added test comment

diff --git a/Mothur.xcodeproj/project.xcworkspace/contents.xcworkspacedata b/Mothur.xcodeproj/project.xcworkspace/contents.xcworkspacedata
new file mode 100644 (file)
index 0000000..dced794
--- /dev/null
+++ b/Mothur.xcodeproj/project.xcworkspace/contents.xcworkspacedata
@@ -0,0 +1,7 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<Workspace
+   version = "1.0">
+   <FileRef
+      location = "self:Mothur.xcodeproj">
+   </FileRef>
+</Workspace>

diff --git a/Mothur.xcodeproj/project.xcworkspace/xcuserdata/SarahsWork.xcuserdatad/UserInterfaceState.xcuserstate b/Mothur.xcodeproj/project.xcworkspace/xcuserdata/SarahsWork.xcuserdatad/UserInterfaceState.xcuserstate
new file mode 100644 (file)
index 0000000..e9ab15d
Binary files /dev/null and b/Mothur.xcodeproj/project.xcworkspace/xcuserdata/SarahsWork.xcuserdatad/UserInterfaceState.xcuserstate differ

diff --git a/Mothur.xcodeproj/xcuserdata/SarahsWork.xcuserdatad/xcschemes/Mothur.xcscheme b/Mothur.xcodeproj/xcuserdata/SarahsWork.xcuserdatad/xcschemes/Mothur.xcscheme
new file mode 100644 (file)
index 0000000..5184c66
--- /dev/null
+++ b/Mothur.xcodeproj/xcuserdata/SarahsWork.xcuserdatad/xcschemes/Mothur.xcscheme
@@ -0,0 +1,84 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<Scheme
+   version = "1.3">
+   <BuildAction
+      parallelizeBuildables = "YES"
+      buildImplicitDependencies = "YES">
+      <BuildActionEntries>
+         <BuildActionEntry
+            buildForTesting = "YES"
+            buildForRunning = "YES"
+            buildForProfiling = "YES"
+            buildForArchiving = "YES"
+            buildForAnalyzing = "YES">
+            <BuildableReference
+               BuildableIdentifier = "primary"
+               BlueprintIdentifier = "8DD76FA90486AB0100D96B5E"
+               BuildableName = "Mothur"
+               BlueprintName = "Mothur"
+               ReferencedContainer = "container:Mothur.xcodeproj">
+            </BuildableReference>
+         </BuildActionEntry>
+      </BuildActionEntries>
+   </BuildAction>
+   <TestAction
+      selectedDebuggerIdentifier = "Xcode.DebuggerFoundation.Debugger.GDB"
+      selectedLauncherIdentifier = "Xcode.DebuggerFoundation.Launcher.GDB"
+      shouldUseLaunchSchemeArgsEnv = "YES"
+      buildConfiguration = "Debug">
+      <Testables>
+      </Testables>
+      <MacroExpansion>
+         <BuildableReference
+            BuildableIdentifier = "primary"
+            BlueprintIdentifier = "8DD76FA90486AB0100D96B5E"
+            BuildableName = "Mothur"
+            BlueprintName = "Mothur"
+            ReferencedContainer = "container:Mothur.xcodeproj">
+         </BuildableReference>
+      </MacroExpansion>
+   </TestAction>
+   <LaunchAction
+      selectedDebuggerIdentifier = "Xcode.DebuggerFoundation.Debugger.GDB"
+      selectedLauncherIdentifier = "Xcode.DebuggerFoundation.Launcher.GDB"
+      launchStyle = "0"
+      useCustomWorkingDirectory = "NO"
+      buildConfiguration = "Debug"
+      debugDocumentVersioning = "YES"
+      allowLocationSimulation = "YES">
+      <BuildableProductRunnable>
+         <BuildableReference
+            BuildableIdentifier = "primary"
+            BlueprintIdentifier = "8DD76FA90486AB0100D96B5E"
+            BuildableName = "Mothur"
+            BlueprintName = "Mothur"
+            ReferencedContainer = "container:Mothur.xcodeproj">
+         </BuildableReference>
+      </BuildableProductRunnable>
+      <AdditionalOptions>
+      </AdditionalOptions>
+   </LaunchAction>
+   <ProfileAction
+      shouldUseLaunchSchemeArgsEnv = "YES"
+      savedToolIdentifier = ""
+      useCustomWorkingDirectory = "NO"
+      buildConfiguration = "Release"
+      debugDocumentVersioning = "YES">
+      <BuildableProductRunnable>
+         <BuildableReference
+            BuildableIdentifier = "primary"
+            BlueprintIdentifier = "8DD76FA90486AB0100D96B5E"
+            BuildableName = "Mothur"
+            BlueprintName = "Mothur"
+            ReferencedContainer = "container:Mothur.xcodeproj">
+         </BuildableReference>
+      </BuildableProductRunnable>
+   </ProfileAction>
+   <AnalyzeAction
+      buildConfiguration = "Debug">
+   </AnalyzeAction>
+   <ArchiveAction
+      buildConfiguration = "Release"
+      revealArchiveInOrganizer = "YES">
+   </ArchiveAction>
+</Scheme>

diff --git a/Mothur.xcodeproj/xcuserdata/SarahsWork.xcuserdatad/xcschemes/xcschememanagement.plist b/Mothur.xcodeproj/xcuserdata/SarahsWork.xcuserdatad/xcschemes/xcschememanagement.plist
new file mode 100644 (file)
index 0000000..6af31dc
--- /dev/null
+++ b/Mothur.xcodeproj/xcuserdata/SarahsWork.xcuserdatad/xcschemes/xcschememanagement.plist
@@ -0,0 +1,22 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE plist PUBLIC "-//Apple//DTD PLIST 1.0//EN" "http://www.apple.com/DTDs/PropertyList-1.0.dtd">
+<plist version="1.0">
+<dict>
+       <key>SchemeUserState</key>
+       <dict>
+               <key>Mothur.xcscheme</key>
+               <dict>
+                       <key>orderHint</key>
+                       <integer>0</integer>
+               </dict>
+       </dict>
+       <key>SuppressBuildableAutocreation</key>
+       <dict>
+               <key>8DD76FA90486AB0100D96B5E</key>
+               <dict>
+                       <key>primary</key>
+                       <true/>
+               </dict>
+       </dict>
+</dict>
+</plist>

diff --git a/aligncommand.cpp b/aligncommand.cpp
index f03a9017d4867f1d8634a0ef72a25f1590bf13b6..c5104394868fce1cdcdbbfc41b47d7fd8c924b5c 100644 (file)
--- a/aligncommand.cpp
+++ b/aligncommand.cpp
@@ -16,7 +16,7 @@
 
 #include "aligncommand.h"
 #include "referencedb.h"
-
+//test comment
 //**********************************************************************************************************************
 vector<string> AlignCommand::setParameters(){  
        try {