Diffusion SpecMiCP / ReactMiCP (cython) History

History
cython673c19a9c45f681c0a1a434…

Mar 17 2015

Sligthly imporve the INSTALL file
673c19a9c45f
·fabien on Mar 17 2015, 15:49.
Update the carbonation example to use the new runner class for the reactive…
440944f1045f
·fabien on Mar 17 2015, 15:49.
add a convenience function in specmicp adimensional solver to solve a system
f952caf0c318
·fabien on Mar 17 2015, 15:46.
Add a runner class for the reactive transport solver
a1bb082f067b
·fabien on Mar 17 2015, 15:45.
In reactive transpor solver, return a reference to the timer instead of a copy
c9a42d8c3f55
·fabien on Mar 17 2015, 15:44.
Add the member reset_main_variables in reactmicp::solver::VariablesBase
e5adba3b79c0
·fabien on Mar 17 2015, 15:42.
import reactive transport timestepper
08dbc2f3e912
·fabien on Mar 17 2015, 15:38.
add more access to the starting and ending point of a timer, aslo correct const…
719661d3e345
·fabien on Mar 17 2015, 15:34.
Add and improve functions in the io library
941766fc8a67
·fabien on Mar 17 2015, 15:33.

Mar 13 2015

Update reactive transport examples
70851d283152
·fabien on Mar 13 2015, 04:26.
Update headers in the src/specmicp/adimensional files
e94e903fe893
·fabien on Mar 13 2015, 04:22.
Disable the descent condition in the AdimensionalSystemSolver.
8e74befa1920
·fabien on Mar 13 2015, 04:21.
Add a return value (boolean) in the AdimensionalSystemPCFM::check_validity
5e764b31a7c6
·fabien on Mar 13 2015, 04:18.
Remove the check for Total concentration too small in the reactive transport…
2ab1f72f9891
·fabien on Mar 13 2015, 04:14.
Add member functions in MiCPSolverOptions to help set the options
746e385268f2
·fabien on Mar 13 2015, 04:13.
Bypass the descent condition if the factor is negative in the MiCPsolver
136d82ff2ccb
·fabien on Mar 13 2015, 04:11.
Remove the cut-off for including a component in the total concentration; the…
d16ed536054f
·fabien on Mar 13 2015, 02:55.
Add a threshold for including the component in the computation in…
f5f97272d811
·fabien on Mar 13 2015, 02:53.
update specmicp AdimensionalSystem tests
bf325999f473
·fabien on Mar 13 2015, 02:37.

Mar 12 2015

upate/correct carbonation example
45037ebada12
·fabien on Mar 12 2015, 13:33.

Mar 6 2015

Update the leaching example
0ecb38c075e0
·fabien on Mar 6 2015, 14:44.
Update the carbonation example
db3acd9b0ce6
·fabien on Mar 6 2015, 14:44.
add member function is SaturatedVariables to access main variables directly
331aa30110ba
·fabien on Mar 6 2015, 14:42.

Mar 4 2015

Add a saturated carbonation example
532031755403
·fabien on Mar 4 2015, 19:52.
Minor enhancements in the Timestepper
f26e0452c13c
·fabien on Mar 4 2015, 19:47.
correct generic 1D mesh
64fa3c732f53
·fabien on Mar 4 2015, 19:44.
refectoring of MoMas benchmark
d003a8e04654
·fabien on Mar 4 2015, 05:12.
Add potassium to the cemdata database
9b6952672e10
·fabien on Mar 4 2015, 03:26.

Mar 2 2015

Update the momas benchmark
91a8a4602873
·fabien on Mar 2 2015, 21:36.
Add new ReactiveTransportSolverReturnCode in the IO library
d4f8837fe33a
·fabien on Mar 2 2015, 21:30.
improve detection of problems in the ReactiveTransportSolver
5acd30632a6a
·fabien on Mar 2 2015, 21:29.
Change the message for ErrorMinimized in MiCPSolver
9873b241a642
·fabien on Mar 2 2015, 21:25.
Add a absolute tolerance test for the residuals in the parabolic driver
aa631431a161
·fabien on Mar 2 2015, 21:22.

Feb 28 2015

update examples
414ceaa6732a
·fabien on Feb 28 2015, 23:39.
add more output function
f2a40262416b
·fabien on Feb 28 2015, 23:37.
Add more information about time in ReactiveTransportPerformance
abe3dbcbe88d
·fabien on Feb 28 2015, 23:36.
Add a member in SaturatedReact::Variables to reset the main variables
67e8b2d9680e
·fabien on Feb 28 2015, 23:33.
Randomize the restarting guess in AdimensionalSystem.
9cf41f6dfb45
·fabien on Feb 28 2015, 23:31.

Feb 27 2015

update Cmakelist, better treatments of compilation flags
a7efb1b1706d
·fabien on Feb 27 2015, 18:16.
Add a simple io library to output data
bf7a37fc71e9
·fabien on Feb 27 2015, 17:36.
Use the new timer class in the reactive transport solver
39c9426c395d
·fabien on Feb 27 2015, 17:34.
Add a simple timer class
10ab4cafbaa0
·fabien on Feb 27 2015, 17:32.
Add a validity check (just print warning and or error for the PCFM method…
bddaf0d936da
·fabien on Feb 27 2015, 16:02.

Feb 26 2015

When possible only factorize the matrix, without analysing the pattern again…
38a97fbd2242
·fabien on Feb 26 2015, 16:21.
Separate the analysePattern and factorization part of the sparse matrix…
53237ab864d3
·fabien on Feb 26 2015, 16:10.
save the ndf in the transport program and set inline
f7c3cd7d6b9b
·fabien on Feb 26 2015, 15:21.
Minor update in the Momas benchmark database
ef1c9b4db70b
·fabien on Feb 26 2015, 04:19.
Add a generic 1D mesh, issue #13
339c6d31875f
·fabien on Feb 26 2015, 04:09.
add a timer in the reactive transport solver to obtain more information about…
9417b8aab783
·fabien on Feb 26 2015, 04:06.

Feb 25 2015

Correct the AdimensionalSystem jacobian, fixes issue #29
0b1682bb59f9
·fabien on Feb 25 2015, 23:46.
Add a member to update the parameter in ExponentialMovingAverage:
5cde60cd6d35
·fabien on Feb 25 2015, 22:11.
add a variadic template for custom initialization of the opn class in Option…
327e2020bb5c
·fabien on Feb 25 2015, 22:10.
update momas example:
67ebd8dda96d
·fabien on Feb 25 2015, 22:07.
obtain chemistry error in reactive transport solver, fixes issue #16
7ea49ff12a15
·fabien on Feb 25 2015, 22:07.
add an adaptative timestepper algorithm
e403516d3274
·fabien on Feb 25 2015, 22:05.
update momas benchmark
4acc10bf1dca
·fabien on Feb 25 2015, 17:44.
Correct the surface model, so the activity are defined with respect to the…
ac9b4eb735f4
·fabien on Feb 25 2015, 14:53.

Feb 24 2015

Correct porosity computation, minerals offset
a4055a6a6783
·fabien on Feb 24 2015, 16:07.

Feb 23 2015

Update examples : Leaching and MoMas speciation computation
998871ce7287
·branch: reactivetransport
·fabien on Feb 23 2015, 20:17.
Use the immobile concentration instead of the solid concentration, include the…
602cfb4f2886
·fabien on Feb 23 2015, 20:17.
Add an example for the reactive transport solver : solve the MoMas reactive…
f0c4c3073b56
·fabien on Feb 23 2015, 20:17.
Add the possibility to use a different constraints for each node
6a53d7d1a970
·fabien on Feb 23 2015, 20:17.
Do not compute speciation for a component if the total concentration is <1e-10
7c8016b56303
·fabien on Feb 23 2015, 20:17.
Solve the advection problem with the upstream scheme
912b33a4f6ec
·fabien on Feb 23 2015, 20:17.
Add the possibility to add slave nodes to the problem in saturated_react. Slave…
3013f5ef096c
·fabien on Feb 23 2015, 20:17.
Prepare the saturated_react system to solve advection problem
8c6fd9361771
·fabien on Feb 23 2015, 20:17.
Initialise the reactive transport solver Preformance struct
a162fe6f75cd
·fabien on Feb 23 2015, 20:17.
add an error message when linesearch cannot find a step bigger than the minimum…
6773a29706c7
·fabien on Feb 23 2015, 20:17.
Improve AdimensionalSystemSolver, initialisation of pcfm solver, debug messages…
d76c3f21bd38
·fabien on Feb 23 2015, 20:17.
Correct jacobian computation (both analytical and finite difference) in…
8b5357988ba5
·fabien on Feb 23 2015, 20:17.
correct tests for AdimensionalSystem &co, add test for the PCFM method
aa478c67960b
·fabien on Feb 23 2015, 04:21.
Improve initialisation of surface model in AdimensionalSystemConstraints
d39cf3d5d38a
·fabien on Feb 23 2015, 04:18.
AdimensionalSystemSolver variable initalization : change…
59f0bfff78d5
·fabien on Feb 23 2015, 04:13.
documentation fixes for AdimensionalSystemNumbering
69652eb35705
·fabien on Feb 23 2015, 04:10.
Add a function in AdimensionalSystem that return the surface sorption model
4338212826c9
·fabien on Feb 23 2015, 04:09.

Feb 22 2015

Add a memebr to the meshes to obtain the position of a node
fc5372845077
·fabien on Feb 22 2015, 22:27.
Add two functions in DatabaseSelector : - Remove all minerals in the…
dd2b91d3795d
·fabien on Feb 22 2015, 22:18.

Feb 17 2015

add relevant citations in the doxygen citation.bib file
5428e191095b
·fabien on Feb 17 2015, 04:53.
add the pcfm methods in the CMakeList.txt file
7ce05df64442
·fabien on Feb 17 2015, 04:51.
include the pcfm method to the AdimensionalSystemSolver
2d49c2d3302a
·fabien on Feb 17 2015, 04:45.
Add AdimensionalSystemPCFM, a class to precondition an aqeous solver using the…
c7608a0ce239
·fabien on Feb 17 2015, 04:44.
Documentation for AdimensionalSystem
8ecff9b7f967
·fabien on Feb 17 2015, 04:42.

Feb 16 2015

add a check in database reader to ensure the the number of sites occupied by a…
5546ccd49e01
·fabien on Feb 16 2015, 18:28.
add numbering of secodnary species and activity coefficients in…
08d31233017d
·fabien on Feb 16 2015, 16:10.
Add functions for custom initialisation of the main variables
2e391aab5671
·fabien on Feb 16 2015, 15:57.
reuse already defined function to compute the total solid concentration of a…
78836305e4b0
·fabien on Feb 16 2015, 15:56.
Use the new AdimensionalSystemNumbering Base clase in the…
680ccde7e3f4
·fabien on Feb 16 2015, 15:52.
externalize the dof numberign of the AdimensionalSystem, so it can be used by…
31d88c30dde8
·fabien on Feb 16 2015, 15:46.
The main variable for the free surface concentration is now a the log_10 of the…
5e7f42ca25c3
·fabien on Feb 16 2015, 15:18.
Modify debug information messages so they also give the expected value
422798ba5085
·fabien on Feb 16 2015, 15:16.

Feb 13 2015

Update test and examples of AdimensionalSystem to agree with commit 987ce30
60c8038a6ab2
·fabien on Feb 13 2015, 16:20.
Modify sorped species calculation, add a specific equation. Free sorption sites…
987ce3089fb7
·fabien on Feb 13 2015, 16:18.
update MoMas benchmark database to agree with commit a8c4203
e19767784417
·fabien on Feb 13 2015, 16:14.
Free sorption sites is no longer a component
a8c4203fea6b
·fabien on Feb 13 2015, 16:13.

Feb 11 2015

add some simple tests for AdimKinetics, will add more in the future
9a4089e18a62
·branch: kinetics
·fabien on Feb 11 2015, 15:01.
add a AdimensionalSolver examples / with kinetics
8c94dee2ed89
·fabien on Feb 11 2015, 15:00.
Add the database for the MoMas benchmark, maybe use for other test too
965036a9c569
·fabien on Feb 11 2015, 14:56.
No Ca/Al/SO2 at the boundary, seems to work much better
5b397acac2a4
·fabien on Feb 11 2015, 14:50.
reduce maximum step lenght in adim tests/to match others, remove a cycling…
f683d9d25c24
·fabien on Feb 11 2015, 14:39.
improve AdimKinetic(Euler)Solver, choose DormandPrince as the ODE integrator
26182c883bf1
·fabien on Feb 11 2015, 14:37.

Historycython673c19a9c45f681c0a1a434…

Mar 17 2015

Mar 13 2015

Mar 12 2015

Mar 6 2015

Mar 4 2015

Mar 2 2015

Feb 28 2015

Feb 27 2015

Feb 26 2015

Feb 25 2015

Feb 24 2015

Feb 23 2015

Feb 22 2015

Feb 17 2015

Feb 16 2015

Feb 13 2015

Feb 11 2015

History
cython673c19a9c45f681c0a1a434…