maintainer switch and new gpr format

DESCRIPTION

 Package: sybilSBML
 Type: Package
-Title: SBML Integration in Package Sybil
-Version: 2.0.9
-Date: 2015-07-03
+Title: SBML Integration in Package 'Sybil'
+Version: 2.0.11
+Date: 2016-06-06
 Authors@R: c(person(c("C.", "Jonathan"), "Fritzemeier", role = c("cre", "ctb"), email = "clausjonathan.fritzemeier@uni-duesseldorf.de"),
-			 person("Gabriel", "Gelius-Dietrich", role = c("aut")),
+			 person("Gabriel", "Gelius-Dietrich", role = c("aut", "ctb")),
              person("Deya", "Alzoubi", role = "ctb"))
-Maintainer: Gabriel Gelius-Dietrich <geliudie@uni-duesseldorf.de>
-Depends: R (>= 2.14.2), Matrix, sybil (>= 1.2.4)
+Maintainer: C. Jonathan Fritzemeier <clausjonathan.fritzemeier@uni-duesseldorf.de>
+Depends: R (>= 2.14.2), Matrix, sybil (>= 2.0.0)
 Imports: methods
-Description: SBML (Systems Biology Markup Language) integration in sybil. Many constraint based metabolic models are published in SBML format (*.xml). Herewith is the ability to read and check SBML files in sybil provided.
+Description: 'SBML' (Systems Biology Markup Language) integration in 'sybil'. Many constraint based metabolic models are published in 'SBML' format ('*.xml'). Herewith is the ability to read and check 'SBML' files in 'sybil' provided.
 License: GPL-3 | file LICENSE
 LazyLoad: yes
 Collate: generics.R sbmlPtrClass.R sbmlErrorClass.R sybilSBML.R
         uglyHack.R readSBMLmod.R zzz.R
-Packaged: 2014-05-21 07:11:55 UTC; gabriel
+Packaged: 2015-06-06 07:11:55 UTC; jonathan
 Author: C. Jonathan Fritzemeier [cre, ctb],
-  Gabriel Gelius-Dietrich [aut],
+  Gabriel Gelius-Dietrich [aut, ctb],
   Deya Alzoubi [ctb]
 NeedsCompilation: yes
 Repository: CRAN

R/readSBMLmod.R

@@ -898,12 +898,13 @@ else {
                 geneInd <- match(genes[[i]], allGenes)
                 rxnGeneMat[i, geneInd] <- TRUE
                 
-                for (j in 1 : length(geneInd)) {
-                    pat  <- paste("x(", j, ")", sep = "")
-                    repl <- paste("x[", geneInd[j], "]", sep = "")
-    
-                    rules[i] <- gsub(pat, repl, rules[i], fixed = TRUE)
-                }
+    			 # no use because new gprRule format
+#                for (j in 1 : length(geneInd)) {
+#                    pat  <- paste("x(", j, ")", sep = "")
+#                    repl <- paste("x[", geneInd[j], "]", sep = "")
+#    
+#                    rules[i] <- gsub(pat, repl, rules[i], fixed = TRUE)
+#                }
             }
         }
 

inst/NEWS.Rd

@@ -6,6 +6,14 @@
 
 \newcommand{\CRANpkg}{\href{http://CRAN.R-project.org/package=#1}{\pkg{#1}}}
 
+% ---------------------------------------------------------------------------- %
+\section{Changes in version 2.0.11 2015-07-03}{
+  \itemize{
+    \item \code{gprRules}-Slot in \code{modelorg} has changed. Thus 
+    \code{readSBMLmod} had to be updated.
+  }
+}
+
 % ---------------------------------------------------------------------------- %
 \section{Changes in version 2.0.9 2015-07-03}{
   \itemize{