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David L Parkhurst 9a6ec5b140 Error in sys("equi",...). 
Returned the values from the phases structure rather than from the unknown structure. So, the value from the beginning of the simulation was given rather than the reacted amount.

git-svn-id: svn://136.177.114.72/svn_GW/phreeqc3/trunk@12204 1feff8c3-07ed-0310-ac33-dd36852eb9cd
2017-01-10 16:55:38 +00:00
common
fixed BUILD_SHARED_LIBS build on windows
2015-10-06 03:15:13 +00:00
PhreeqcKeywords
moved keywords to PhreeqcKeywords directory
2015-02-09 23:40:34 +00:00
advection.cpp
moved phreeqc files into src
2013-01-10 06:04:12 +00:00
basicsubs.cpp
Error in sys("equi",...).
2017-01-10 16:55:38 +00:00
chart_icon.gif
moved phreeqc files into src
2013-01-10 06:04:12 +00:00
ChartHandler.cpp
memory leak when chart was closed before it plotting was finished.
2015-05-28 23:38:01 +00:00
ChartHandler.h
Added active_charts to ChartHandler.
2012-12-20 23:22:16 +00:00
ChartObject.cpp
memory leak when chart was closed before it plotting was finished.
2015-05-28 23:38:01 +00:00
ChartObject.h
Added second logical in batch. First is color, second is grid.
2012-08-01 20:03:47 +00:00
cl1.cpp
removed USE_GMP
2014-12-04 00:51:01 +00:00
cl1mp.cpp
more Linux warnings
2015-12-29 00:10:20 +00:00
class_main.cpp
fgets warning
2015-12-29 00:27:52 +00:00
CurveObject.cpp
fixed all System::Threading::Interlocked::CompareExchange and added some debugging code
2012-12-13 22:20:53 +00:00
CurveObject.h
Merged ErrorHandling 6119-6268 changes.
2012-03-06 23:42:49 +00:00
cvdense.cpp
updated for R
2015-09-25 06:18:48 +00:00
cvdense.h
added LICENSE to cvode files
2014-05-08 02:23:14 +00:00
cvode.cpp
Fixing VS static checker warnings.
2015-02-24 20:09:29 +00:00
cvode.h
added LICENSE to cvode files
2014-05-08 02:23:14 +00:00
cxxKinetics.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
cxxKinetics.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
cxxMix.cxx
Use MIX_RAW in dump to read negative numbered mixes.
2014-01-27 22:04:45 +00:00
cxxMix.h
const static vopts
2012-07-17 17:12:50 +00:00
dense.cpp
added LICENSE to cvode files
2014-05-08 02:23:14 +00:00
dense.h
added LICENSE to cvode files
2014-05-08 02:23:14 +00:00
Dictionary.cpp
Added changes for serializing.
2015-12-28 23:35:36 +00:00
Dictionary.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
distribution.checklist
Copying new classes (cxx) and cpp files to src
2006-02-16 00:21:39 +00:00
distribution.mk
Made native
2014-10-30 22:00:37 +00:00
dumper.cpp
Fixing VS static checker warnings.
2015-02-24 19:22:09 +00:00
dumper.h
added Set_append
2013-05-31 05:39:52 +00:00
Exchange.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
Exchange.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
ExchComp.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
ExchComp.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
Form1.h
memory leak when chart was closed before it plotting was finished.
2015-05-28 23:38:01 +00:00
Form1.resX
moved phreeqc files into src
2013-01-10 06:04:12 +00:00
GasComp.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
GasComp.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
gases.cpp
Added changes for serializing.
2015-12-28 23:35:36 +00:00
GasPhase.cxx
more Linux warnings
2015-12-29 00:10:20 +00:00
GasPhase.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
global_structures.h
Change MIN_TOTAL to 1e-18
2016-04-12 17:48:22 +00:00
input.cpp
moved phreeqc files into src
2013-01-10 06:04:12 +00:00
integrate.cpp
Tony's fix for erm (enrichment factors).
2015-07-21 20:37:03 +00:00
inverse.cpp
Added asserts to inverse.cpp (had -1 for a row number).
2016-03-10 16:17:45 +00:00
ISolution.cxx
Removed Phreeqc_class.h.
2012-04-19 18:35:14 +00:00
ISolution.h
Default_pe is now const char *, saves some string_hsave in clear in prep.
2013-05-15 20:46:20 +00:00
ISolutionComp.cxx
Bugs fixes noted by Marco De-Vroed
2014-01-14 20:42:12 +00:00
ISolutionComp.h
updated for linux (added headers)
2012-04-20 05:18:15 +00:00
isotopes.cpp
updated for R
2015-09-25 06:30:33 +00:00
kinetics.cpp
Bug when related to surface related to kinetics and proportion was zero.
2016-11-07 22:39:48 +00:00
KineticsComp.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
KineticsComp.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
mainsubs.cpp
changed preprocessor guard for windows _set_output_format call
2016-04-20 22:05:13 +00:00
Makefile
latest test cases, minor changes except for .pat file, which were wrong
2014-11-03 17:38:37 +00:00
Makefile.am
removed dw.cpp
2016-06-17 01:44:30 +00:00
Makefile.old
removed dw.cpp
2016-06-17 02:55:53 +00:00
model.cpp
fix memcpy overwrite
2016-06-30 21:21:08 +00:00
NA.h
moved phreeqc files into src
2013-01-10 06:04:12 +00:00
NameDouble.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
NameDouble.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
newiso.dat
moved phreeqc files into src
2013-01-10 06:04:12 +00:00
NumKeyword.cxx
Allow negative numbers on entity mixes.
2012-07-24 18:52:15 +00:00
NumKeyword.h
Merged ErrorHandling 6119-6268 changes.
2012-03-06 23:42:49 +00:00
nvector_serial.cpp
fixed if R_SO not set
2014-07-09 19:46:08 +00:00
nvector_serial.h
added LICENSE to cvode files
2014-05-08 02:23:14 +00:00
nvector.cpp
added LICENSE to cvode files
2014-05-08 02:23:14 +00:00
nvector.h
added LICENSE to cvode files
2014-05-08 02:23:14 +00:00
parse.cpp
fixed some of the easier clang++ scan-build bugs
2014-08-05 02:51:35 +00:00
PBasic.cpp
added function phase_vm and test case.
2016-06-03 18:46:13 +00:00
PBasic.h
added function phase_vm and test case.
2016-06-03 18:46:13 +00:00
phast.xsd
eol
2009-12-03 01:06:34 +00:00
phqalloc.cpp
memset not used for NDEBUG
2014-07-30 15:22:15 +00:00
phqalloc.h
moved phreeqc files into src
2013-01-10 06:04:12 +00:00
Phreeqc.cpp
switch back to 1e-25
2016-04-12 18:32:14 +00:00
phreeqc.dat
Copying new classes (cxx) and cpp files to src
2006-02-16 00:21:39 +00:00
phreeqc.distribution.checklist
moved phreeqc files into src
2013-01-10 06:04:12 +00:00
Phreeqc.h
added function phase_vm and test case.
2016-06-03 18:46:13 +00:00
phreeqc.Makefile
moved phreeqc files into src
2013-01-10 06:04:12 +00:00
phreex.ico
moved phreeqc files into src
2013-01-10 06:04:12 +00:00
PHRQ_io_output.cpp
moved Phreeqc methods process_file_names, open_input_stream,
2014-05-02 03:36:26 +00:00
pitzer_structures.cpp
added initializing to pitz_param
2015-04-14 00:39:33 +00:00
pitzer.cpp
shrink_array for pitzer in model.cpp
2016-06-30 18:06:16 +00:00
PPassemblage.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
PPassemblage.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
PPassemblageComp.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
PPassemblageComp.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
prep.cpp
Kinniburgh problem with P(O2) = 10^-51
2016-06-13 16:34:00 +00:00
Pressure.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
Pressure.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
print.cpp
fixed bug that overwrote selected output files when (re-)opening a .pqi file
2016-04-20 03:21:26 +00:00
Reaction.cxx
const static vopts
2012-07-17 17:12:50 +00:00
Reaction.h
const static vopts
2012-07-17 17:12:50 +00:00
read.cpp
fixed selected_output missing headers when SelectedOutputFileOn == true
2016-04-23 01:53:00 +00:00
ReadClass.cxx
Added logic to run only one step in RunCells
2014-09-12 22:11:27 +00:00
readtr.cpp
Another try on porosities.
2016-02-03 21:42:14 +00:00
runner.cpp
removed set but not used variables using gcc 4.8.2[-Wunused-but-set-variable]
2014-07-09 01:46:43 +00:00
runner.h
added Setters for time params
2013-03-07 05:42:24 +00:00
SelectedOutput.cpp
changed EOL to native
2014-01-23 01:31:19 +00:00
SelectedOutput.h
changed EOL to native
2014-01-23 01:31:19 +00:00
Serializer.cxx
added ifdef for R (R_SO)
2015-12-29 05:17:03 +00:00
Serializer.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
sit.cpp
Removed dead code from pitzer
2015-06-09 16:16:20 +00:00
smalldense.cpp
fixed if R_SO not set
2014-07-09 19:46:08 +00:00
smalldense.h
added LICENSE to cvode files
2014-05-08 02:23:14 +00:00
Solution.cxx
Had a problem with mismatch between mass_water (1e-6) and
2016-11-09 21:31:17 +00:00
Solution.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
SolutionIsotope.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
SolutionIsotope.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
spread.cpp
[ not handled as upper for solution_spread in copy_token_tab.
2015-10-01 17:07:17 +00:00
SS.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
SS.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
SSassemblage.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
SSassemblage.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
SScomp.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
SScomp.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
step.cpp
Made diagonal_scale true by default.
2016-01-19 23:06:50 +00:00
StorageBin.cxx
Moved uz_bin to workers to avoid possible data conflicts.
2014-04-15 22:55:59 +00:00
StorageBin.h
Moved uz_bin to workers to avoid possible data conflicts.
2014-04-15 22:55:59 +00:00
StorageBinList.cpp
Fixing VS static checker warnings.
2015-02-24 19:22:09 +00:00
StorageBinList.h
added some const and added cell for use in phreeqci
2013-05-29 23:38:00 +00:00
structures.cpp
fixed g++ warnings
2015-04-28 06:44:08 +00:00
sundialsmath.cpp
added LICENSE to cvode files
2014-05-08 02:23:14 +00:00
sundialsmath.h
added LICENSE to cvode files
2014-05-08 02:23:14 +00:00
sundialstypes.h
added LICENSE to cvode files
2014-05-08 02:23:14 +00:00
Surface.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
Surface.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
SurfaceCharge.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
SurfaceCharge.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
SurfaceComp.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
SurfaceComp.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
System.cxx
copy/paste error for surface in totalize system.
2014-08-04 14:44:08 +00:00
System.h
Removed Phreeqc_class.h.
2012-04-19 18:35:14 +00:00
tally.cpp
Need to zero moles in tally struct in addition to zeroing totals.
2016-04-26 16:07:41 +00:00
Temperature.cxx
Added changes for serializing.
2015-12-28 23:35:36 +00:00
Temperature.h
Added changes for serializing.
2015-12-28 23:35:36 +00:00
test.xml
eol
2009-12-03 01:06:34 +00:00
tidy.cpp
Another check for null pointers.
2016-01-11 21:47:58 +00:00
transport.cpp
removed set but not used variables using gcc 4.8.2[-Wunused-but-set-variable]
2014-07-09 01:46:43 +00:00
Use.cpp
Linux Makefile
2012-01-11 16:46:37 +00:00
Use.h
Merged ErrorHandling 6119-6268 changes.
2012-03-06 23:42:49 +00:00
UserPunch.cpp
Fixed left shift operator error and null pointer error for R UBSAN check;
2014-12-03 05:19:35 +00:00
UserPunch.h
changed EOL to native
2014-01-23 01:31:19 +00:00
utilities.cpp
[ not handled as upper for solution_spread in copy_token_tab.
2015-10-01 17:07:17 +00:00
ZedGraph.dll
moved phreeqc files into src
2013-01-10 06:04:12 +00:00
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40 MiB
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C++ 81.6%
Makefile 9.2%
C 4.8%
Fortran 1.8%
R 1%
Other 1.3%