionLength
for the case of static molecules (DNA) (diffusionCoefficient = 0)

24-10-19: J.Apostolakis, tag emdna-V10-05-09
- Enabled G4ItNavigator{1,2} to flag if it encounters new type
  of external physical volume (meant for adapting external navigators)

19-10-19: WGS, SI, tag emdna-V10-05-08
- Added new model G4DNAELSEPAElasticModel

11-10-19: WGS, SI, tag emdna-V10-05-07
- G4DNAOneStepThermalizationModel.* :
added Kreipl and Meesungnoen amorphous ice models
- G4DNAWaterDissociationDisplacer* : updated

03-06-2019, MK, tag emdna-V10-05-06
- Fix GCC9 warnings

26-03-2019, HT, tag emdna-V10-05-05
- Added G4DNAMolecule

10-03-2019, MK, tag emdna-V10-05-04
- Fix reaction site issue
- Chemistry: clarify pointer ownership, clean code

11-03-2019, G.Cosmo, tag emdna-V10-05-03
- Fixed typos in printouts in G4MolecularConfiguration, G4VITRestDiscreteProcess,
  G4VITRestProcess, G4DNAElectronHoleRecombination.

18-01-2019, HT, tag emdna-V10-05-02
- Transformed the exception into warning in G4DNAMolecularDissociation

28-12-2018, MK, tag emdna-V10-05-01
DEV-300 : G4DNAChemistryManager clarify pointer ownership

05-01-2019, HT, tag emdna-V10-05-00
- moved the checking position of track status
in G4ITStepProcessor::SetInitialStep()

01-09-2018, SI, tag emdna-V10-04-10
renamed tag

01-09-2018, SI, tag emdna-v10-04-09
- bugzilla 2084
https://bugzilla-geant4.kek.jp/show_bug.cgi?id=2084

30-07-2018, SI, tag emdna-V10-04-08
- included upper energy limit of models (2)

29-07-2018, SI, tag emdna-V10-04-07
- included upper energy limit of models

01-07-2018, SI, tag emdna-V10-04-06
- added protection in Auger emission

30-06-2018, MS, ZF, SI tag emdna-V10-04-05
- updated Si mass in G4DNAGenericIonsManager

22-06-2018, SI tag emdna-V10-04-04
- fixed warnings in lepts models

14-05-2018, SI tag emdna-V10-04-03
- chemistry update by Mathieu

01-05-2018, SI tag emdna-V10-04-02
- chemistry update by Mathieu

09-02-2018, M.Asai tag emdna-V10-04-01
- G4DNAMolecularMaterial.cc :
  GetDensityTableFor() and GetNumMolPerVolTableFor() methods are accepted
  at G4State_Init rather than G4State_Idle.
- Co-works with run-V10-04-01 and global-V10-04-01.

21-12-2017, G.Cosmo tag emdna-V10-04-00
- Fixed self-consistency in headers (missing #include) in G4IosFlagsSaver,
  G4KDNode, G4MoleculeIterator and G4LEPTSDiffXS.
  Fixed spurious definition of G4IT namespace in G4ITMultiNavigator header.
  Thanks to Raphael Isemann for reporting these.

01-11-2017, MK tag emdna-V10-03-30
- remove models/test directory

31-10-2017, JA ( tag missing )
- G4KDNode.hh: Add missing included file - needed in test

16-08-2017, SI tag emdna-V10-03-28
- updated variable types in models

10-08-2017, SI tag emdna-V10-03-27
- test

10-08-2017, SI tag emdna-V10-03-26
- same as previous

09-08-2017, SI tag emdna-V10-03-25
- same as previous

09-08-2017, SI tag emdna-V10-03-24
- G4DNAEmfietzoglouIonisationModel: added protection for out of bound access

03-08-2017, VI tag emdna-V10-03-23
- G4DNAExcitation, G4DNAIonisation - make coherent model initialisation

28-07-2017, SI, tag emdna-V10-03-22
- added stationary mode flag to CPA100 ionisation.

04-07-2017, SI, tag emdna-V10-03-21
- added tagging of atom. deexc. products in ionisation models.

31-05-2017, SM, tag emdna-V10-03-20
- Correct windows issues with path of diff. CS data file.

31-05-2017, SI, tag emdna-V10-03-19
- roll-back (Windows issues with previous tag)

24-05-2017, SI, tag emdna-V10-03-18
- added tagging of atom. deexc. products in ionisation models.

11-05-2017, VI tag emdna-V10-03-17
- fix for gcc 7.1 warnings in G4DNACrossSectionDataSet.cc.

10-05-2017, NL, MK, SI, tag emdna-V10-03-16
- fix for gcc 7.1 warnings in G4DNACrossSectionDataSet.cc.

03-05-2017, SM, tag emdna-V10-03-15
- add the new G4DNADummyModel and allow the combination of G4VEmModel and G4VDNAModel in G4DNAModelInterface.

27-04-2017, SM, tag emdna-V10-03-14
- correct small typo mistakes.

27-04-2017, SM, tag emdna-V10-03-13
- update Models/G4DNAModelInterface to correctly use G4DNAMolecularMaterial

10-03-2017, MK, tag emdna-V10-03-12
- update utils/GNUmakefile

13-02-2017, MK, tag emdna-V10-03-11
- G4DNAMolecularMaterial: update doxygen doc

13-02-2017, MK, tag emdna-V10-03-10
- G4DNAMolecularMaterial:
  remove newly introduced methods, add fatal exception if used
  add doxygen documentation

10-02-2017, MK, tag emdna-V10-03-09
- Introducing G4PhysChemIO
- Move call to G4TrackList::Pop(track) from G4ITTrackingManager
  to G4ITTrackHolder. And make sure track status is set to fStopAndKill
  when G4ITTrackHolder::PushToKill is called.

09-02-2017, MK, tag emdna-V10-03-08
- G4KDNode.hh: remove unused G4ThreeVector header
- G4KDMap.hh: int->size_t + indentation
- G4KDMap.cc: int->size_t
- G4IT & G4Molecule: template specialization
  template<> G4KDNode<G4IT / G4Molecule>::~G4KDNode()

24-01-2017, SM, tag emdna-V10-03-07
- add a ifdef to remove a warning (windows only) related to the use of several levels of map.

23-01-2017, SM, tag emdna-V10-03-06
- add missing G4DNAModelInterface files (.hh and .cc) to the source.cmake

23-01-2017, SM CV, tag emdna-V10-03-05
- add new G4DNAPTB* classes and the structure of the new material management system

14-01-2017, MK, tag emdna-V10-02-37
- Prevent a crash when calling G4ITTrackingManager::EndTracking from
  the UserTimeStepAction::PostTimeStepAction
- Add missing: G4ITTrackingManager* G4Scheduler::GetTrackingManager()

28-12-2016, SI, tag emdna-V10-03-04
- extended upper energy limit of protons for
G4DNARuddIonisationExtendedModel

27-12-2016, SI, tag emdna-V10-03-03
- updated references of CPA100 classes

23-12-2016, SI, tag emdna-V10-03-02
- updated sources.cmake

23-12-2016, SI, tag emdna-V10-03-01
- commit of first CPA100 classes, part 2

21-12-2016, SI, tag emdna-V10-03-00
- commit of first CPA100 classes

27-11-2016, MK, tag emdna-V10-02-36
- G4Electron_aq: correct charge
- G4DNADamages -> G4DNADamage

17-11-2016, MK, tag emdna-V10-02-35
- G4ManyFastLists.hh: iterator::GetTrackList() correct type returned

16-11-2016, MK, tag emdna-V10-02-34
- G4VMolecularDissociationDisplacer & G4DNAWaterDissociationDisplacer:
   displacement types can be thread shared
- G4TrackState: Move implementation of static function
                G4VTrackStateID::Create() to cc file - windows crash

15-11-2016, MK, tag emdna-V10-02-33
- G4VMolecularDissociationDisplacer.cc: add missing initializer

14-11-2016, MK, tag emdna-V10-02-32
- Separate def and impl of dissociation flag to prevent issue with
  windows platforms

14-11-2016, MK, tag emdna-V10-02-31
- G4DNAOneStepThermalizationModel.cc:
 tag init constexpr factor with number rather than expression

14-11-2016, MK, tag emdna-V10-02-30
- Use CLHEP::pi instead of M_PI

14-11-2016, MK, tag emdna-V10-02-29
- Correct bracket enclosing

14-11-2016, MK, tag emdna-V10-02-28
- G4VMoleculeCounter: move imp of static methods to cc to avoid crash on win
- Update displacers, oneStepTherm
- WaterDisplacer: change the electron thermalization distribution
- OneStepTherm: two inner thermalization models can be chosen as template argument
- Adds and use G4CTCounter

02-11-2016, MK, tag emdna-V10-02-27
- add G4VMoleculeCounter & enable using custom molecule counter
- pass location information to molecule counter
- G4ITNavigator2: relocate voxelNavigator before every call to
  computeStep & computeSafety

07-08-2016, SI, tag emdna-V10-02-26
- added stationnary mode to sub-excitation electron processes

23-06-2016, MK
- G4Scheduler: move G4IosFlagsSaver to Process()

3-06-2016, MK, tag emdna-V10-02-25
- G4DNAScreenedRutherfordElasticModel: modify handling of energy boundaries
at init time
- G4DNAUeharaScreenedRutherfordElasticModel: move up "if(isInitialised)"

3-06-2016, MK, tag emdna-V10-02-24
- G4DNAScreenedRutherfordElasticModel.hh: remove killBelowEnergy,
  SetKillBelowThreshold deprecated
- G4DNAScreenedRutherfordElasticModel.cc: remove killBelowEnergy, modify init to
  prevent erasing/rewriting data (use isInit)
- G4DNAChampionElasticModel.hh: rearrange declaration of attributes
- G4DNAChampionElasticModel.cc: move up  if (isInitialised) { return; }
- G4DNAUeharaScreenedRutherfordElasticModel.cc: add exception at init time if
  model used for another part than e-

1-06-2016, MK, tag emdna-V10-02-23
- G4DNAChemistryManager::CreateWaterMolecule: reverse electronicLevel
logic for interface with physics models

31-05-2016, MK, tag emdna-V10-02-22
- G4DNAChampionElasticModel.cc: reset check ekin >= LowEnergyLimit()

28-05-2016, MK, tag emdna-V10-02-21
- G4DNAChampionElasticModel.cc: add missing "sigma = ..." after
one of the previous tags

19-05-2016, MK, tag emdna-V10-02-20
- G4ITNavigator: remove warnings on gcc6.1

17-05-2016, MK, tag emdna-V10-02-19
- G4DNAElectronSolvation, G4DNAOneStepThermalizationModel:
correct model and process names for solvation

12-05-2016, MK, tag emdna-V10-02-18
- G4DNAChampionElasticModel.hh:
 * GetKillBelowThreshold is deprecated
 * Removed attributes: killBelowEnergy, lowEnergyLimit, highEnergyLimit,
   tableFile, tableData
 * Method Theta(): remove G4ParticleDefinition * aParticleDefinition
- G4DNAUeharaScreenedRutherfordElasticModel.hh:
 * SetKillBelowThreshold, GetKillBelowThreshold are depreceted
 (use G4LowECapture or G4DNAElectronSolvatation)
 * SelectHighEnergyLimit uses SetHighEnergyLimit instead and a warning is
   emitted when used
 * Removed attributes: killBelowEnergy, lowEnergyLimit, highEnergyLimit
- G4DNAChampionElasticModel.cc & G4DNAUeharaScreenedRutherfordElasticModel.cc:
 * Verbose check only if preprocessor flag is triggered -> recompile
 * Energy boundaries checked in Initialise() -> reset if needed
 * Call to G4Electron removed in Initialise() -> check using particle name
 * Cleanup CrossSectionPerVolume by removing unnecessary checks and calls to map
 * SampleSecondaries(): remove "kill below threshold" and energy checks
 * G4DNAChampionElasticModel::Theta remove check particle == G4Electron
- G4DNAOneStepThermalizationModel.cc:
 * Check verbose flag if a preprocessor flag is trigerred
 * Remove call to G4Electron at initialization time
- G4DNATransformElectronModel.cc:
 * Check verbose flag if a preprocessor flag is trigerred
 * Remove call to G4Electron at initialization time
 * Add check if(G4DNAChemistryManager::IsActivated()) then solvated electron
   created; otherwise, the primary electron is killed

30-04-2016, MK, tag emdna-V10-02-17
- G4VUserChemistryList: Add flag fIsPhysicsConstructor

30-04-2016, MK, tag emdna-V10-02-16
- G4VUserChemistryList: remove a if statement
- G4MoleculeCounter: at initialization time, prevent creating entries for
  unregistered molecule definition

22-04-2016, MK, tag emdna-V10-02-15
- G4DNAElectronSolvatation -> G4DNAElectronSolvation
- G4DNASancheExcitationModel: remove warning when SANCHE_VERBOSE is OFF

22-04-2016, MK, tag emdna-V10-02-14
- G4DNAMeltonAttachmentModel, G4DNASancheExcitationModel:
  remove usage of internal energy boundaries

19-03-2016, SI, tag emdna-V10-02-13
- added nrj extensibility to SR and USR models

11-03-2016, SI, tag emdna-V10-02-12
-roll back to files in emdna-V10-02-06

10-03-2016, SI, tag emdna-V10-02-11
-further cleaning of G4DNAUeharaScreenedRutherfordElasticModel
and G4DNAScreenedRutherfordElasticModel

10-03-2016, SI, tag emdna-V10-02-10
-further cleaning of G4DNAUeharaScreenedRutherfordElasticModel

07-03-2016, SI, tag emdna-V10-02-09
-added possibility to extend applicability limit
of G4DNAUeharaScreenedRutherfordElasticModel

06-03-2016, SI, tag emdna-V10-02-08
-removed useless G4Pow declaration

04-03-2016, SI, tag emdna-V10-02-07
-replaced std::log by G4Log
-replaced std::log10() by G4Log()/g4pow->logZ(10)

02-03-2016, SI, tag emdna-V10-02-06
-replaced std::exp by G4Exp

02-03-2016, SI, tag emdna-V10-02-05
-replaced std::exp by G4Exp

02-03-2016, SI, tag emdna-V10-02-04
-replaced std::exp by G4Exp

01-03-2016, SI, tag emdna-V10-02-03
* update of fast computation of:
-G4DNAScreenRutherfordElasticModel
-G4DNAUeharaScreenRutherfordElasticModel
by S. Okada (KEK, JP)

17-02-2016, MK, tag emdna-V10-02-02
* G4MoleculeCounter: remove check of c++ version for unique_ptr/auto_ptr selection

16-12-2015, SI, tag emdna-V10-02-01
* Ionisation models : in SampleSecondaries:
added protection on energy for interpolation method change

16-12-2015, SI, tag emdna-V10-02-00
* G4DNAIonElasticModel::SampleSecondaries: added protection on
energy

13-11-2015, MK, tag emdna-V10-01-55
* G4MoleculeCounter::Use / InUse => move implementation to source
file

10-11-2015, MK, tag emdna-V10-01-54
* remove unused variables

10-11-2015, MK, tag emdna-V10-01-53
* Coverity fixes

06-11-2015, MK, tag emdna-V10-01-52
* G4DNAWaterDissociationDisplacer: remove useless verbose

06-11-2015, MK, tag emdna-V10-01-51
* G4FastList.hh : use WatcherSet::iterator to avoid compilation errors
on x86_64-slc6-gcc49-Seq-BoundsCheck-UseInternalCLHEP

06-11-2015, MK, tag emdna-V10-01-50
* Avoid indirect include of G4TrackState to G4physicslists category
* Reorganize includes
* Add G4ITStepProcessorState_Lock.hh

06-11-2015, MK, tag emdna-V10-01-49
* G4MoleculeCounter: do not initialize compDoubleWithPrecision::fPrecision
to other value than 0 - causing compilation errors on windows
* G4DNAOneStepThermalizationModel: do not include G4ITNavigator in the header
but in the source file - causing crashes on windows

04-11-2015, MK, tag emdna-V10-01-48
* G4DNARevertProbability: added and used in G4DNAWaterDissociationDisplacer
* utils/sources.cmake: G4DNARevertProbability.hh added
* G4DNAWaterDissociationDisplacer: fix and speed up distributions
* models/GNUmakefile: add missing dependency
* G4DNAOneStepThermalizationModel: delete navigator state when model
is deleted
* G4FastList.icc: use typedef WatcherSet even when iterators are used
* G4ITModelProcessor: add RegisterModel, GetComputeTimeStep +
  fComputeTimeStep & fComputeReaction flags
* G4DNAElectronHoleRecombination: enable using this model even when not
  all dissociation products have been defined (they will just not be taken
  into account)
* G4DNAMolecularReactionTable: delete reaction data when table is deleted

03-11-2015, MK, tag emdna-V10-01-47
* G4Scheduler: Update time before G4ITStepProcessor::DoIt
* G4ITStepProcessor::DoIt : reset leading tracks at the end of
the call

03-11-2015, MK, tag emdna-V10-01-46
* G4MolecularDissociation
* G4DNAOneStepSolvatationModel -> G4DNAOneStepThermalizationModel
  Avoid placing products outside volume of the mother track
  (causing navigator complains)

03-11-2015, MK, tag emdna-V10-01-45
* G4Serialize: Add definition in header for G4String

02-11-2015, MK, tag emdna-V10-01-44
* G4Serialize: remove inline in front of template
* molecules: fix unit tests
* G4DNAElectronHoleRecombination: add missing check on G4MoleculeCounter::InUse
* G4MoleculeCounter: add a flag to check or not against scheduler time
* G4MoleculeTable: do not store G4MolecularConf anymore
  -> G4MolecularConfMan is taking care of this

30-10-2015, MK, tag emdna-V10-01-43
* Bug solved in G4MoleculeCounter
  and made compatible wih G4DNAElectronHoleRecombination (temporary)
* Unit tests corrected
* G4VITDiscreteProcess added
* G4ReactionTableMessenger added
* Intermediate update for 10.2 release

27-10-2015, MK, tag emdna-V10-01-42
* G4ITStepProcessor: clean dynamic_cast to G4VITProcess

26-10-2015, MK, tag emdna-V10-01-41
* Sanche model: try to solve std::vector out of bounds

23-10-2015, MK, tag emdna-V10-01-40
* remove all CLHEP::shared_ptr usage

23-10-2015, CV, SM, tag emdna-V10-01-39
* Addded base class G4VDNAPTBModel

28-09-2015, SI, tag emdna-V10-01-38
* updated ion selection in G4DNARuddIonisationExtendedModel.cc for Z>2

19-09-2015, MK, tag emdna-V10-01-37
* added proton ionisation scaling in G4DNABornIonisationModel1*.cc
* changed ion selection in G4DNARuddIonisationExtendedModel.cc for Z>2

17-09-2015, MK, tag emdna-V10-01-36
* G4MoleculeGun: Remove compilation warnings

04-09-2015 MK, tag emdna-V10-01-35
* Fix G4MoleculeGun compilation errors

03-09-2015 SI, tag emdna-V10-01-34
* Added stationary regime to all inelastic models

19-08-2015, MK
* Update G4MoleculeGun & G4MoleculeGunMessenger:
  - compatible with both Smoluchowski & Gillespie models

15-08-2015, S.Incerti, tag emdna-V10-01-33
* Added easier handling of cumulative proba. in SR elastic models

13-08-2015, G.Cosmo, tag emdna-V10-01-32, 31
* Fixed compilation warning on clang for mismatch class/struct in
  declaration of G4MoleculeShoot.

13-08-2015, G.Cosmo, tag emdna-V10-01-30
* Fixed compilation warning on clang for mismatch class/struct in
  declaration of G4MoleculeShootMessenger.

12-08-2015, MK, tag emdna-V10-01-29
* Add G4Serialize in the build tree temporarily

12-08-2015, MK, tag emdna-V10-01-28
* G4Serialize added

12-08-2015, MK
* G4memory : quick removal of CLHEP::shared_ptr dependency

24-07-2015, MK
- G4MolecularReactionTable
 * Add get methods
- G4MoleculeGun, G4MoleculeGunMessenger
 * Molecule gun : place randomly in a box

15-07-2015, MK
- G4DNAAttachment, G4DNAChargeDecrease, G4DNADissociation,
G4DNAExcitation, G4DNAIonisation
 * processes & models initialisation again

15-07-2015, MK, tag emdna-V10-01-26
-G4ITModelProcessor & G4ITStepProcessor:
 * add macro to prevent warnings in non-verbose mode

11-07-2015, MK, tag emdna-V10-01-25
- Add G4IosFlagsSaver.hh to sources.cmake
- G4IosFlagsSaver.hh add an extra line of the end of the file

10-07-2015, MK, tag emdna-V10-01-24
- G4DNA Processes : correct setup of energy boundaries
- G4DNAElectronHoleRecombination remove verbose
- G4DNADingfelderChargeDecreaseModel: add hole creation
- G4DNAEmfietzoglouXModel: specify energy boundaries in constructor

08-07-2015, MK, tag emdna-V10-01-23
- G4ITLeadingTracks added
- G4ITSteppingVerbose added
- G4IosFlagsSaver added
- G4VITSteppingVerbose & G4ITSteppingVerbose added
  * new UI command /chem/tracking/verbose 1,2,3 ...
- G4MoleculeDefinition:
  ::SetFormatedName added
  ::NewConfiguration methods added
  ::NewConfiguration added
  ::AddDecayChannel per G4MolecularConfiguration or conf label added
  And replace ::AddDecayChannel for a molecule model
  ::Finalize added
- G4MolecularConfiguration:
  * new configuration can be defined by labels
  * Add Finalize method and add exception if attempt to modified
  the G4MolecularConfiguration is done after finalization
- G4MolecularDissociationChannel & G4DNAMolecularReactionTable &
G4DNAMolecularEncounterStepper use G4MolecularConfiguration rather
than molecule models
- G4Molecule add constructor where only G4MolecularConfiguration is specified
- G4Scheduler : remove entirely track specification from this class
- G4ITXProcess : deal with tracks
- G4ITTrackingManager is a "service" to start and end tracking
- G4DNAElectronHoleRecombination added

06-07-2015, Shogo Okada, SI, tag emdna-V10-01-22
- G4DNAEmfietzoglouIonisationModel: removed condition for
fasterCode usage on shell selection.

26-06-2015, MK
- G4DNAIonElasticModel: modify "validated" to "activated" in
  warning message description

16-06-205, MK
- Add G4Scheduler::GetGun()

16-06-2015, MK, tag emdna-V10-01-21
- G4DNAElastic.cc : add elseif(name == ...
- G4DNAIonElasticModel: clean and fix double free

12-06-2015, MK, tag emdna-V10-01-20
- remove virtual keyword from G4IT::GetPosition()

04-06-2015, MK
- just cosmetics
- remove virtual keyword from G4IT::operator[]

26-05-2015, Robert Hatcher, tag emdna-V10-01-19
- Remove unnecessary "using namespace std" from various headers
  that causes problems w/ G4AnyMethod & G4GenericPhysicsList
  when using clang and/or vc12
- Fully qualify std::string elsewhere as needed to adjust

22-05-2015, John Allison, tag emdna-V10-01-18
- G4ITTrackHolder.cc: Replaced "G4Threading::IsWorkerThread() == false" by
  "G4Threading::IsMasterThread()".

17-05-2015, MK, tag emdna-V10-01-17
- G4DNABornIonisationModel1/2 & G4DNABornExcitationModel2: remove unused variables
- Correct sources.cmake
- Born headears: includes both model versions when proxy header is included

16-05-2015, MK, tag emdna-V10-01-16
- Add G4DNAEmfietzoglouExcitationModel
- Add G4DNAEmfietzoglouIonisationModel
- Add G4DNAUeharaScreenedRutherfordElasticModel
- Add G4DNABornIonisationModel2 (temporary)
- Add G4DNABornExcitationModel2 (temporary)

15-05-2015, MK, tag emdna-V10-01-15
- Postpone G4DNASmoluchowskiDiffusion until c++11 is adopted

14-05-2015, MK, tag emdna-V10-01-14
- G4DNASmoluchowskiDiffusion: std::sqrt -> sqrt

14-05-2015, MK, tag emdna-V10-01-13
- G4DNASmoluchowskiDiffusion: try to solve compilation error
- G4ITReaction: try to solve compilation error

12-05-2015, MK, tag emdna-V10-01-12
- G4DNASmoluchowskiDiffusion: try to solve compilation error

12-05-2015, MK, tag emdna-V10-01-11
- Add G4DNASmoluchowskiDiffusion to the build tree

11-05-2015, MK, tag emdna-V10-01-10
- G4DNABornExcitationModel:
  +Add GetPartialCrossSection
  +Code cleaning
- G4DNAMillerGreenExcitationModel:
  +Add GetPartialCrossSection
- G4DNAChemistryManager::GetValue(...) added

02-05-2015, MK
- Update G4TrackState & related classes
- G4DNABrownianTransportation:
  +Add constructor & destructor to G4BrownianAction
  +comment useless method
- G4Scheduler:
  +Add fStopTime+Watched times+PrintWhyDoYouStop method (code was existing before)
  +remove fTmpEndTime
  +Add CanICarryOn
- add G4DNASmoluchowskiDiffusion *PRELIMINARY*

18-03-2015, MK, tag emdna-V10-01-08
- Same as before, just add the missing History file

18-03-2015, MK, tag emdna-V10-01-07
- G4UserTimeStepAction::UserReactionAction : vector of products becomes a pointer
instead of a reference

12-02-2015, MK, tag emdna-V10-01-06
- G4ITReaction: Remove "gAll" introduced for testing
- G4ITModelProcessor: Remove "assert" introduced for testing
- G4ITTransportation: Remove extra parenthesis in the undef of PrepareState

11-02-2015, MK, tag emdna-V10-01-05
- Fix reproductibility of the chemistry module
- Fix the "no reaction table found" bug: G4ITReaction class created
- G4shared_ptr refers to std::shared_ptr when C++11 is activated

16-01-2015, SI, tag emdna-V10-01-04
- added Fe56 into G4DNARuddIonisationExtendedModel

14-12-2014, MK,  tag emdna-V10-01-03
- BornIonisation: correct array cleaning
- ScreenRutherfordElastic: correct retrieval of water density

13-12-2014, SI,  tag emdna-V10-01-02
- Added elastic model by H. Tran.

12-12-2014, G.Cosmo,  tag emdna-V10-01-01
- Explicitly initialise to zero TLS pointers in G4KDNode.hh and G4ITFinder.icc
  to allow for compilation on Linux/clang-3.5.

05-12-2014, G.Cosmo,  tag emdna-V10-01-00
- Corrected sources.cmake in management and molecules/management, to
  include missing files:
    G4ITTransportationManager.icc
    G4KDNode.icc
    G4KDTree.icc
    G4MoleculeFinder.hh

01-12-2014, MK,  tag emdna-V10-00-63
- Temporary fix for avoiding bad relocation of Brownian particles
It slows the computation by forcing the Brownian particles to stop at the volumes' boundaries
- Transform fStopAndAlive to fStopAndKill in G4DNABrownianTransportation
  when the particle has reached a boundary

28-11-2014, MK, tag emdna-V10-00-62
- Retag

28-11-2014, MK, tag emdna-V10-00-61
- Fix chemistry initialization in standalone
- Fix Brownian navigation
- Some fixes related to scheduler
- Rename macro commands to reflect usage of scheduler
- Enhance comments

24-11-2014, MK, tag emdna-V10-00-60
- Remove a useless but also fatal (when chemistry is not activated) exception

24-11-2014, MK, tag emdna-V10-00-59
- Enhance doxygen comments in G4DNABrownianTransportation
- Remove useless verbose
- Try to compile on all platforms
- Correct initialization of G4DNAChemistryManager
- Simplify initialization of chemistry from user applications
  Just registering constructor is enough to initialized the chemistry

24-11-2014, MK, tag emdna-V10-00-58
- G4FastList: remove all friend declarations

22-11-2014, MK, tag emdna-V10-00-57
- Another attempt to compile G4FastList on all platforms

22-11-2014, MK, tag emdna-V10-00-56
- Attempt to compile G4FastList on all platforms

21-11-2014, MK, tag emdna-V10-00-55
- Attempt to compile G4FastList with clang

21-11-2014, MK, tag emdna-V10-00-54
- Put back G4DNABrownianTransportation::fUseMaximumTimeBeforeReachingBoundary
to true as long as the small distances to boundaries sent back by the navigator
are not understood
- Update G4ITNavigator2 to the G4Navigator of John

21-11-2014, MK, tag emdna-V10-00-53
- Attempt to solve the 'No track found' bug by using G4FastList and
G4ManyFastLists - A 'list watcher' is added
- G4DNABrownianTransportation::fUseMaximumTimeBeforeReachingBoundary
is false by default --> uses the random time computation for crossing
boundaries

20-11-2014, SI, tag emdna-V10-00-52
- Improved error message for missing data in PW elastic model

08-11-2014, MK, tag emdna-V10-00-51
- Add an exception in G4MoleculeTable::GetModel/GetDefinition
when the asked item is not found

03-11-2014 MK, tag emdna-V10-00-50
- correct track creation by G4MoleculeGunMessenger

03-11-2014 MK, tag emdna-V10-00-49
- Remove useless classes
- Correct a bug in G4MoleculeGun

28-10-2014  PA, tag emdna-V10-00-48
- correct compilation warnings

28-10-2014  PA, tag emdna-V10-00-47
- correct compilation warnings

28-10-2014  PA, tag emdna-V10-00-46
- correction in sources.cmake

28-10-2014  PA, tag emdna-V10-00-45
- retag to add LEPTS

28-10-2014  PA, tag emdna-V10-00-44
- add LEPTS

25-10-2014  MK, tag emdna-V10-00-43
- remove useless G4VITScheduler

25-10-2014  MK, tag emdna-V10-00-42
- correct warnings

24-10-2014  MK, tag emdna-V10-00-41
- G4ITTimeStepper-->G4VScheduler
- G4ITStepManager-->G4ITScheduler
- G4ITStepManager-->G4ITSchedulerMessenger
- G4AllITManager & G4ITManager deleted
- G4ITFinder added
- G4VITTrackHolder added
- G4ITTrackHolder implemented
- code cleaned + useless classes removed

24-10-2014  MK, tag emdna-V10-00-40
- G4ITStepManager: remove verbose at closure time

21-10-2014  MK, tag emdna-V10-00-39
- try to solve crash at closure time

21-10-2014  MK, tag emdna-V10-00-38
- remove G4MolecularConfiguration from the manager's
  table when deleted
- update disclaimer

17-10-2014  MK, tag emdna-V10-00-37
- clean code
- G4ITStepManager: one can ask why simulation stops
- remove useless verbose

17-10-2014  MK, tag emdna-V10-00-36
- Call G4ITTimeStepper in ChemMan::InitMaster
- Remove inappropriate method in G4ITTrackHolder
- G4DNASecondOrderReaction uses G4ITTimeStepper::GetTimeStep

10-10-2014  MK, tag emdna-V10-00-35
      Avoid use of std::map at the application level in TimeStepAction

07-10-2014  MK, tag emdna-V10-00-34
      G4MolecularReactionTable : translate from french to english
      G4DNAChemistryManager : remove usage of G4ITStepManager
      G4ITTimeStepper : use temporally as interface to G4ITStepManager

07-10-2014  MK, tag emdna-V10-00-33
      Initialize G4ITStepManager in G4DNAChemistryManager

17-09-2014  MK, tag emdna-V10-00-32
            Add G4ITStepManager + messenger
      Tag before architecture change

12-07-2014  SI, tag emdna-V10-00-31
            Removed obsolete class for electron excitation

27-06-2014  GCosmo, tag emdna-V10-00-30
      - Get rid of obsolete 'register' keyword in code.

05-06-2014  SI, tag emdna-V10-00-29
      - added include of <deque> in G4DNAMillerGreenExcitationModel.hh
            - updated G4DNAIonisation and G4DNARuddIonisationExtendModel for
              G4GenericIon usage
            - requires G4EMLOW6.39

04-06-2014  MK, tag emdna-V10-00-28
      Remove directory management/include/impl
      Prepare for release

04-06-2014  MK, tag emdna-V10-00-27
            Resolve several defects pointed out by coverity
            Add interface G4ITTimeStepper
            Avoid usage of molecule iterators as pointers

03-06-2014  SI, tag emdna-V10-00-26
                Switched to DNAion for Si in G4DNAGenericIonsManager

28-05-2014  VI, SI tag emdna-V10-00-25
                Added G4DNABornAngle and G4DNARuddAngle generators;
                Ionisation models switch to use angular generator
                interface

12.05.2014  MK, tag emdna-V10-00-24
      Try to remove warnings 4

12.05.2014  MK, tag emdna-V10-00-23
      Try to remove warnings 3

12.05.2014  MK, tag emdna-V10-00-22
      Try to remove warnings 2

12.05.2014  MK, tag emdna-V10-00-21
      Try to remove warnings

09.05.2014  S. Incerti, tag emdna-V10-00-20
            Added Si to G4DNARuddIonisationExtendedModel
            on behalf of Z. Francis
            G4EMLOW6.38 needed

07-04-2014  SI  tag emdna-V10-00-19
      Changed faster method interpolation in
      G4DNABornIonisationModel

04-04-2014  G.Cosmo        tag emdna-V10-00-18
      Removed problematic #define in G4TrackState.hh causing errors on
      Windows for overriding of system keyword 'Handle'...
      Corrected order of inclusion of some headers and use of <>/"".

04-04-2014  MK          tag emdna-V10-00-17
      Try to solve warnings when G4VERBOSE is off

02-04-2014  MK                  tag emdna-V10-00-16
      G4ITSafetyHelper: Force usage of G4PathFinder for now

02-04-2014  MK                  tag emdna-V10-00-15
      Add preprocessor flags on files in dev to prevent build errors with gmake

02-04-2014  MK                  tag emdna-V10-00-14
      - on mac: template parameter declared as a friend class is supported only with c++11 which causes a warning
      -> this part is withdrawn for now

02-04-2014  MK                  tag emdna-V10-00-13
      - version 2 : try fixing the build error on mac

02-04-2014  MK                  tag emdna-V10-00-12
      - version 1 : try to fix build errors and warnings on mac

02-04-2014  MK                  tag emdna-V10-00-11
      - try to fix build error on windows platform - 3
      (G4MemStat & G4MolecularConfiguration)

02-04-2014  MK                  tag emdna-V10-00-10
      - try to fix build error on windows platform - 2
      (problem coming from having as a friend class a template argument)

02-04-2014  MK                  tag emdna-V10-00-09
      - try to fix build error on windows platform

01-04-2014  MK                  tag emdna-V10-00-08
      - G4DNAChemistryManager.cc: remove a G4cout in destructor causing a crash in test60
      - G4TrackState.hh: change 'typename' to 'class' in template argument of typewrapper

01-04-2014  MK                  tag emdna-V10-00-07
      - reset CMakeLists.txt

01-04-2014  MK                  tag emdna-V10-00-06
      - update chemistry

01-04-2014  SI       tag emdna-V10-00-05
      - Modified calculation of secondary kinetic for fast code

27-03-2014  G.Cosmo     tag emdna-V10-00-04
      - Corrected inclusion order of headers and forward declations
      in G4MolecularConfiguration.
      - Corrected typo in DLL import flag in G4DNAWaterDissociationDisplacer.hh.

25-03-2014  VS, SI     tag emdna-V10-00-03
      - Added several clear() to vectors for MT

17-03-2014  SI     tag emdna-V10-00-02
      - Modified G4DNAChampionElasticModel.cc to read
              high precision diff. cumulated cross section
              to be used with G4EMLOW6.36

12-12-2013  M.K     tag emdna-V10-00-01
      - G4DNAMolecularMaterial: Remove unused variable

12-12-2013  M.K     tag emdna-V10-00-00
      - G4DNAMolecularMaterial is modified to prevent segmentation fault in case
      a model is not created at initialisation time

21-11-2013  V.I.         tag emdna-V09-06-22
            - G4ITStepProcessor2 - removed obsolete unused header

01-11-2013  M.K          tag emdna-V09-06-21
            - Correct incorrect singleton check introduced in previous tag

01-11-2013  M.K          tag emdna-V09-06-20
            - Prepare for release bis

01-11-2013  M.K     tag emdna-V09-06-19
      - Prepare for release

10-10-2013  M.K.         tag emdna-V09-06-18
            - Remove G4VERBOSE testing in G4DNABrownianTransportation::BuildPhysicsTable

06-10-2013  M.K.         tag emdna-V09-06-17
            - Same as before once again

03-10-2013  M.K.         tag emdna-V09-06-16
            - Same as before

03-10-2013  M.K.   tag emdna-V09-06-15
      - Improve MT compatibility
      - Enhance G4DNAChemistryManager to be the main interface used
      by the user - stage 1

14-09-2013  M.Asai       tag emdna-V09-06-14
            G4VProcess::SubtractNumberOfInteractionLengthLeft() is no longer
            a virtual methood since v9.6 and thus it must not be overwritten
            with virtual keyword in G4VITProcess.

12-09-2013  M.K.         tag emdna-V09-06-13
      Correction of an inadvertent modification introduced in previous tag

12-09-2013  M.K.         tag emdna-V09-06-12
      Correct bound checks in G4ITManager.icc

16-08-2013  S.I.         tag emdna-V09-06-11
      Adapted G4DNAGenericIonsManager to use of G4DNAIons

16-08-2013  S.I.         tag emdna-V09-06-10
      Added G4DNAIons

25-06-2013  M.K.         tag emdna-V09-06-09
      G4MoleculeID: Rectify initialization
      G4MoleculeCounter: Automatic switch between unique_ptr or
      auto_ptr according to c++ std version

11-06-2013  G.Cosmo         tag emdna-V09-06-08
            Corrected static initialisation in G4VMolecularDecayDisplacer
            for problem accidentally introduced in previous tag.

11-06-2013  G.Cosmo         tag emdna-V09-06-07
            Cleanup from automatic changes for MT in classes G4Molecule,
            G4VMolecularDecayDisplacer, G4IT, G4ITModelProcessor, G4VITProcess,
            G4ITTransportation, G4DNAChemistryManager, and porting MT
            compilation on Windows.

06-06-2013  S.I.            tag emdna-V09-06-06
            Updated G4DNABornIonisationModel for speedup option
      Requires G4EMLOW version 6.33

25-05-2013  M.K.            tag emdna-V09-06-05
            *Fix warning compilation in G4KDMap for specific gcc version

24-05-2013  M.K.            tag emdna-V09-06-04
            * Track state class updated to fix compilation errors on mac
      but still not in usage

23-05-2013  M.K.            tag emdna-V09-06-03
            * G4KDMap : try fix error on std:ceil call on windows

23-V09-06-03-05-2013  M.K.            tag emdna-V09-06-02
            * G4KDMap : used deque::iterator


22-05-2013  M.K.            tag emdna-V09-06-01
      * Correct warning from G4KDTree.cc
      * G4KDMap : pop out elements from map

22-05-2013  M.K.      tag emdna-V09-06-00
      * !!! MT !!!! Promoted to thread-global storage :
    --> G4DNAGenericIonManager
    --> G4DNAMolecularMaterial
    --> G4DNAMolecularReactionTable
      * G4KDMap added
      * G4DNASmoluchowskiReactionModel : exception description enhanced
      * G4ITTrackingInteractivity : "Initialize()" method added for simplify
          initialization of daughter classes
      * G4DNAChemistryManager : AddEmptyLineInOuputFile method added

12-11-2012  M.K             tag emdna-V09-05-35
            Remove unnecessary abort() and exit(-1) previously introduced to avoid
            coverity warnings (rev 64993)

06-11-2012  G.Cosmo             tag emdna-V09-05-34
            Minor fixes for porting on AIX; mainly on use of const signature
            for objects in maps...

04-11-2012  M.K.    tag emdna-V09-05-33
            G4IT : transform G4ITTrackingInformation pointer to object (rev 64715)
            G4ITTrackingManager : get rid of attribute "fVerboseLevel" (rev 64716)
            G4ITStepProcessor.cc : correct coverity warnings in copy constructor (not used) (rev 64717)
            G4ITTransportationManager.hh : put default constructor as private (rev 64718)
            G4VITModel.cc : rename variables in copy constructor and assignment operator (------)
            G4MolecularDecayChannel.cc : adapt copy constructor to avoid coverity warnings (rev 64719)
            G4MoleculeCounter.cc : get rid of duplicated layout (------)
            G4DNAMolecularStepByStepModel : add an exception in the assignment operator (rev 64720)
            G4ITTrackingManager.hh : remove remainders of fVerboseLevel (rev 64722)
            Ionisation Models (Born, Rudd, RuddExtended) :
                set fAtomDeexcitation = 0 (rev 64723)
                add "else" before "if" statements and
                    add variables to avoid many checks on particleDefinition. (rev 64724)
            dna.files : update files (rev 64725)

03-11-2012  S.I.    tag emdna-V09-05-32
            Switched to usage of SetEmModel and EmModel in all dna/processes
      classes

24-10-2012  M.K                 tag emdna-V09-05-31
            G4ITNavigator is updated to new interface of ReplicaNavigation::ComputeStep
            (previously commented)

23-10-2012  M.K                 tag emdna-V09-05-30
            Add exception in G4DNASecondOrderReaction
            Add carriage return in G4DNASmoluchowskiReaction cc and hh

18-10-2012  M.K                 tag emdna-V09-05-29
            Previous tag did not include history changes

18-10-2012  M.K                 tag emdna-V09-05-28
            Remove warning

17-10-2012  M.K                 tag emdna-V09-05-27
            Correct a typo from previous tag

17-10-2012  M.K                 tag emdna-V09-05-26
            Correct information in headers
            Rename G4DNADiffustionControlledModel to G4DNASmoluchowskiReactionModel
            G4ITNavigator updated to new interface of ReplicaNavigation::ComputeStep.

01-10-2012  SI, P.Pater         tag emdna-V09-05-25
            Force kinetic energy to zero for real killings in models.

12-07-2012  G.Cosmo             tag emdna-V09-05-24
            Explicitly use inclusion of headers for system of units and physical
            constants, in plan to remove implicit inclusion from globals.hh.

11.07.2012  M.K                 tag emdna-V09-05-23
      Correct warnings introduce in previous tag

11.07.2012  M.K                 tag emdna-V09-05-22
            Tag to be proposed

25.06.2012  M.K      tag emdna-V09-05-21
            Fix semantic warning related to forward declaration of G4ITNavigator_Lock
      Modify molecule's name

21.06.2012  S.I      tag emdna-V09-05-20
            Update of electron elastic scattering low limit

09.06.2012  M.K      tag emdna-V09-05-19
            Fixed shadowing

04.06.2012  M.K      tag emdna-V09-05-18
            Add G4ITTrackingInteractivity + correct coverity warnings

24.05.2012  M.K      tag emdna-V09-05-17
            Remove unnecessary call of pow in G4DNASecondOrderReaction

23.05.2012  M.K      tag emdna-V09-05-16
            Add initialisation of G4ITTrackHolder in copy constructor of
            G4ITStepManager
            Prevent call of destructor of G4ITStepManager and
            G4DNAChemistryManager

23.05.2012  M.K      tag emdna-V09-05-15
            Display warning (only once) from G4DNAMolecularMaterial
            when one of its methods is called using a material that is
            not defined as a molecule

21.05.2012  M.K      tag emdna-V09-05-14
            Modify G4DNAMolecularMaterial
            Modify G4DNADamages
            Add G4DNASecondOrderReaction prototype
            Modify all models to use G4DNAMolecularMaterial

14.05.2012  M.K      tag emdna-V09-05-13
            Add G4DNAMolecularMaterial
            Add G4DNADamages

10.05.2012  M.K      tag emdna-V09-05-12
            Add the possibility of calling G4ITStepManager::EndTracking()
            from UserReactionAction::EndProcessing()

08.05.2012  M.K      tag emdna-V09-05-11
            Use inverseErf from CLHEP

03.05.2012  M.K      tag emdna-V09-05-10
            Add erfc function for windows compilator (VC++)

03.05.2012  M.K      tag emdna-V09-05-09
            Add an exception in molecular decay, in case no decay channel was proposed in input

03.05.2012  M.K      tag emdna-V09-05-08
            Add products of dissociative attachments (as a molecular decay)
            Add new methods in G4ChemistryManager :
            - PushMolecule
            - PushMoleculeAtParentTimeAndPlace
            Reset() at the end of G4ITStepManager::Process()

30.03.2012  M.K      tag emdna-V09-05-07
            Same as emdna-V09-05-06

30.03.2012  M.K      tag emdna-V09-05-06
            1) Add separate navigator for synchronous tracking
            New classes :
            * G4ITTransportationManager
            * G4ITNavigator (just a small change from G4Navigator)
            2) A messenger for G4ITStepManager :
            * G4ITSteppingMessenger
            3) Solve bugs with normal and brownian ITTransportation

14.03.2012  M.K      tag emdna-V09-05-05
            *   int G4VITProcess::fProcessID
                int G4VITProcess::fNbProcess
            -> become size_t + related changes
            *   when a poststep process proposes an IL < 0
            => considered as a time, and transportation::computestep
            is used

14.03.2012  M.K      tag emdna-V09-05-04
            Fix compilation warning

14.03.2012  M.K      tag emdna-V09-05-03
      Improve the management of information in G4ITStepProcessor
      Fix coverity warnings

18.01.2012  S.I.                tag emdna-V09-05-02
            Removal of G4Water* classes in utils

11.01.2012  M.K                 tag emdna-V09-05-01
            Bug fix in G4DNAChemistryManager::CreateSolvatedElectron
            concerning the final position of the solvated electron
            using Sanche thermalization

16.12.2011  S.I                 tag emdna-V09-05-00
            Updated source of cross section file for elastic scattering

25.11.2011  M.K                 tag emdna-V09-04-52
            Correct a typo in previous tag

25.11.2011  M.K                 tag emdna-V09-04-51
            Place the reaction products at the reaction site
            rather than center of mass in DNAMolecularReaction

21.11.2011  M.K                 tag emdna-V09-04-50
            Change the name of macros in AddClone_def.hh to
            avoid conflicts with ROOT.
            Add short class description (comments added in the new files)
            in JavaDoc style for doxygen use.

21.11.2011  M.K                 tag emdna-V09-04-49
            Correct a wrong condition in the step manager
            Avoid the call of Green brownian bridge when
            the time step is equal to zero (bug)
            Give priority to G4Processes over reaction processes
            when the time steps returned by the time stepper
            and the processes are equal
            Improve verbose

21.11.2011  M.K                 tag emdna-V09-04-48
            Fix incoherent management of time and secondaries in management/
            Avoid memory leak related to the management of ITs
            Correct verbose in new models & process

18.11.2011  M.K                 tag emdna-V09-04-47
            Fix uninitialized boolean variable (fWriteFile)
      in G4DNAChemistryManager

18.11.2011  M.K                 tag emdna-V09-04-46
            Fix compilation error in G4TrackList on macOs
            Clean G4DNAMolecularDecayDisplacer from comments
            Correct a typo in G4DNAChemistryManager (H20 -> H2O)

15.11.2011  G.Cosmo             tag emdna-V09-04-45
            Fixes to initialisation of static data in G4VMolecularDecayDisplacer
            and G4DNAMolecularDecayDisplacer, to allow generation of DLLs on
            Windows.
            Fixed compilation warning on icc compiler in
            G4MolecularDecayTable.cc

10.11.2011  M.K.                tag emdna-V09-04-44
            Fix a bug in G4DNATransformElectronModel

10.11.2011  M.K.                tag emdna-V09-04-43
            Clean classes for release
            Add comment into source
            Change name of some methods
            Transform two independent singleton pointers to auto_ptr
            in order to prevent the user from deleting those classes
            (ITStepMan + DNAChemMan)

10.11.2011  M.K.                tag emdna-V09-04-42
            For safety (at the time of static members destruction)
            change fgManager in MolConf into a pointer delete by
            the chemistryManager.

09.11.2011  M.K.                tag emdna-V09-04-41
            Add friend class G4TrackList_Boundary;
            in G4TrackListNode.
            Simplify and improve the use of dnaChemMan
            Add more convenient methods in userReactionAction

08.11.2011  M.K.                tag emdna-V09-04-40
            Fix coverity warnings

07.11.2011  M.K.                tag emdna-V09-04-39
            Add correct types/sub-types for DNAElectronSolvatation
            DNAMolecularDecay, DNABrownianTransportation, ITTransp
            Add the possibility to link a decay time to a given
            electronic configuration while declaring the decay
            scheme through : G4MoleculeDef::AddeConfToExcitedState
            Clean classes for release

03.11.2011  M.K.                tag emdna-V09-04-38
            Add dna libs in sources.cmake

03.11.2011  M.K.                tag emdna-V09-04-37
            Add G4ITStepManager fVerbose
      Add dna includes in sources.cmake

01.11.2011  M.K.                tag emdna-V09-04-36
            Remove warnings on G4ITModelProcessor,
            G4ITTransportation, G4TrackList on Windows

01.11.2011  G.Cosmo
            Renamed export flags for DLL builds to G4EM_ALLOC_EXPORT and
            updated GNUMakefiles to have it properly defined.

31.10.2011  M.K      tag emdna-V09-04-35
            Remove obsolete G4Exception
      Remove "friend class G4KDTree" in G4KDNode
      Remove G4VITProcessor and all relatives
      Fix windows compilation errors & warnings

28.10.2011  M.K      tag emdna-V09-04-34
            Remove __PRETTY_FUNCTION__ introduce __Exception_Origin__
            Plus remove obsolete G4Exception

28.10.2011  M.K      tag emdna-V09-04-33
            Displace G4DNAChemistryManager, G4DNAMolecularReactionTable,
            G4VDNAReactionModel to utils
            Displace G4DNAMoleculeEncouterStepper, G4DNAMoleculeReaction
            to models

27.10.2011  M.K      tag emdna-V09-04-32
      Fix BornIonisation + the two RuddIoni
      coverity errors.

26.10.2011  M.K      tag emdna-V09-04-31
      change std::shared_ptr to CLHEP::shared_ptr

26.10.2011  M.K.    tag emdna-V09-04-30
      Memory leak fixes
      G4MolecularConfiguration::fManager added

26.10.2011  M.K.    tag emdna-V09-04-29
      G4DNAIonisation : add models for C/N/O/Fe
      Add electron solvatation process & models
      Add chemical processes

21.10.2011  M.K.    tag emdna-V09-04-28
      Same as emdna-V09-04-27 including models/ & processes/ from
      emdna-V09-04-24

21.10.2011  M.K.    tag emdna-V09-04-27
      CMake fixes from emdna-V09-04-24

21.10.2011  M.K.    tag emdna-V09-04-26
      Bug fixes and new dev from the previous tag

21.10.2011  S. Incerti    tag emdna-V09-04-25
      Extension of ionisation by HZE proposed by Z. Francis

20.10.2011  M.K.    tag emdna-V09-04-24
      Bug fixes and new dev from the previous tag

07.10.2011  M.K.    tag emdna-V09-04-23
      First tag with "molecules" files

07.10.2011  M.K.    tag emdna-V09-04-22
      Add molecules+management directory
      First tag with "management" files

09.09.2011  G.Folger            tag emdna-V09-04-21
            utils/sources.cmake: remove reference to non-existant
       G4DNAMoleculeManager.cc

05.09.2011  A. M. M. K., S. I., tag emdna-V09-04-20
            Updated sources.make and CMakeLists.txt

30.08.2011  A. M. M. K., S. I., tag emdna-V09-04-19
            Reorganized whole architecture.

24.08.2011  A. Mantero, tag emdna-V09-04-18
            Fixed a bug regarding energy deposition (bindingEnergy=0
            if no deexcitation)

22.08.2011  S. Incerti, tag emdna-V09-04-17
            Changed code (em0006) numbering for G4Exception

19.08.2011  S. Incerti, tag emdna-V09-04-16
            Switched to new G4Exception syntax

04.08.2011  A. Mantero, tag emdna-V09-04-15
            Added enhanced debug information in ionisation models

02.08.2011  S. Incerti,  tag emdna-V09-04-14
      Removed wrong pointer delete in G4DNARuddIonisation*

28.07.2011  S. Incerti,  tag emdna-V09-04-13
      Removed obsolete information.

28.07.2011  S. Incerti,  tag emdna-V09-04-12
      Updated deexcitation initialization in ionization models.

21.07.2011  A. Mantero,  tag emdna-V09-04-11
      Coverity warnings removal

11.07.2011  S.Incerti,  tag emdna-V09-04-10
      - Increased energy limits for
      G4DNAChargeIncrease
      G4DNAChargeDecrease
      G4DNADingfelderChargeIncreaseModel
      G4DNADingflederChargeDecreaseModel
      in collaboration with Ziad F.
      - This tag includes Alfonso's upgrade
      of ionisation classes for Auger e-

16.05.2011  A.Mantero,  tag emdna-V09-04-09
      Further compilation warnings removal

16.05.2011  A.Mantero,  tag emdna-V09-04-08
      Compilation warnings removal

12.05.2011  A.Mantero,  tag emdna-V09-04-07
      added Atomic Deexcitation to Ionisation Models

04.05.2011  S. Incerti, tag emdna-V09-04-06
            Fixed compilation error on icc in
      G4DNADingfelderChargeIncreaseModel.cc.

03.05.2011  S. Incerti, tag emdna-V09-04-05
            Changed process sub-type numbering.

30.04.2011  S. Incerti, tag emdna-V09-04-04
            Fixed coverity warnings.

05.04.2011  S. Incerti, tag emdna-V09-04-03
            Updated all models for handling of variable density.

17.03.2011  S. Incerti, tag emdna-V09-04-02
            Addition of dependencies to configuration files.

17.03.2011  S. Incerti, tag emdna-V09-04-01
            Addition of all files.

13.02.2011  S. Incerti, tag emdna-V09-04-00
            Creation of dna sub-package in electromagnetic category.
