Fix bug causing memory over-run.

DESCRIPTION

@@ -1,6 +1,6 @@
 Package: negenes
-Version: 0.99-2
-Date: 7 Nov 2011
+Version: 1.0-1
+Date: 9 Mar 2012
 Title: Estimating the number of essential genes in a genome
 Author: Karl W Broman <kbroman@biostat.wisc.edu>
 Maintainer: Karl W Broman <kbroman@biostat.wisc.edu>

R/negenes.R

@@ -2,8 +2,8 @@
 # 
 # negenes.R
 #
-# copyright (c) 2002-4, Karl W Broman
-# last modified June, 2004
+# copyright (c) 2002-2012, Karl W Broman
+# last modified Mar, 2012
 # first written June, 2002
 # Licensed under the GNU General Public License version 2 (June, 1991)
 #
@@ -100,7 +100,7 @@ function(n.sites, counts, n.sites2, counts2,
                output = as.integer(rep(0,(n.mcmc-1)*n.genes*temp+n.genes)),
                n.ess = as.integer(rep(0,n.mcmc)),
                geneprob = as.double(rep(0,n.genes)),
-               as.integer(rep(0,n.genes+1)),
+               as.integer(rep(0,n.genes+2)),
                as.integer(n.notknown),
                as.integer(notknown),
                as.integer(calc.prob),

inst/INSTALL_ME.txt

@@ -1,5 +1,5 @@
 
-README file for the negenes package
+INSTALL_ME file for the negenes package
 ----------------------------------------------------------------------
 This explains the installation of the negenes package for R.  If you
 have any problems with installation, send an email to Karl Broman
@@ -30,7 +30,7 @@ OBTAINING R/NEGENES
 INSTALLATION OF R AND R/NEGENES (Windows)
 
   1. The Windows version of R is distributed as a single file,
-     with a name something like R-2.12.1-win32.exe.  Install R by executing
+     with a name something like R-2.15.0-win32.exe.  Install R by executing
      this file.  We recommend installing R in "c:\R" rather than
      "c:\Program Files\R".  Why didn't Microsoft use "Programs" rather
      than "Program files"? 
@@ -41,17 +41,17 @@ INSTALLATION OF R AND R/NEGENES (Windows)
 
      This will download the binary from CRAN and install it.
 
-     Alternatively, you can download the "negenes_0.98-9.zip" (or the
+     Alternatively, you can download the "negenes_1.0-1.zip" (or the
      equivalent).  Then start R and select (on the menu bar)
      "Packages" and then "Install package from local zip file...".
-     Find the file "negenes_0.98-9.zip" on your hard drive, and click
+     Find the file "negenes_1.0-1.zip" on your hard drive, and click
      "Open".
 
 
 INSTALLATION OF R AND R/NEGENES (MacOS version 10.2.x and above)
 
-  1. Download the file R-2.12.1.dmg and double-click it to mount a
-     "drive" with a name something like "R-2.12.1".  Follow the
+  1. Download the file R-2.15.0.dmg and double-click it to mount a
+     "drive" with a name something like "R-2.15.0".  Follow the
      instructions in the file "ReadMe.txt".
 
   2. To install R/qtl, the simplest approach is to start R and type
@@ -61,7 +61,7 @@ INSTALLATION OF R AND R/NEGENES (MacOS version 10.2.x and above)
      This will download the binary from CRAN and install it.
 
      Alternatively, download the compiled version of R/qtl for 
-     Mac OS X, a file like "negenes_0.98-9.tgz".  Then start R and 
+     Mac OS X, a file like "negenes_1.0-1.tgz".  Then start R and 
      select (on the menu bar) "Packages & Data" -> "Package 
      Installer".  Select "Local Binary Package" from the drop-down 
      menu at the top of the window that comes up.  Click "Install"
@@ -123,4 +123,4 @@ QUESTIONS/COMMENTS/CONCERNS
   regarding R/negenes, please email Karl Broman <kbroman@biostat.wisc.edu>.
 
 ----------------------------------------------------------------------
-end of README.txt
+end of INSTALL_ME.txt