update ramorum citation

grunwaldlab · Jul 24, 2015 · 987f2c2 · 987f2c2
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diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,8 +1,8 @@
 Package: poppr
 Type: Package
 Title: Genetic Analysis of Populations with Mixed Reproduction
-Version: 2.0.2
-Date: 2015-07-19
+Version: 2.0.2.99-3
+Date: 2015-07-23
 Authors@R: c(person(c("Zhian", "N."), "Kamvar", role = c("cre", "aut"),
     email = "kamvarz@science.oregonstate.edu"),
     person(c("Javier", "F."), "Tabima", role = "aut",

diff --git a/R/bruvo.r b/R/bruvo.r
@@ -693,8 +693,8 @@ bruvo.msn <- function (gid, replen = 1, add = TRUE, loss = TRUE,
 #'   
 #'   Kamvar, Z. N., Larsen, M. M., Kanaskie, A. M., Hansen, E. M., & Grünwald,
 #'   N. J. (2015). Spatial and temporal analysis of populations of the sudden
-#'   oak death pathogen in Oregon forests. Phytopathology XXX:X-X.
-#'   \url{http://dx.doi.org/10.1094/PHYTO-12-14-0350-FI}
+#'   oak death pathogen in Oregon forests. Phytopathology 105:982-989.
+#'   doi: \href{http://dx.doi.org/10.1094/PHYTO-12-14-0350-FI}{10.1094/PHYTO-12-14-0350-FI}
 #'   
 #'   Ruzica Bruvo, Nicolaas K. Michiels, Thomas G. D'Souza, and Hinrich 
 #'   Schulenburg. A simple method for the calculation of microsatellite genotype
@@ -759,8 +759,8 @@ consistent_replen <- function(index, alleles, replen){
 #'   
 #'   Kamvar, Z. N., Larsen, M. M., Kanaskie, A. M., Hansen, E. M., & Grünwald,
 #'   N. J. (2015). Spatial and temporal analysis of populations of the sudden
-#'   oak death pathogen in Oregon forests. Phytopathology XXX:X-X.
-#'   \url{http://dx.doi.org/10.1094/PHYTO-12-14-0350-FI}
+#'   oak death pathogen in Oregon forests. Phytopathology 105:982-989.
+#'   doi: \href{http://dx.doi.org/10.1094/PHYTO-12-14-0350-FI}{10.1094/PHYTO-12-14-0350-FI}
 #'   
 #'   Ruzica Bruvo, Nicolaas K. Michiels, Thomas G. D'Souza, and Hinrich 
 #'   Schulenburg. A simple method for the calculation of microsatellite genotype

diff --git a/R/internal.r b/R/internal.r
@@ -142,7 +142,7 @@ NULL
 #'   
 #' @references Kamvar, Z. N., Larsen, M. M., Kanaskie, A. M., Hansen, E. M., & 
 #'   Grünwald, N. J. (2015). Spatial and temporal analysis of populations of the
-#'   sudden oak death pathogen in Oregon forests. Phytopathology XXX:X-X. 
+#'   sudden oak death pathogen in Oregon forests. Phytopathology 105:982-989. 
 #'   doi: \href{http://dx.doi.org/10.1094/PHYTO-12-14-0350-FI}{10.1094/PHYTO-12-14-0350-FI}
 #'   
 #'   Zhian N. Kamvar, Meg M. Larsen, Alan M. Kanaskie, Everett M. Hansen, & 

diff --git a/R/poppr.R b/R/poppr.R
@@ -242,7 +242,7 @@
 #' 
 #' Kamvar, Z. N., Larsen, M. M., Kanaskie, A. M., Hansen, E. M., & Grünwald, N.
 #' J. (2015). Spatial and temporal analysis of populations of the sudden oak
-#' death pathogen in Oregon forests. Phytopathology XXX:X-X. doi: 
+#' death pathogen in Oregon forests. Phytopathology 105:982-989. doi: 
 #' \href{http://dx.doi.org/10.1094/PHYTO-12-14-0350-FI}{10.1094/PHYTO-12-14-0350-FI}
 #' 
 #' 

diff --git a/man/Pram.Rd b/man/Pram.Rd
@@ -34,7 +34,7 @@ other(Pram)$comparePal
 \references{
 Kamvar, Z. N., Larsen, M. M., Kanaskie, A. M., Hansen, E. M., &
   Grünwald, N. J. (2015). Spatial and temporal analysis of populations of the
-  sudden oak death pathogen in Oregon forests. Phytopathology XXX:X-X.
+  sudden oak death pathogen in Oregon forests. Phytopathology 105:982-989.
   doi: \href{http://dx.doi.org/10.1094/PHYTO-12-14-0350-FI}{10.1094/PHYTO-12-14-0350-FI}
 
   Zhian N. Kamvar, Meg M. Larsen, Alan M. Kanaskie, Everett M. Hansen, &

diff --git a/man/fix_replen.Rd b/man/fix_replen.Rd
@@ -77,8 +77,8 @@ Zhian N. Kamvar, Meg M. Larsen, Alan M. Kanaskie, Everett M.
 
   Kamvar, Z. N., Larsen, M. M., Kanaskie, A. M., Hansen, E. M., & Grünwald,
   N. J. (2015). Spatial and temporal analysis of populations of the sudden
-  oak death pathogen in Oregon forests. Phytopathology XXX:X-X.
-  \url{http://dx.doi.org/10.1094/PHYTO-12-14-0350-FI}
+  oak death pathogen in Oregon forests. Phytopathology 105:982-989.
+  doi: \href{http://dx.doi.org/10.1094/PHYTO-12-14-0350-FI}{10.1094/PHYTO-12-14-0350-FI}
 
   Ruzica Bruvo, Nicolaas K. Michiels, Thomas G. D'Souza, and Hinrich
   Schulenburg. A simple method for the calculation of microsatellite genotype

diff --git a/man/poppr-package.Rd b/man/poppr-package.Rd
@@ -227,7 +227,7 @@ of the National Academy of Sciences 111:8791-8796. doi:
 
 Kamvar, Z. N., Larsen, M. M., Kanaskie, A. M., Hansen, E. M., & Grünwald, N.
 J. (2015). Spatial and temporal analysis of populations of the sudden oak
-death pathogen in Oregon forests. Phytopathology XXX:X-X. doi:
+death pathogen in Oregon forests. Phytopathology 105:982-989. doi:
 \href{http://dx.doi.org/10.1094/PHYTO-12-14-0350-FI}{10.1094/PHYTO-12-14-0350-FI}
 
 

diff --git a/man/test_replen.Rd b/man/test_replen.Rd
@@ -38,8 +38,8 @@ Zhian N. Kamvar, Meg M. Larsen, Alan M. Kanaskie, Everett M.
 
   Kamvar, Z. N., Larsen, M. M., Kanaskie, A. M., Hansen, E. M., & Grünwald,
   N. J. (2015). Spatial and temporal analysis of populations of the sudden
-  oak death pathogen in Oregon forests. Phytopathology XXX:X-X.
-  \url{http://dx.doi.org/10.1094/PHYTO-12-14-0350-FI}
+  oak death pathogen in Oregon forests. Phytopathology 105:982-989.
+  doi: \href{http://dx.doi.org/10.1094/PHYTO-12-14-0350-FI}{10.1094/PHYTO-12-14-0350-FI}
 
   Ruzica Bruvo, Nicolaas K. Michiels, Thomas G. D'Souza, and Hinrich
   Schulenburg. A simple method for the calculation of microsatellite genotype