diff --git a/BIN-PHYLO-Tree_building.R b/BIN-PHYLO-Tree_building.R
index aea7482..ec5b014 100644
--- a/BIN-PHYLO-Tree_building.R
+++ b/BIN-PHYLO-Tree_building.R
@@ -27,7 +27,7 @@
 
 
 #TOC> ==========================================================================
-#TOC> 
+#TOC>
 #TOC>   Section  Title                                   Line
 #TOC> -------------------------------------------------------
 #TOC>   1        Calculating Trees                         43
@@ -36,8 +36,8 @@
 #TOC>   1.1.2    ... on Windows                            80
 #TOC>   1.1.3    ... on Linux                              94
 #TOC>   1.1.4    Confirming PROMLPATH                      99
-#TOC>   1.2      Building a maxiiimum likelihood tree     108
-#TOC> 
+#TOC>   1.2      Building a maximum likelihood tree       108
+#TOC>
 #TOC> ==========================================================================
 
 
@@ -67,7 +67,7 @@ if (!require(Rphylip, quietly=TRUE)) {
 # on your computer Phylip has been installed and define the path
 # to the proml program that calculates a maximum-likelihood tree.
 
-# ===  1.1.1  ... on the Mac                      
+# ===  1.1.1  ... on the Mac
 # On the Mac, the standard installation places a phylip folder
 # in the /Applications directory. That folder contains all the
 # individual phylip programs as <name>.app files. These are not
@@ -78,7 +78,7 @@ if (!require(Rphylip, quietly=TRUE)) {
 # directly to that subdirectory to find the program it needs:
 # PROMLPATH <- "/Applications/phylip-3.695/exe/proml.app/Contents/MacOS"
 
-# ===  1.1.2  ... on Windows                      
+# ===  1.1.2  ... on Windows
 # On Windows you need to know where the rograms have been installed, and you
 # need to specify a path that is correct for the Windows OS. Find the folder
 # that is named "exe", and right-click to inspect its properties. The path
@@ -92,12 +92,12 @@ if (!require(Rphylip, quietly=TRUE)) {
 # I have heard that your path must not contain spaces, and it is prudent to
 # avoid other special characters as well.
 
-# ===  1.1.3  ... on Linux                        
+# ===  1.1.3  ... on Linux
 # If you are running Linux I trust you know what to do. It's probably
 # something like
 # PROMLPATH <- "/usr/local/phylip-3.695/bin"
 
-# ===  1.1.4  Confirming PROMLPATH                
+# ===  1.1.4  Confirming PROMLPATH
 # Confirm that the settings are right.
 PROMLPATH                # returns the path
 list.dirs(PROMLPATH)     # returns the directories in that path
@@ -106,7 +106,7 @@ list.files(PROMLPATH)    # lists the files [1] "proml"   "proml.command"
 # If "proml" is NOT among the files that the last command returns, you
 # can't continue. Ask on the mailing list for advice.
 
-# ==   1.2  Building a maxiiimum likelihood tree  ==============================
+# ==   1.2  Building a maximum likelihood tree  ================================
 # Now read the mfa file you have saved in the BIB-PHYLO-Data_preparation unit,
 # as a "proseq" object with the read.protein() function of the RPhylip package: