@@ -1,8 +1,8 @@

 Package: msa

 Type: Package

 Title: Multiple Sequence Alignment

-Version: 1.1.0

-Date: 2015-04-16

+Version: 1.1.1

+Date: 2015-06-12

 Author: Enrico Bonatesta, Christoph Horejs-Kainrath, Ulrich Bodenhofer

 Maintainer: Ulrich Bodenhofer <bodenhofer@bioinf.jku.at>

 Description: This package provides a unified R/Bioconductor interface to the

@@ -13,10 +13,19 @@ msa <- function(inputSeqs,

 {

     method <- match.arg(method)

-    msaArgs <- as.list(match.call(expand.dots=TRUE)[-1])

-    msaArgs[["method"]] <- NULL

+    msaFun <- match.fun(paste0("msa", method))

-    out <- do.call(paste0("msa", method), msaArgs)

+    out <- msaFun(inputSeqs=inputSeqs,

+                  cluster=cluster,

+                  gapOpening=gapOpening,

+                  gapExtension=gapExtension,

+                  maxiters=maxiters,

+                  substitutionMatrix=substitutionMatrix,

+                  type=type,

+                  order=order,

+                  verbose=verbose,

+                  help=help,

+                  ...)

     if (is(out, "MsaMetaData"))

         out@call <- deparse(sys.call())

@@ -1,5 +1,11 @@

 Change history of package msa:

 ==============================

+Version 1.1.1:

+- fix of msa() function

+

+Version 1.1.0:

+- new branch for Bioconductor 3.2 devel

+

 Version 1.0.0:

 - first official release as part of Bioconductor 3.1

@@ -613,7 +613,9 @@ bibliography below).

 \section{Change Log}

 \begin{description}

-\item[Version 0.99.0:] first version submitted to Bioconductor

+\item[Version 1.1.1:] fix of \verb+msa()+ function

+\item[Version 1.1.0:] new branch for Bioconductor 3.2 devel

+\item[Version 1.0.0:] first official release as part of Bioconductor 3.1

 \end{description}

 %\bibliographystyle{plain}