[CHNOSZ-commits] r928 - in pkg/CHNOSZ: . inst vignettes

[noreply at r-forge.r-project.org]

Author: jedick
Date: 2025-06-19 15:29:04 +0200 (Thu, 19 Jun 2025)
New Revision: 928

Modified:
   pkg/CHNOSZ/DESCRIPTION
   pkg/CHNOSZ/inst/NEWS.Rd
   pkg/CHNOSZ/vignettes/OBIGT.bib
Log:
Adjust references for compatibility with logKcalc


Modified: pkg/CHNOSZ/DESCRIPTION
===================================================================
--- pkg/CHNOSZ/DESCRIPTION	2025-06-19 12:46:17 UTC (rev 927)
+++ pkg/CHNOSZ/DESCRIPTION	2025-06-19 13:29:04 UTC (rev 928)
@@ -1,6 +1,6 @@
 Date: 2025-06-19
 Package: CHNOSZ
-Version: 2.1.0-99
+Version: 2.1.0-100
 Title: Thermodynamic Calculations and Diagrams for Geochemistry
 Authors at R: c(
     person("Jeffrey", "Dick", , "j3ffdick at gmail.com", role = c("aut", "cre"),

Modified: pkg/CHNOSZ/inst/NEWS.Rd
===================================================================
--- pkg/CHNOSZ/inst/NEWS.Rd	2025-06-19 12:46:17 UTC (rev 927)
+++ pkg/CHNOSZ/inst/NEWS.Rd	2025-06-19 13:29:04 UTC (rev 928)
@@ -15,7 +15,7 @@
 \newcommand{\Cp}{\ifelse{latex}{\eqn{C_P}}{\ifelse{html}{\out{<I>C<sub>P</sub></I>}}{Cp}}}
 \newcommand{\DG0}{\ifelse{latex}{\eqn{{\Delta}G^{\circ}}}{\ifelse{html}{\out{Δ<I>G</I>°}}{ΔG°}}}
 
-\section{Changes in CHNOSZ version 2.1.0-99 (2025-06-19)}{
+\section{Changes in CHNOSZ version 2.2.0 (2025-06-19)}{
 
   \subsection{OBIGT DATABASE FORMAT}{
     \itemize{
@@ -278,7 +278,7 @@
 
       \item Move \code{read.fasta()}, \code{count.aa()}, and \code{aasum()} to
       \href{https://cran.r-project.org/package=canprot}{canprot} with different
-      names.
+      names (\code{read_fasta()}, \code{count_aa()}, and \code{sum_aa()}).
 
       \item Move \file{equilibrium.Rmd} and \code{protein.equil()} to
       \href{https://github.com/jedick/JMDplots}{JMDplots}.

Modified: pkg/CHNOSZ/vignettes/OBIGT.bib
===================================================================
--- pkg/CHNOSZ/vignettes/OBIGT.bib	2025-06-19 12:46:17 UTC (rev 927)
+++ pkg/CHNOSZ/vignettes/OBIGT.bib	2025-06-19 13:29:04 UTC (rev 928)
@@ -1659,7 +1659,7 @@
   url         = {https://thermoddem.brgm.fr/page/brgm-reports},
 }
 
- at TechReport{OBIGT06,
+ at Misc{OBIGT06,
   author    = {{OBIGT database in CHNOSZ}},
   title     = {The standard entropy of \emph{e}\textsuperscript{-} is assigned to be half that of {H}\textsubscript{2}(g) as implied by the hydrogen ion convention},
   year      = {2006},
@@ -2028,7 +2028,7 @@
   doi       = {10.1080/08120099.2024.2423772},
 }
 
- at Misc{slo98,
+ at Misc{SLOP98,
   author       = {slop98.dat},
   howpublished = {Last updated on 1998-08-20. Accessed on 2019-04-08.},
   title        = {{S}equential-access thermodynamic datafile used by {PROGRAM} supcrt92},
@@ -2161,7 +2161,7 @@
   doi       = {10.1016/j.jct.2008.12.006},
 }
 
- at TechReport{OBIGT25,
+ at Misc{OBIGT25,
   author    = {{OBIGT database in CHNOSZ}},
   title     = {Corrected {Δ\emph{H}}°\textsubscript{\emph{f}} by -7335 cal/mol to maintain {GHS} consistency for {In}\textsuperscript{+3} and derived species},
   year      = {2025},