Merge pull request #74 from mwtoews/fix-typos

Fix typos

CMakeLists.txt

@@ -2,7 +2,7 @@ cmake_minimum_required(VERSION 3.3)
 
 project(phreeqc)
 
-# overide docdir on windows
+# override docdir on windows
 if(WIN32 AND NOT CMAKE_INSTALL_DOCDIR)
   set(CMAKE_INSTALL_DOCDIR "" CACHE PATH "documentation root (doc)")
   set(CMAKE_INSTALL_DOCDIR "doc")

Clara-PEST/beopest_1Dmodel.bat

@@ -1,7 +1,7 @@
 @echo off
 SETLOCAL
 
-REM Sychronize latest WEBMOD executable, create the tsproc and PEST command files, and start beopest as master
+REM Synchronize latest WEBMOD executable, create the tsproc and PEST command files, and start beopest as master
 REM Help printed if command entered with no arguments
 IF %1.==. GOTO :USAGE
 

HTMLversion/HTML/fixup_html.bash

@@ -58,7 +58,7 @@ echo                     Done Example 19
 egrep '<H1' -v phreeqc3.htm | egrep '/H1>' -v > temp3; mv temp3 phreeqc3.htm
 
 #echo
-#echo "(1) Need to mannually delete extra table of contents in phreeqc3.htm"
+#echo "(1) Need to manually delete extra table of contents in phreeqc3.htm"
 echo
 echo "(1) Compile HTML, double click on phreeqc3.hhp and hit compile button"
 

Mueller/python_source/advect_only.py

@@ -1,6 +1,6 @@
 """Advection with COM server.
 
-Using MODFIY we update the concentration on every
+Using MODIFY we update the concentration on every
 time step. We shift by one cell per step.
 """
 
@@ -184,14 +184,14 @@ def main(ncells, shifts):
     """
 
     def measure_time(func, *args, **kwargs):
-        """Convinience function to measure run times.
+        """Convenience function to measure run times.
         """
         import sys
         if sys.platform == 'win32':
             # time.clock is more accurate on Windows
             timer_func = time.clock
         else:
-            # but behaves differently on other platfroms
+            # but behaves differently on other platforms
             timer_func = time.time
         start = timer_func()
         result = func(*args, **kwargs)

Version3/Review/ex/ex12

@@ -79,7 +79,7 @@ TRANSPORT            # Diffuse 24C, NaCl solution from column end
 USER_GRAPH Example 12
    -headings Na Cl Temp Analytical
    -chart_title "Diffusion of Solutes and Heat"
-   -axis_titles "DISTANCE, IN METERS" "MILLIMOLES PER KILOGRAM WATER", "DEGREES CELCIUS"
+   -axis_titles "DISTANCE, IN METERS" "MILLIMOLES PER KILOGRAM WATER", "DEGREES CELSIUS"
    -axis_scale x_axis 0 20
    -axis_scale y_axis 0 25
    -axis_scale sy_axis 0 25   

Version3/ex/ex12

@@ -79,7 +79,7 @@ TRANSPORT            # Diffuse 24C, NaCl solution from column end
 USER_GRAPH Example 12
    -headings Na Cl Temp Analytical
    -chart_title "Diffusion of Solutes and Heat"
-   -axis_titles "DISTANCE, IN METERS" "MILLIMOLES PER KILOGRAM WATER", "DEGREES CELCIUS"
+   -axis_titles "DISTANCE, IN METERS" "MILLIMOLES PER KILOGRAM WATER", "DEGREES CELSIUS"
    -axis_scale x_axis 0 20
    -axis_scale y_axis 0 25
    -axis_scale sy_axis 0 25   

build/dist.sh

@@ -17,7 +17,7 @@
 #   from the top-level of a branches/0.24.2 working copy will create
 #   the 0.24.2 release tarball.
 #
-#   When building a alpha, beta or rc tarballs pass the apppropriate flag
+#   When building a alpha, beta or rc tarballs pass the appropriate flag
 #   followed by the number for that release.  For example you'd do
 #   the following for a Beta 1 release:
 #      ./dist.sh -v 1.1.0 -r 10277 -pr branches/1.1.x -beta 1

database/Kinec.v2.dat

@@ -7407,7 +7407,7 @@ Si1.00Al0.23O2(OH)0.69 + 0.23 OH- = 0.23 Al(OH)4- + SiO2
 # Additional phases  
 ##Non-silicate minerals including carbonate, sulfide, phosphate, halide, and oxy-hydroxide minerals####
 # 16 added solids
-# The thermodynmaic propeties are from the llnl.data database expet for Gaspite 
+# The thermodynmaic properties are from the llnl.data database export for Gaspite
 #------------
 
 

database/Kinec_v3.dat

@@ -32,7 +32,7 @@
 
 #KINETICS
 #Augite_ss                                  # Name of the mineral
-#    -formula  Mg0.45Fe0.275Ca0.275SiO3  1  # Mineral formula ! must be added to run solid soultions. 
+#    -formula  Mg0.45Fe0.275Ca0.275SiO3  1  # Mineral formula ! must be added to run solid solutions.
 #    -m0       100                          # Initial moles of mineral
 #    -parms    0 0.0088183 0 2              # Four parameters as explained below
 
@@ -57,7 +57,7 @@
 #
 # and 
 #
-# Oelkers, E.H., Addassi, M. 2024. A comprehensive and internally consistent mineral dissolution rate database: Part III: Non-silicate minerals including carbonate, sulfide, phosphate, halide, and oxy-hydroxide minerals. (in preperation)
+# Oelkers, E.H., Addassi, M. 2024. A comprehensive and internally consistent mineral dissolution rate database: Part III: Non-silicate minerals including carbonate, sulfide, phosphate, halide, and oxy-hydroxide minerals. (in preparation)
 # *********************************************************************
 #
 # Thermodynamics from carbfix.dat (Voigt et al., 2018).
@@ -89,7 +89,7 @@
 # HOK+98: http://dx.doi.org/10.1016/S0016-7037(97)00219-6 (C2H6(g), C3H8(g))
 # Hovis04: http://dx.doi.org/10.2138/am-2004-0111 (NH4-muscovite molar volume)
 # HSS95: http://dx.doi.org/10.1016/0016-7037(95)00314-P (55 solutes)
-# Joh90: Johnson, J.W., 1990, Personal calculation, Parameters given provide smooth metastable extrapolation of one-bar steam properties predicted by the Haar et al. (1984) equation of state to temperatures < the saturation temperature (99.632 C):  Earch Sci. Dept, LLNL, Livermore, CA. (H2O(g))
+# Joh90: Johnson, J.W., 1990, Personal calculation, Parameters given provide smooth metastable extrapolation of one-bar steam properties predicted by the Haar et al. (1984) equation of state to temperatures < the saturation temperature (99.632 C):  Earth Sci. Dept, LLNL, Livermore, CA. (H2O(g))
 # Kel60: http://www.worldcat.org/oclc/693388901 (8 gases)
 # M13: McColm I. J. (2013) Dictionary of Ceramic Science and Engineering, p.72. (CaUO4 molar volume)
 # Marion+03: http://dx.doi.org/10.1016/S0016-7037(03)00372-7 (FeOH+)
@@ -7527,7 +7527,7 @@ Si1.00Al0.23O2(OH)0.69 + 0.23 OH- = 0.23 Al(OH)4- + SiO2
 # Additional phases  
 ##Non-silicate minerals including carbonate, sulfide, phosphate, halide, and oxy-hydroxide minerals####
 # 16 added solids
-# The thermodynmaic propeties are from the llnl.data database expet for Gaspite 
+# The thermodynmaic properties are from the llnl.data database export for Gaspite
 #------------
 
 

database/OtherDatabases/CEMDATA18-31-03-2022-phaseVol.dat

@@ -14,7 +14,7 @@
 # update 03.12.2018 - added missing phases: zeoliteP_Ca, chabazite, M075SH, M15SH, zeoliteX, natrolite, zeoliteY
 # update 08.01.2019 - corrected INFCNA formula and reaction; 23.09.2019 fixed logK to 17.4787
 # update 16.01.2019 - fixed a3 parameter from the logK analytical function (wrong converted from A[3]*ln(T) GEMS to 
-# phreeqc A[3]*log10(T); for phases aded in update update 03.12.2018)
+# phreeqc A[3]*log10(T); for phases added in update 03.12.2018)
 # update 31.03.2022 - added missing C4FeCl2H10 (Fe Friedel's salt ideal composition) and reactions for Fe(OH)3(am) and Fe(OH)3(mic) with original source
 # Hummel et al. (2002) Nagra/PSI Chemical Thermodynamic Data Base 01/01. Nagra Technical Report NTB 02-16
 #

database/OtherDatabases/CEMDATA18.1-16-01-2019-phaseVol.dat

@@ -14,7 +14,7 @@
 # update 03.12.2018 - added missing phases: zeoliteP_Ca, chabazite, M075SH, M15SH, zeoliteX, natrolite, zeoliteY
 # update 08.01.2019 - corrected INFCNA formula and reaction
 # update 16.01.2019 - fixed a3 parameter from the logK analytical function (wrong converted from A[3]*ln(T) GEMS to 
-# phreeqc A[3]*log10(T); for phases aded in update update 03.12.2018)
+# phreeqc A[3]*log10(T); for phases added in update 03.12.2018)
 #
 # for questions contact: Barbara Lothenbach (barbara.lothenbach@empa.ch); G. Dan Miron (dan.miron@psi.ch)
 

database/OtherDatabases/PKDLM_BRGM_database_phreeqc_ThermoddemV1.10_06Jun2017.dat

@@ -12434,7 +12434,7 @@ References
 # 08bas/pet           Basciano L.C., Peterson R.C. (2008)  Amer. Mineral., 93, 853-862
 # 08bla               Blanc P. (2008) : Thermoddem - Selection de proprietes thermodynamiques pour les principales especes aqueuses et minerales porteuses de fer. Rapport final. Rapport BRGM/RP-56587-FR, 70p.
 # 08gai               Gailhanou H. (2008) : Thermochimie : Acquisition des proprietes thermodynamiques sur une berthierine et revision des donnees sur les mineraux argileux. Rapport final BRGM/RP-56838-FR
-# 08las               Lassin A., 2008, personnal calculations.
+# 08las               Lassin A., 2008, personal calculations.
 # 08per/pok           Perfetti E., Pokrovski G., Ballerat-Busserolles K., Majer V., Gibert F. (2008) Densities and heat capacities of aqueous arsenious and arsenic acid solutions to 350 C and 300 bar, and revised thermodynamic properties of As(OH)3(aq), AsO(OH)3(aq) and iron sulfarsenide minerals. Geochimica et Cosmochimica Acta 72, 713-731
 # 08sch/lot           Schmidt, T., Lothenbach, B., Romer, M., Scrivener, K.L., Rentsch, D., Figi, R. (2008), A thermodynamic and experimental study of the conditions of thaumasite formation, Cement and Concrete Research, 38(3), 337-349.
 # 08vie               Vieillard P., 2008. Estimation des entropies et capacites calorifiques des zeolithes. Rapport CNRS-Hydrasa 2008, 29 p.
@@ -12814,7 +12814,7 @@ References
 # 15bla/vie           Blanc, P., Vieillard, P., Gailhanou, H., Gaboreau, S., Gaucher, E.C., Fialips, C.I., Made, B., Giffaut, E., 2015. A generalized model for predicting the thermodynamic properties of clay minerals. American Journal of Science 315, 734-780.
 # 17bbla              Blanc P., 2017 D3E/BGE N 2017-077 (Compte-rendu de reunion), 17 p.
 # 16bla               Blanc P., (2016) Biomore WP1 progress report
-# 17roo/vie           Roosz et al., 2017. Thermodynamic properties of C-(A)-S-H and M-S-H phases: results from direct measurements and predictive modelling. Applied Geochemistry, submited
+# 17roo/vie           Roosz et al., 2017. Thermodynamic properties of C-(A)-S-H and M-S-H phases: results from direct measurements and predictive modelling. Applied Geochemistry, submitted
 # 07pow/bro           Powell, K.J., Brown, P.L., Byrne, R.H., Gadja, T., Hefter, G., Sjoberg, S., Wanner, H., 2007. Chemical speciation of environmentally significant metals with inorganic ligands Part 2 : The Cu[2+]-OH[-], Cl[-], CO[3][2-], SO[4][2-], and PO[4][3-] systems : (IUPAC Technical Report). Pure and applied chemistry, USA.
 # 00pui               Puigdomenech, I., 2000. Thermodynamic data for copper: implications for the corrosion of copper under repository conditions, SKB report. SKB/Swedish Nuclear Fuel and Waste Management, p. 96.
 # 09xio               Xiong, Y., 2009. The aqueous geochemistry of thallium: speciation and solubility of thallium in low temperature systems. Environmental Chemistry 6, 441-451.

database/OtherDatabases/THEREDA_2020_PHRQ.dat

@@ -1936,7 +1936,7 @@ K+ = K+
         # calculation mode: Entered
         # datatype category: R (Reaction Data)
         # evaluation data quality, data class, data source: 1, 1, 4
-        # data description: Application of the chemcial model of Th(IV); Pu(IV) complex could not be identified by EXAFS
+        # data description: Application of the chemical model of Th(IV); Pu(IV) complex could not be identified by EXAFS
         #                   contrary to the Th(IV) complex (and the Zr(IV) complex Ca3[Zr(OH)6]4+) which could be identified and
         #                   characterized by EXAFS measurements
         # LOGK298 value reference: FEL/NEC2010
@@ -2672,7 +2672,7 @@ PHASES
         #   S298   = 669 J mol-1 K-1, GUI/FAN2003
 
 
-  # pcon description (Al(OH)3(am)): amorphous Al(OH)3 as decribed in CEMDATA07 original reaction in CEMDATA07 with LOGK298 = 0.24
+  # pcon description (Al(OH)3(am)): amorphous Al(OH)3 as described in CEMDATA07 original reaction in CEMDATA07 with LOGK298 = 0.24
 Al(OH)3(am)             
         1 Al(OH)3 =  +1.00000000 Al(OH)4- -1.00000000 H2O +1.00000000 H+
         log_k     -13.759         
@@ -19892,7 +19892,7 @@ O2                      Na+                     Mg+2                    -0.01709
 #    Volume: 40
 #    Page: 980-990
 #    Doi: 10.1016/j.jct.2008.02.006
-#    Puburl: hhttp://www.sciencedirect.com/science/article/pii/S0021961408000426ttp://www.sciencedirect.com/science/article/B6WHM-4RW43BP-3/2/8053c8459b4ca70d64e52142d205fde6
+#    Puburl: http://www.sciencedirect.com/science/article/pii/S0021961408000426ttp://www.sciencedirect.com/science/article/B6WHM-4RW43BP-3/2/8053c8459b4ca70d64e52142d205fde6
 
 # YOU/BAT1981
 #    Type: Book
@@ -20187,7 +20187,7 @@ O2                      Na+                     Mg+2                    -0.01709
 # STE/HOO1944
 #    Type: Journal
 #    Language: English
-#    Title: The heat capacity of potassium dihydrogen phosphate from 15 to 300K. The anormaly at the curie temperature
+#    Title: The heat capacity of potassium dihydrogen phosphate from 15 to 300K. The anomaly at the curie temperature
 #    Author: Hooley, J. G., Stephenson, C. C.
 #    Pubname: Journal of the American Chemical Society
 #    Year: 1944

database/OtherDatabases/ThermoChimie_PhreeqC_SIT_electron_v10a.dat

@@ -3459,7 +3459,7 @@ SOLUTION_SPECIES
      -analytic 7.78E+0 0E+0 0E+0 0E+0 0E+0
 
 1.000Eu+3     + 1.000NO3-     = Eu(NO3)+2
-     log_k     1.210     #09RAO/TIA1 (Calculated usig SIT)
+     log_k     1.210     #09RAO/TIA1 (Calculated using SIT)
      # delta_h  0.000     #kJ/mol        
      # Enthalpy of formation:                   #kJ/mol        
      -analytic 1.21E+0 0E+0 0E+0 0E+0 0E+0
@@ -6201,7 +6201,7 @@ SOLUTION_SPECIES
      -analytic 2.42556E+0 0E+0 -2.24374E+3 0E+0 0E+0
 
 1.000NpO2+2     - 2.000H+     + 2.000H2O     = NpO2(OH)2
-     log_k   -12.210     #Estimated by correlation with An(VI) in funciton of ionic radii
+     log_k   -12.210     #Estimated by correlation with An(VI) in function of ionic radii
      # delta_h  0.000     #kJ/mol        
      # Enthalpy of formation:                   #kJ/mol        
      -analytic -1.221E+1 0E+0 0E+0 0E+0 0E+0
@@ -7659,7 +7659,7 @@ SOLUTION_SPECIES
      -analytic 9.73237E+0 0E+0 -9.84603E+2 0E+0 0E+0
 
 1.000Sm+3     - 1.000H+     + 1.000H4(SiO4)     = SmSiO(OH)3+2
-     log_k    -2.620     #Orginal data 07THA/SIN and 96JEN/CHO1
+     log_k    -2.620     #Original data 07THA/SIN and 96JEN/CHO1
      # delta_h  0.000     #kJ/mol        
      # Enthalpy of formation:                   #kJ/mol        
      -analytic -2.62E+0 0E+0 0E+0 0E+0 0E+0
@@ -10771,7 +10771,7 @@ Cm     = 3.000e-     + 1.000Cm+3
 
 Cm2(CO3)3(am)
 Cm2(CO3)3     = 3.000CO3-2     + 2.000Cm+3
-     log_k   -33.900     #estimated in analogy wiht Ln(III) and Am(III)
+     log_k   -33.900     #estimated in analogy with Ln(III) and Am(III)
      # delta_h  0.000     #kJ/mol        
      # Enthalpy of formation:                   #kJ/mol        
      -analytic -3.39E+1 0E+0 0E+0 0E+0 0E+0

database/OtherDatabases/Thermochimie_PhreeqC_eDH_oxygen_v10a.dat

@@ -3430,7 +3430,7 @@ SOLUTION_SPECIES
 
 1.000Eu+3     + 1.000NO3-     = Eu(NO3)+2
      -llnl_gamma 5.7
-     log_k     1.210     #09RAO/TIA1 (Calculated usig SIT)
+     log_k     1.210     #09RAO/TIA1 (Calculated using SIT)
      # delta_h  0.000     #kJ/mol        
      # Enthalpy of formation:                   #kJ/mol        
      -analytic 1.21E+0 0E+0 0E+0 0E+0 0E+0
@@ -6692,7 +6692,7 @@ SOLUTION_SPECIES
 
 1.000NpO2+2     - 2.000H+     + 2.000H2O     = NpO2(OH)2
      -llnl_gamma 3.4
-     log_k   -12.210     #Estimated by correlation with An(VI) in funciton of ionic radii
+     log_k   -12.210     #Estimated by correlation with An(VI) in function of ionic radii
      # delta_h  0.000     #kJ/mol        
      # Enthalpy of formation:                   #kJ/mol        
      -analytic -1.221E+1 0E+0 0E+0 0E+0 0E+0
@@ -8393,7 +8393,7 @@ SOLUTION_SPECIES
 
 1.000Sm+3     - 1.000H+     + 1.000H4(SiO4)     = SmSiO(OH)3+2
      -llnl_gamma 5.7
-     log_k    -2.620     #Orginal data 07THA/SIN and 96JEN/CHO1
+     log_k    -2.620     #Original data 07THA/SIN and 96JEN/CHO1
      # delta_h  0.000     #kJ/mol        
      # Enthalpy of formation:                   #kJ/mol        
      -analytic -2.62E+0 0E+0 0E+0 0E+0 0E+0
@@ -11759,7 +11759,7 @@ Cm     = 1.000Cm+3     + 1.500H2O     - 3.000H+     - 0.750O2
 
 Cm2(CO3)3(am)
 Cm2(CO3)3     = 3.000CO3-2     + 2.000Cm+3
-     log_k   -33.900     #estimated in analogy wiht Ln(III) and Am(III)
+     log_k   -33.900     #estimated in analogy with Ln(III) and Am(III)
      # delta_h  0.000     #kJ/mol        
      # Enthalpy of formation:                   #kJ/mol        
      -analytic -3.39E+1 0E+0 0E+0 0E+0 0E+0

database/OtherDatabases/ThermoddemV1.10_15Dec2020.dat

@@ -12554,7 +12554,7 @@ References
 # 08bas/pet           Basciano L.C., Peterson R.C. (2008)  Amer. Mineral., 93, 853-862
 # 08bla               Blanc P. (2008) : Thermoddem - Selection de proprietes thermodynamiques pour les principales especes aqueuses et minerales porteuses de fer. Rapport final. Rapport BRGM/RP-56587-FR, 70p.
 # 08gai               Gailhanou H. (2008) : Thermochimie : Acquisition des proprietes thermodynamiques sur une berthierine et revision des donnees sur les mineraux argileux. Rapport final BRGM/RP-56838-FR
-# 08las               Lassin A., 2008, personnal calculations.
+# 08las               Lassin A., 2008, personal calculations.
 # 08per/pok           Perfetti E., Pokrovski G., Ballerat-Busserolles K., Majer V., Gibert F. (2008) Densities and heat capacities of aqueous arsenious and arsenic acid solutions to 350 C and 300 bar, and revised thermodynamic properties of As(OH)3(aq), AsO(OH)3(aq) and iron sulfarsenide minerals. Geochimica et Cosmochimica Acta 72, 713-731
 # 08sch/lot           Schmidt, T., Lothenbach, B., Romer, M., Scrivener, K.L., Rentsch, D., Figi, R. (2008), A thermodynamic and experimental study of the conditions of thaumasite formation, Cement and Concrete Research, 38(3), 337-349.
 # 08vie               Vieillard P., 2008. Estimation des entropies et capacites calorifiques des zeolithes. Rapport CNRS-Hydrasa 2008, 29 p.
@@ -12588,7 +12588,7 @@ References
 # 17abla              Blanc P. (2017) Selection de proprietes thermodynamiques pour les principales especes aqueuses et minerales porteuses de thallium. Rapport final. Rapport BRGM 66385-FR.
 # 17bbla              Blanc P. (2017) - Thermoddem : Update for the 2017 version. Report BRGM/RP-66811-FR, 20 p.
 # 17gai/vie           Gailhanou, H., Vieillard, P., Blanc, P., Lassin, A., Denoyel, R., Bloch, E., De Weireld, G., Claret, F., Fialips, C.I., Made, B., Giffaut, E., 2017. Methodology for determining the thermodynamic properties of hydration of Na-smectite considering the energetic contribution of capillary water. Applied Geochemistry.
-# 18roo/vie           Roosz et al., 2017. Thermodynamic properties of C-(A)-S-H and M-S-H phases: results from direct measurements and predictive modelling. Applied Geochemistry, submited
+# 18roo/vie           Roosz et al., 2017. Thermodynamic properties of C-(A)-S-H and M-S-H phases: results from direct measurements and predictive modelling. Applied Geochemistry, submitted
 # 18nea               NEA, 2018. Forthcoming TDB selection on cement minerals
 # 18sig               SIGARRR, 2018. Forthcoming results from the project.
 # 33dan               D'Ans J., 1933. Die Losegleichgewichte der Systeme der Salze ozeanischer Salzablagerungen. Kaliorschungs Anstalt GmbH, Berlin Verlagsgesellschaft fur Ackerbau MBH, Berlin SW11