2014-04-07T11:25:22.620850 p:2992 t:2780 [LOG] -------->>
2014-04-07T11:25:22.620850 p:2992 t:2780 [LOG] Core session started by User on OPENSPIM01
2014-04-07T11:25:22.620850 p:2992 t:2780 [LOG] Debug logging disabled
2014-04-07T11:25:22.620850 p:2992 t:2780 [LOG] Debug logging enabled
2014-04-07T11:25:22.620850 p:2992 t:2780 [LOG] > MM Studio version: 1.4.x dev
2014-04-07T11:25:22.620850 p:2992 t:2780 [LOG] > MMCore version 2.3.2
2014-04-07T11:25:22.620850 p:2992 t:2780 [LOG] > Device API version 57, Module API version 8
2014-04-07T11:25:22.620850 p:2992 t:2780 [LOG] > Operating System: Windows 7 (x86) 6.1
2014-04-07T11:25:22.620850 p:2992 t:2780 [LOG] > JVM: Java HotSpot(TM) Client VM, version 1.6.0_24, 32-bit
2014-04-07T11:25:22.620850 p:2992 t:2780 [dbg] Circular buffer set to 25 MB.
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > Failed to load spim.FitPlane$1 java.lang.ClassNotFoundException: org.apache.commons.math.analysis.MultivariateRealFunction
java.lang.NoClassDefFoundError: org/apache/commons/math/analysis/MultivariateRealFunction in Thread[Plugin loading,6,main]
  at java.lang.ClassLoader.defineClass1(Native Method)
  at java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
  at java.lang.ClassLoader.defineClass(ClassLoader.java:616)
  at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
  at java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
  at java.net.URLClassLoader.access$000(URLClassLoader.java:58)
  at java.net.URLClassLoader$1.run(URLClassLoader.java:197)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.analysis.MultivariateRealFunction
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.ClassLoader.defineClass1(Native Method)
  at java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
  at java.lang.ClassLoader.defineClass(ClassLoader.java:616)
  at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
  at java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
  at java.net.URLClassLoader.access$000(URLClassLoader.java:58)
  at java.net.URLClassLoader$1.run(URLClassLoader.java:197)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.lang.ClassLoader.defineClass1(Native Method)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.lang.ClassLoader.defineClass(ClassLoader.java:616)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.net.URLClassLoader.access$000(URLClassLoader.java:58)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:197)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > Failed to load spim.FitPlane java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:25:22.636450 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > Failed to load spim.FitSphere$1 java.lang.ClassNotFoundException: org.apache.commons.math.analysis.MultivariateRealFunction
java.lang.NoClassDefFoundError: org/apache/commons/math/analysis/MultivariateRealFunction in Thread[Plugin loading,6,main]
  at java.lang.ClassLoader.defineClass1(Native Method)
  at java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
  at java.lang.ClassLoader.defineClass(ClassLoader.java:616)
  at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
  at java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
  at java.net.URLClassLoader.access$000(URLClassLoader.java:58)
  at java.net.URLClassLoader$1.run(URLClassLoader.java:197)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.analysis.MultivariateRealFunction
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.ClassLoader.defineClass1(Native Method)
  at java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
  at java.lang.ClassLoader.defineClass(ClassLoader.java:616)
  at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
  at java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
  at java.net.URLClassLoader.access$000(URLClassLoader.java:58)
  at java.net.URLClassLoader$1.run(URLClassLoader.java:197)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.lang.ClassLoader.defineClass1(Native Method)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.lang.ClassLoader.defineClass(ClassLoader.java:616)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.net.URLClassLoader.access$000(URLClassLoader.java:58)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:197)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > Failed to load spim.FitSphere java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:25:22.652050 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > Failed to load spim.PixelSizeCalibrator$GridLineFinder$1 java.lang.ClassNotFoundException: org.apache.commons.math.analysis.MultivariateRealFunction
java.lang.NoClassDefFoundError: org/apache/commons/math/analysis/MultivariateRealFunction in Thread[Plugin loading,6,main]
  at java.lang.ClassLoader.defineClass1(Native Method)
  at java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
  at java.lang.ClassLoader.defineClass(ClassLoader.java:616)
  at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
  at java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
  at java.net.URLClassLoader.access$000(URLClassLoader.java:58)
  at java.net.URLClassLoader$1.run(URLClassLoader.java:197)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.analysis.MultivariateRealFunction
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.ClassLoader.defineClass1(Native Method)
  at java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
  at java.lang.ClassLoader.defineClass(ClassLoader.java:616)
  at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
  at java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
  at java.net.URLClassLoader.access$000(URLClassLoader.java:58)
  at java.net.URLClassLoader$1.run(URLClassLoader.java:197)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.lang.ClassLoader.defineClass1(Native Method)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.lang.ClassLoader.defineClass(ClassLoader.java:616)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.net.URLClassLoader.access$000(URLClassLoader.java:58)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:197)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > Failed to load spim.PixelSizeCalibrator$GridLineFinder java.lang.ClassNotFoundException: org.apache.commons.math.optimization.direct.AbstractSimplex
java.lang.NoClassDefFoundError: org/apache/commons/math/optimization/direct/AbstractSimplex in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.optimization.direct.AbstractSimplex
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:25:22.667650 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.683250 p:2992 t:548 [LOG] > Failed to load spim.progacq.IntensityMeanAntiDrift java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.683250 p:2992 t:548 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:25:22.683250 p:2992 t:548 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:25:22.683250 p:2992 t:548 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:25:22.683250 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:25:22.683250 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:25:22.683250 p:2992 t:548 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:25:22.683250 p:2992 t:548 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:25:22.683250 p:2992 t:548 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:25:22.683250 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:25:22.683250 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:25:22.683250 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > Failed to load spim.progacq.ProjDiffAntiDrift$1 java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > Failed to load spim.progacq.ProjDiffAntiDrift$AdjusterGUI java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > Failed to load spim.progacq.ProjDiffAntiDrift java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:25:22.698850 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > Failed to load spim.SPIMAcquisition java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > Failed to load spim.SPIMAutoCalibrator java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > Failed to load spim.SPIMManualCalibrator java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > #uManager plugins: 94
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: javax.swing.event.ChangeListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ItemListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ItemListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: javax.swing.event.ChangeListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.MouseListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.lang.Runnable
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: spim.progacq.AcqOutputHandler
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.lang.Thread$UncaughtExceptionHandler
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: spim.progacq.AcqOutputHandler
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.MouseListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: spim.progacq.AcqOutputHandler
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: spim.progacq.AcqOutputHandler
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: spim.progacq.AntiDrift$Callback
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.lang.Runnable
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.lang.Runnable
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: javax.swing.event.ChangeListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.KeyListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.lang.Iterable
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ItemListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ItemListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ItemListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ItemListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ItemListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.util.Comparator
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: spim.progacq.AntiDrift$Factory
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: spim.progacq.AntiDrift$Factory
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: spim.progacq.AntiDrift$Factory
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: spim.progacq.ProgrammaticAcquisitor$AcqProgressCallback
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: spim.SPIMAutoCalibrator$RunnableWRet
2014-04-07T11:25:22.761251 p:2992 t:548 [LOG] > interface found: java.lang.Runnable
2014-04-07T11:25:22.808051 p:2992 t:548 [LOG] > Attempting to install autofocus plugin Autofocus
2014-04-07T11:25:22.808051 p:2992 t:548 [LOG] > Attempting to install autofocus plugin AutofocusDuo
2014-04-07T11:25:22.808051 p:2992 t:548 [LOG] > Attempting to install autofocus plugin AutofocusTB
2014-04-07T11:25:22.808051 p:2992 t:548 [LOG] > Attempting to install autofocus plugin OughtaFocus
2014-04-07T11:25:26.318057 p:2992 t:2780 [dbg] Will set property: "Core"-"Initialize" = "0"
2014-04-07T11:25:26.318057 p:2992 t:2780 [LOG] All devices unloaded.
2014-04-07T11:25:26.318057 p:2992 t:2780 [dbg] > Notification for Device: Core Property: Initialize changed to value: 0
2014-04-07T11:25:26.318057 p:2992 t:2780 [dbg] Did set property: "Core"-"Initialize" = "0"
2014-04-07T11:25:26.427257 p:2992 t:2780 [LOG] Device COM3 loaded from SerialManager and labeled as COM3
2014-04-07T11:25:26.474057 p:2992 t:2780 [LOG] Device Cobolt loaded from Cobolt and labeled as Cobolt
2014-04-07T11:25:26.942058 p:2992 t:2780 [LOG] Device HamamatsuHam_DCAM loaded from HamamatsuHam and labeled as OrcaFlash
2014-04-07T11:25:27.566059 p:2992 t:2780 [LOG] Device Picard Twister loaded from PicardStage and labeled as Picard Twister
2014-04-07T11:25:27.566059 p:2992 t:2780 [LOG] Device Picard Z Stage loaded from PicardStage and labeled as Picard Z Stage
2014-04-07T11:25:27.566059 p:2992 t:2780 [LOG] Device Picard XY Stage loaded from PicardStage and labeled as Picard XY Stage
2014-04-07T11:25:27.566059 p:2992 t:2780 [dbg] Will set property: "Cobolt"-"Max Power" = "60.0000"
2014-04-07T11:25:27.566059 p:2992 t:2780 [dbg] Did set property: "Cobolt"-"Max Power" = "60.0000"
2014-04-07T11:25:27.566059 p:2992 t:2780 [dbg] Will set property: "Cobolt"-"Port" = "COM3"
2014-04-07T11:25:27.566059 p:2992 t:2780 [dbg] Did set property: "Cobolt"-"Port" = "COM3"
2014-04-07T11:25:27.566059 p:2992 t:2780 [dbg] Will set property: "Picard Twister"-"Serial Number" = "37"
2014-04-07T11:25:27.581659 p:2992 t:2780 [dbg] Did set property: "Picard Twister"-"Serial Number" = "37"
2014-04-07T11:25:27.581659 p:2992 t:2780 [dbg] Will set property: "Picard Z Stage"-"Serial Number" = "140"
2014-04-07T11:25:27.597259 p:2992 t:2780 [dbg] Did set property: "Picard Z Stage"-"Serial Number" = "140"
2014-04-07T11:25:27.597259 p:2992 t:2780 [dbg] Will set property: "Picard XY Stage"-"Serial Number (X)" = "139"
2014-04-07T11:25:27.612859 p:2992 t:2780 [dbg] Did set property: "Picard XY Stage"-"Serial Number (X)" = "139"
2014-04-07T11:25:27.612859 p:2992 t:2780 [dbg] Will set property: "Picard XY Stage"-"Serial Number (Y)" = "141"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Did set property: "Picard XY Stage"-"Serial Number (Y)" = "141"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Will set property: "Picard XY Stage"-"X-Max" = "8000"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Did set property: "Picard XY Stage"-"X-Max" = "8000"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Will set property: "Picard XY Stage"-"X-Min" = "1"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Did set property: "Picard XY Stage"-"X-Min" = "1"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Will set property: "Picard XY Stage"-"Y-Max" = "8000"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Did set property: "Picard XY Stage"-"Y-Max" = "8000"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Will set property: "Picard XY Stage"-"Y-Min" = "1"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Did set property: "Picard XY Stage"-"Y-Min" = "1"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Will set property: "COM3"-"AnswerTimeout" = "500.0000"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Did set property: "COM3"-"AnswerTimeout" = "500.0000"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Will set property: "COM3"-"BaudRate" = "115200"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Did set property: "COM3"-"BaudRate" = "115200"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Will set property: "COM3"-"DelayBetweenCharsMs" = "0.0000"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Did set property: "COM3"-"DelayBetweenCharsMs" = "0.0000"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Will set property: "COM3"-"Handshaking" = "Off"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Did set property: "COM3"-"Handshaking" = "Off"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Will set property: "COM3"-"Parity" = "None"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Did set property: "COM3"-"Parity" = "None"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Will set property: "COM3"-"StopBits" = "1"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Did set property: "COM3"-"StopBits" = "1"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Will set property: "COM3"-"Verbose" = "1"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Did set property: "COM3"-"Verbose" = "1"
2014-04-07T11:25:27.628459 p:2992 t:2780 [dbg] Will set property: "Core"-"Initialize" = "1"
2014-04-07T11:25:27.628459 p:2992 t:2780 [LOG] Starting initialization sequence for 6 devices...
2014-04-07T11:25:27.644059 p:2992 t:2780 [dbg] Device COM3 debug message: Attempting to set baud of COM3 to 115200
2014-04-07T11:25:27.644059 p:2992 t:2780 [dbg] Device COM3 debug message: Attempting to set flow of COM3 to none
2014-04-07T11:25:27.659659 p:2992 t:2780 [dbg] Device COM3 debug message: Attempting to set parity of COM3 to none
2014-04-07T11:25:27.675259 p:2992 t:2780 [dbg] Device COM3 debug message: Attempting to set stopBits of COM3 to 1
2014-04-07T11:25:27.690859 p:2992 t:2780 [LOG] Device COM3 initialized.
2014-04-07T11:25:27.690859 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> i? \r
2014-04-07T11:25:27.737659 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 4
2014-04-07T11:25:27.737659 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- 0.0\r
2014-04-07T11:25:27.737659 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> f? \r
2014-04-07T11:25:27.784459 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 4
2014-04-07T11:25:27.784459 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:25:27.784459 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> hrs? \r
2014-04-07T11:25:27.831259 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 4
2014-04-07T11:25:27.831259 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n98.24\r
2014-04-07T11:25:27.831259 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> ilk? \r
2014-04-07T11:25:27.862460 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 3
2014-04-07T11:25:27.862460 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:25:27.862460 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> l? \r
2014-04-07T11:25:27.924860 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 5
2014-04-07T11:25:27.924860 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:25:27.924860 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> l? \r
2014-04-07T11:25:27.956060 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 3
2014-04-07T11:25:27.956060 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:25:27.956060 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> pa? \r
2014-04-07T11:25:28.018460 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 5
2014-04-07T11:25:28.018460 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n-0.0000\r
2014-04-07T11:25:28.018460 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> p? \r
2014-04-07T11:25:28.065260 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 4
2014-04-07T11:25:28.065260 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n0.0235\r
2014-04-07T11:25:28.065260 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> sn? \r
2014-04-07T11:25:28.096460 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 3
2014-04-07T11:25:28.096460 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n488006152\r
2014-04-07T11:25:28.096460 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> ver? \r
2014-04-07T11:25:28.143260 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 4
2014-04-07T11:25:28.143260 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n6.65\r
2014-04-07T11:25:28.143260 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> l0\r
2014-04-07T11:25:28.205660 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 5
2014-04-07T11:25:28.205660 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \nOK\r
2014-04-07T11:25:28.205660 p:2992 t:2780 [LOG] Device Cobolt set as default shutter.
2014-04-07T11:25:28.205660 p:2992 t:2780 [LOG] Device Cobolt initialized.
2014-04-07T11:25:29.691939 p:2992 t:2780 [LOG] Device OrcaFlash set as default camera.
2014-04-07T11:25:29.691939 p:2992 t:2780 [LOG] Device OrcaFlash initialized.
2014-04-07T11:25:29.696939 p:2992 t:2780 [LOG] Device Picard Twister initialized.
2014-04-07T11:25:29.716941 p:2992 t:2780 [LOG] Device Picard Z Stage initialized.
2014-04-07T11:25:29.752943 p:2992 t:2780 [LOG] Device Picard XY Stage set as default xyStage.
2014-04-07T11:25:29.752943 p:2992 t:2780 [LOG] Device Picard XY Stage initialized.
2014-04-07T11:25:29.752943 p:2992 t:2780 [dbg] > Notification for Device: Core Property: Initialize changed to value: 1
2014-04-07T11:25:29.752943 p:2992 t:2780 [dbg] Did set property: "Core"-"Initialize" = "1"
2014-04-07T11:25:29.752943 p:2992 t:2780 [dbg] Will set property: "Core"-"Camera" = "OrcaFlash"
2014-04-07T11:25:29.752943 p:2992 t:2780 [LOG] Camera device set to OrcaFlash
2014-04-07T11:25:29.752943 p:2992 t:2780 [dbg] > Notification for Device: Core Property: Camera changed to value: OrcaFlash
2014-04-07T11:25:29.752943 p:2992 t:2780 [dbg] Did set property: "Core"-"Camera" = "OrcaFlash"
2014-04-07T11:25:29.752943 p:2992 t:2780 [dbg] Will set property: "Core"-"Shutter" = "Cobolt"
2014-04-07T11:25:29.752943 p:2992 t:2780 [dbg] > Notification for Device: Core Property: Shutter changed to value: Cobolt
2014-04-07T11:25:29.752943 p:2992 t:2780 [dbg] Did set property: "Core"-"Shutter" = "Cobolt"
2014-04-07T11:25:29.752943 p:2992 t:2780 [dbg] Will set property: "Core"-"Focus" = "Picard Z Stage"
2014-04-07T11:25:29.752943 p:2992 t:2780 [LOG] Focus device set to Picard Z Stage
2014-04-07T11:25:29.752943 p:2992 t:2780 [dbg] > Notification for Device: Core Property: Focus changed to value: Picard Z Stage
2014-04-07T11:25:29.752943 p:2992 t:2780 [dbg] Did set property: "Core"-"Focus" = "Picard Z Stage"
2014-04-07T11:25:29.752943 p:2992 t:2780 [dbg] Will set property: "Core"-"AutoShutter" = "1"
2014-04-07T11:25:29.752943 p:2992 t:2780 [LOG] Auto shutter ON.
2014-04-07T11:25:29.752943 p:2992 t:2780 [dbg] > Notification for Device: Core Property: AutoShutter changed to value: 1
2014-04-07T11:25:29.752943 p:2992 t:2780 [dbg] Did set property: "Core"-"AutoShutter" = "1"
2014-04-07T11:25:29.753943 p:2992 t:2780 [dbg] Waiting for device COM3...
2014-04-07T11:25:29.753943 p:2992 t:2780 [dbg] Finished waiting.
2014-04-07T11:25:29.753943 p:2992 t:2780 [dbg] Waiting for device Cobolt...
2014-04-07T11:25:29.753943 p:2992 t:2780 [dbg] Finished waiting.
2014-04-07T11:25:29.753943 p:2992 t:2780 [dbg] Waiting for device OrcaFlash...
2014-04-07T11:25:29.754943 p:2992 t:2780 [dbg] Finished waiting.
2014-04-07T11:25:29.754943 p:2992 t:2780 [dbg] Waiting for device Picard Twister...
2014-04-07T11:25:29.754943 p:2992 t:2780 [dbg] Finished waiting.
2014-04-07T11:25:29.754943 p:2992 t:2780 [dbg] Waiting for device Picard Z Stage...
2014-04-07T11:25:29.754943 p:2992 t:2780 [dbg] Finished waiting.
2014-04-07T11:25:29.754943 p:2992 t:2780 [dbg] Waiting for device Picard XY Stage...
2014-04-07T11:25:29.784944 p:2992 t:2780 [dbg] Finished waiting.
2014-04-07T11:25:29.784944 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> i? \r
2014-04-07T11:25:29.793945 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 10
2014-04-07T11:25:29.793945 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n0.0\r
2014-04-07T11:25:29.793945 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> f? \r
2014-04-07T11:25:29.803946 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:25:29.803946 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:25:29.803946 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> hrs? \r
2014-04-07T11:25:29.813946 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:25:29.813946 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n98.24\r
2014-04-07T11:25:29.813946 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> ilk? \r
2014-04-07T11:25:29.823947 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:25:29.823947 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:25:29.823947 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> l? \r
2014-04-07T11:25:29.833947 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:25:29.833947 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:25:29.833947 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> l? \r
2014-04-07T11:25:29.843948 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:25:29.843948 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:25:29.843948 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> pa? \r
2014-04-07T11:25:29.853948 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:25:29.853948 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n-0.0000\r
2014-04-07T11:25:29.853948 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> p? \r
2014-04-07T11:25:29.863949 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:25:29.863949 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n0.0235\r
2014-04-07T11:25:29.863949 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> sn? \r
2014-04-07T11:25:29.873950 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:25:29.873950 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n488006152\r
2014-04-07T11:25:29.873950 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> ver? \r
2014-04-07T11:25:29.883950 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:25:29.883950 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n6.65\r
2014-04-07T11:25:29.883950 p:2992 t:2780 [LOG] System state cache updated.
2014-04-07T11:25:29.968955 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> l? \r
2014-04-07T11:25:29.983956 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 16
2014-04-07T11:25:29.983956 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:25:29.983956 p:2992 t:2780 [LOG] Error occurred. Device CMMCore::getShutterOpen(). Error in device Cobolt: Invalid state (position) requested.
2014-04-07T11:25:29.988956 p:2992 t:2780 [LOG] > 
java.lang.Exception: Error in device Cobolt: Invalid state (position) requested.  in Thread[AWT-EventQueue-0,6,main]
  at mmcorej.MMCoreJJNI.CMMCore_getShutterOpen(Native Method)
  at mmcorej.CMMCore.getShutterOpen(CMMCore.java:837)
  at org.micromanager.MMStudioMainFrame.updateGUI(MMStudioMainFrame.java:2948)
  at org.micromanager.MMStudioMainFrame.updateGUI(MMStudioMainFrame.java:2918)
  at org.micromanager.MMStudioMainFrame.initializeGUI(MMStudioMainFrame.java:2875)
  at org.micromanager.MMStudioMainFrame.loadSystemConfiguration(MMStudioMainFrame.java:3303)
  at org.micromanager.MMStudioMainFrame.access$2400(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48.windowOpened(MMStudioMainFrame.java:1514)
  at java.awt.AWTEventMulticaster.windowOpened(AWTEventMulticaster.java:322)
  at java.awt.Window.processWindowEvent(Window.java:1862)
  at javax.swing.JFrame.processWindowEvent(JFrame.java:274)
  at java.awt.Window.processEvent(Window.java:1823)
  at java.awt.Component.dispatchEventImpl(Component.java:4652)
  at java.awt.Container.dispatchEventImpl(Container.java:2099)
  at java.awt.Window.dispatchEventImpl(Window.java:2478)
  at java.awt.Component.dispatchEvent(Component.java:4482)
  at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:644)
  at java.awt.EventQueue.access$000(EventQueue.java:85)
  at java.awt.EventQueue$1.run(EventQueue.java:603)
  at java.awt.EventQueue$1.run(EventQueue.java:601)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:87)
  at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:98)
  at java.awt.EventQueue$2.run(EventQueue.java:617)
  at java.awt.EventQueue$2.run(EventQueue.java:615)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:87)
  at java.awt.EventQueue.dispatchEvent(EventQueue.java:614)
  at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
  at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
  at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:174)
  at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:169)
  at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:161)
  at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)
2014-04-07T11:25:29.991956 p:2992 t:2780 [LOG] > Startup script file (C:\Users\User\Desktop\OpenSPIM.app/MMStartup.bsh) not present.
2014-04-07T11:25:30.388979 p:2992 t:2780 [LOG] > [UI] JButton "OK" clicked in MMIntroDlg.
2014-04-07T11:25:35.098248 p:2992 t:2780 [LOG] > [UI] JMenu "Plugins" clicked in MMStudioMainFrame.
2014-04-07T11:25:43.545732 p:2992 t:2780 [LOG] > [UI] JMenu "Plugins" clicked in MMStudioMainFrame.
2014-04-07T11:25:57.209513 p:2992 t:2780 [LOG] > [UI] JMenu "Plugins" clicked in MMStudioMainFrame.
2014-04-07T11:26:07.475100 p:2992 t:2780 [dbg] Waiting for device COM3...
2014-04-07T11:26:07.475100 p:2992 t:2780 [dbg] Finished waiting.
2014-04-07T11:26:07.475100 p:2992 t:2780 [dbg] Waiting for device Cobolt...
2014-04-07T11:26:07.475100 p:2992 t:2780 [dbg] Finished waiting.
2014-04-07T11:26:07.475100 p:2992 t:2780 [dbg] Waiting for device OrcaFlash...
2014-04-07T11:26:07.475100 p:2992 t:2780 [dbg] Finished waiting.
2014-04-07T11:26:07.475100 p:2992 t:2780 [dbg] Waiting for device Picard Twister...
2014-04-07T11:26:07.475100 p:2992 t:2780 [dbg] Finished waiting.
2014-04-07T11:26:07.475100 p:2992 t:2780 [dbg] Waiting for device Picard Z Stage...
2014-04-07T11:26:07.475100 p:2992 t:2780 [dbg] Finished waiting.
2014-04-07T11:26:07.475100 p:2992 t:2780 [dbg] Waiting for device Picard XY Stage...
2014-04-07T11:26:07.475100 p:2992 t:2780 [dbg] Finished waiting.
2014-04-07T11:26:07.584106 p:2992 t:2780 [dbg] Device COM3 debug message: SetCommand -> l0\r
2014-04-07T11:26:07.631907 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer # retries = 5
2014-04-07T11:26:07.631907 p:2992 t:2780 [dbg] Device COM3 debug message: GetAnswer <- \nOK\r
2014-04-07T11:27:40.982875 p:6356 t:6460 [LOG] -------->>
2014-04-07T11:27:40.982875 p:6356 t:6460 [LOG] Core session started by User on OPENSPIM01
2014-04-07T11:27:40.982875 p:6356 t:6460 [LOG] Debug logging disabled
2014-04-07T11:27:40.982875 p:6356 t:6460 [LOG] Debug logging enabled
2014-04-07T11:27:40.982875 p:6356 t:6460 [LOG] > MM Studio version: 1.4.x dev
2014-04-07T11:27:40.982875 p:6356 t:6460 [LOG] > MMCore version 2.3.2
2014-04-07T11:27:40.982875 p:6356 t:6460 [LOG] > Device API version 57, Module API version 8
2014-04-07T11:27:40.982875 p:6356 t:6460 [LOG] > Operating System: Windows 7 (x86) 6.1
2014-04-07T11:27:40.982875 p:6356 t:6460 [LOG] > JVM: Java HotSpot(TM) Client VM, version 1.6.0_24, 32-bit
2014-04-07T11:27:40.982875 p:6356 t:6460 [dbg] Circular buffer set to 25 MB.
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > Failed to load spim.FitPlane$1 java.lang.ClassNotFoundException: org.apache.commons.math.analysis.MultivariateRealFunction
java.lang.NoClassDefFoundError: org/apache/commons/math/analysis/MultivariateRealFunction in Thread[Plugin loading,6,main]
  at java.lang.ClassLoader.defineClass1(Native Method)
  at java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
  at java.lang.ClassLoader.defineClass(ClassLoader.java:616)
  at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
  at java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
  at java.net.URLClassLoader.access$000(URLClassLoader.java:58)
  at java.net.URLClassLoader$1.run(URLClassLoader.java:197)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.analysis.MultivariateRealFunction
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.ClassLoader.defineClass1(Native Method)
  at java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
  at java.lang.ClassLoader.defineClass(ClassLoader.java:616)
  at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
  at java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
  at java.net.URLClassLoader.access$000(URLClassLoader.java:58)
  at java.net.URLClassLoader$1.run(URLClassLoader.java:197)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.defineClass1(Native Method)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.defineClass(ClassLoader.java:616)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.net.URLClassLoader.access$000(URLClassLoader.java:58)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:197)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > Failed to load spim.FitPlane java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > Failed to load spim.FitSphere$1 java.lang.ClassNotFoundException: org.apache.commons.math.analysis.MultivariateRealFunction
java.lang.NoClassDefFoundError: org/apache/commons/math/analysis/MultivariateRealFunction in Thread[Plugin loading,6,main]
  at java.lang.ClassLoader.defineClass1(Native Method)
  at java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
  at java.lang.ClassLoader.defineClass(ClassLoader.java:616)
  at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
  at java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
  at java.net.URLClassLoader.access$000(URLClassLoader.java:58)
  at java.net.URLClassLoader$1.run(URLClassLoader.java:197)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.analysis.MultivariateRealFunction
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.ClassLoader.defineClass1(Native Method)
  at java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
  at java.lang.ClassLoader.defineClass(ClassLoader.java:616)
  at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
  at java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
  at java.net.URLClassLoader.access$000(URLClassLoader.java:58)
  at java.net.URLClassLoader$1.run(URLClassLoader.java:197)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.defineClass1(Native Method)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.defineClass(ClassLoader.java:616)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.net.URLClassLoader.access$000(URLClassLoader.java:58)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:197)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > Failed to load spim.FitSphere java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:27:40.998475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > Failed to load spim.PixelSizeCalibrator$GridLineFinder$1 java.lang.ClassNotFoundException: org.apache.commons.math.analysis.MultivariateRealFunction
java.lang.NoClassDefFoundError: org/apache/commons/math/analysis/MultivariateRealFunction in Thread[Plugin loading,6,main]
  at java.lang.ClassLoader.defineClass1(Native Method)
  at java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
  at java.lang.ClassLoader.defineClass(ClassLoader.java:616)
  at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
  at java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
  at java.net.URLClassLoader.access$000(URLClassLoader.java:58)
  at java.net.URLClassLoader$1.run(URLClassLoader.java:197)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.analysis.MultivariateRealFunction
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.ClassLoader.defineClass1(Native Method)
  at java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
  at java.lang.ClassLoader.defineClass(ClassLoader.java:616)
  at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
  at java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
  at java.net.URLClassLoader.access$000(URLClassLoader.java:58)
  at java.net.URLClassLoader$1.run(URLClassLoader.java:197)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.lang.ClassLoader.defineClass1(Native Method)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.lang.ClassLoader.defineClassCond(ClassLoader.java:632)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.lang.ClassLoader.defineClass(ClassLoader.java:616)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.net.URLClassLoader.access$000(URLClassLoader.java:58)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:197)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > Failed to load spim.PixelSizeCalibrator$GridLineFinder java.lang.ClassNotFoundException: org.apache.commons.math.optimization.direct.AbstractSimplex
java.lang.NoClassDefFoundError: org/apache/commons/math/optimization/direct/AbstractSimplex in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.optimization.direct.AbstractSimplex
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:27:41.029675 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > Failed to load spim.progacq.IntensityMeanAntiDrift java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > Failed to load spim.progacq.ProjDiffAntiDrift$1 java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:27:41.060875 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > Failed to load spim.progacq.ProjDiffAntiDrift$AdjusterGUI java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > Failed to load spim.progacq.ProjDiffAntiDrift java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:27:41.076475 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > Failed to load spim.SPIMAcquisition java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > Failed to load spim.SPIMAutoCalibrator java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:27:41.123276 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > Failed to load spim.SPIMManualCalibrator java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
java.lang.NoClassDefFoundError: org/apache/commons/math/geometry/Vector in Thread[Plugin loading,6,main]
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.math.geometry.Vector
  at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
  at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
  at java.lang.Class.forName0(Native Method)
  at java.lang.Class.forName(Class.java:169)
  at org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
  at org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
  at org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > java.net.URLClassLoader$1.run(URLClassLoader.java:202)
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > java.security.AccessController.doPrivileged(Native Method)
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > java.net.URLClassLoader.findClass(URLClassLoader.java:190)
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:307)
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > java.lang.ClassLoader.loadClass(ClassLoader.java:248)
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > java.lang.Class.forName0(Native Method)
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > java.lang.Class.forName(Class.java:169)
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > org.micromanager.utils.JavaUtils.findClasses(JavaUtils.java:82)
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.loadPlugins(MMStudioMainFrame.java:4411)
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame.access$5800(MMStudioMainFrame.java:155)
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > org.micromanager.MMStudioMainFrame$48$ThreadPluginLoading.run(MMStudioMainFrame.java:1574)
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > #uManager plugins: 94
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: javax.swing.event.ChangeListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ItemListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ItemListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: javax.swing.event.ChangeListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.MouseListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.lang.Runnable
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: spim.progacq.AcqOutputHandler
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.lang.Thread$UncaughtExceptionHandler
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: spim.progacq.AcqOutputHandler
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.MouseListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: spim.progacq.AcqOutputHandler
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: spim.progacq.AcqOutputHandler
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: spim.progacq.AntiDrift$Callback
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.lang.Runnable
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.lang.Runnable
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: javax.swing.event.ChangeListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.KeyListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.lang.Iterable
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ItemListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ItemListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ItemListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ItemListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ItemListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.util.Comparator
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: spim.progacq.AntiDrift$Factory
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: spim.progacq.AntiDrift$Factory
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: spim.progacq.AntiDrift$Factory
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: spim.progacq.ProgrammaticAcquisitor$AcqProgressCallback
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.awt.event.ActionListener
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: spim.SPIMAutoCalibrator$RunnableWRet
2014-04-07T11:27:41.138876 p:6356 t:6332 [LOG] > interface found: java.lang.Runnable
2014-04-07T11:27:41.154476 p:6356 t:6332 [LOG] > Attempting to install autofocus plugin Autofocus
2014-04-07T11:27:41.154476 p:6356 t:6332 [LOG] > Attempting to install autofocus plugin AutofocusDuo
2014-04-07T11:27:41.154476 p:6356 t:6332 [LOG] > Attempting to install autofocus plugin AutofocusTB
2014-04-07T11:27:41.154476 p:6356 t:6332 [LOG] > Attempting to install autofocus plugin OughtaFocus
2014-04-07T11:27:46.489685 p:6356 t:6460 [dbg] Will set property: "Core"-"Initialize" = "0"
2014-04-07T11:27:46.489685 p:6356 t:6460 [LOG] All devices unloaded.
2014-04-07T11:27:46.489685 p:6356 t:6460 [dbg] > Notification for Device: Core Property: Initialize changed to value: 0
2014-04-07T11:27:46.489685 p:6356 t:6460 [dbg] Did set property: "Core"-"Initialize" = "0"
2014-04-07T11:27:46.489685 p:6356 t:6460 [LOG] Device COM3 loaded from SerialManager and labeled as COM3
2014-04-07T11:27:46.489685 p:6356 t:6460 [LOG] Device Cobolt loaded from Cobolt and labeled as Cobolt
2014-04-07T11:27:46.505285 p:6356 t:6460 [LOG] Device HamamatsuHam_DCAM loaded from HamamatsuHam and labeled as OrcaFlash
2014-04-07T11:27:47.020086 p:6356 t:6460 [LOG] Device Picard Twister loaded from PicardStage and labeled as Picard Twister
2014-04-07T11:27:47.020086 p:6356 t:6460 [LOG] Device Picard Z Stage loaded from PicardStage and labeled as Picard Z Stage
2014-04-07T11:27:47.020086 p:6356 t:6460 [LOG] Device Picard XY Stage loaded from PicardStage and labeled as Picard XY Stage
2014-04-07T11:27:47.020086 p:6356 t:6460 [dbg] Will set property: "Cobolt"-"Max Power" = "60.0000"
2014-04-07T11:27:47.020086 p:6356 t:6460 [dbg] Did set property: "Cobolt"-"Max Power" = "60.0000"
2014-04-07T11:27:47.020086 p:6356 t:6460 [dbg] Will set property: "Cobolt"-"Port" = "COM3"
2014-04-07T11:27:47.020086 p:6356 t:6460 [dbg] Did set property: "Cobolt"-"Port" = "COM3"
2014-04-07T11:27:47.020086 p:6356 t:6460 [dbg] Will set property: "Picard Twister"-"Serial Number" = "37"
2014-04-07T11:27:47.035686 p:6356 t:6460 [dbg] Did set property: "Picard Twister"-"Serial Number" = "37"
2014-04-07T11:27:47.035686 p:6356 t:6460 [dbg] Will set property: "Picard Z Stage"-"Serial Number" = "140"
2014-04-07T11:27:47.051286 p:6356 t:6460 [dbg] Did set property: "Picard Z Stage"-"Serial Number" = "140"
2014-04-07T11:27:47.051286 p:6356 t:6460 [dbg] Will set property: "Picard XY Stage"-"Serial Number (X)" = "139"
2014-04-07T11:27:47.066886 p:6356 t:6460 [dbg] Did set property: "Picard XY Stage"-"Serial Number (X)" = "139"
2014-04-07T11:27:47.066886 p:6356 t:6460 [dbg] Will set property: "Picard XY Stage"-"Serial Number (Y)" = "141"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Did set property: "Picard XY Stage"-"Serial Number (Y)" = "141"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Will set property: "Picard XY Stage"-"X-Max" = "8000"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Did set property: "Picard XY Stage"-"X-Max" = "8000"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Will set property: "Picard XY Stage"-"X-Min" = "1"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Did set property: "Picard XY Stage"-"X-Min" = "1"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Will set property: "Picard XY Stage"-"Y-Max" = "8000"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Did set property: "Picard XY Stage"-"Y-Max" = "8000"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Will set property: "Picard XY Stage"-"Y-Min" = "1"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Did set property: "Picard XY Stage"-"Y-Min" = "1"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Will set property: "COM3"-"AnswerTimeout" = "500.0000"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Did set property: "COM3"-"AnswerTimeout" = "500.0000"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Will set property: "COM3"-"BaudRate" = "115200"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Did set property: "COM3"-"BaudRate" = "115200"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Will set property: "COM3"-"DelayBetweenCharsMs" = "0.0000"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Did set property: "COM3"-"DelayBetweenCharsMs" = "0.0000"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Will set property: "COM3"-"Handshaking" = "Off"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Did set property: "COM3"-"Handshaking" = "Off"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Will set property: "COM3"-"Parity" = "None"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Did set property: "COM3"-"Parity" = "None"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Will set property: "COM3"-"StopBits" = "1"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Did set property: "COM3"-"StopBits" = "1"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Will set property: "COM3"-"Verbose" = "1"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Did set property: "COM3"-"Verbose" = "1"
2014-04-07T11:27:47.082486 p:6356 t:6460 [dbg] Will set property: "Core"-"Initialize" = "1"
2014-04-07T11:27:47.082486 p:6356 t:6460 [LOG] Starting initialization sequence for 6 devices...
2014-04-07T11:27:47.098086 p:6356 t:6460 [dbg] Device COM3 debug message: Attempting to set baud of COM3 to 115200
2014-04-07T11:27:47.113686 p:6356 t:6460 [dbg] Device COM3 debug message: Attempting to set flow of COM3 to none
2014-04-07T11:27:47.113686 p:6356 t:6460 [dbg] Device COM3 debug message: Attempting to set parity of COM3 to none
2014-04-07T11:27:47.129286 p:6356 t:6460 [dbg] Device COM3 debug message: Attempting to set stopBits of COM3 to 1
2014-04-07T11:27:47.144886 p:6356 t:6460 [LOG] Device COM3 initialized.
2014-04-07T11:27:47.144886 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> i? \r
2014-04-07T11:27:47.191686 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 4
2014-04-07T11:27:47.191686 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- 0.0\r
2014-04-07T11:27:47.191686 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> f? \r
2014-04-07T11:27:47.238486 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 4
2014-04-07T11:27:47.238486 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:27:47.238486 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> hrs? \r
2014-04-07T11:27:47.285286 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 4
2014-04-07T11:27:47.285286 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n98.24\r
2014-04-07T11:27:47.285286 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> ilk? \r
2014-04-07T11:27:47.332086 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 4
2014-04-07T11:27:47.332086 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:27:47.332086 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> l? \r
2014-04-07T11:27:47.378887 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 4
2014-04-07T11:27:47.378887 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:27:47.378887 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> l? \r
2014-04-07T11:27:47.425687 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 4
2014-04-07T11:27:47.425687 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:27:47.425687 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> pa? \r
2014-04-07T11:27:47.456887 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 3
2014-04-07T11:27:47.456887 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n-0.0000\r
2014-04-07T11:27:47.456887 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> p? \r
2014-04-07T11:27:47.519287 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 5
2014-04-07T11:27:47.519287 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n0.0235\r
2014-04-07T11:27:47.519287 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> sn? \r
2014-04-07T11:27:47.566087 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 4
2014-04-07T11:27:47.566087 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n488006152\r
2014-04-07T11:27:47.566087 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> ver? \r
2014-04-07T11:27:47.612887 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 4
2014-04-07T11:27:47.612887 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n6.65\r
2014-04-07T11:27:47.612887 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> l0\r
2014-04-07T11:27:47.659687 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 4
2014-04-07T11:27:47.659687 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \nOK\r
2014-04-07T11:27:47.659687 p:6356 t:6460 [LOG] Device Cobolt set as default shutter.
2014-04-07T11:27:47.659687 p:6356 t:6460 [LOG] Device Cobolt initialized.
2014-04-07T11:27:48.619940 p:6356 t:6460 [LOG] Device OrcaFlash set as default camera.
2014-04-07T11:27:48.619940 p:6356 t:6460 [LOG] Device OrcaFlash initialized.
2014-04-07T11:27:48.639941 p:6356 t:6460 [LOG] Device Picard Twister initialized.
2014-04-07T11:27:48.659943 p:6356 t:6460 [LOG] Device Picard Z Stage initialized.
2014-04-07T11:27:48.695945 p:6356 t:6460 [LOG] Device Picard XY Stage set as default xyStage.
2014-04-07T11:27:48.695945 p:6356 t:6460 [LOG] Device Picard XY Stage initialized.
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] > Notification for Device: Core Property: Initialize changed to value: 1
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Did set property: "Core"-"Initialize" = "1"
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Will set property: "Core"-"Camera" = "OrcaFlash"
2014-04-07T11:27:48.695945 p:6356 t:6460 [LOG] Camera device set to OrcaFlash
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] > Notification for Device: Core Property: Camera changed to value: OrcaFlash
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Did set property: "Core"-"Camera" = "OrcaFlash"
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Will set property: "Core"-"Shutter" = "Cobolt"
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] > Notification for Device: Core Property: Shutter changed to value: Cobolt
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Did set property: "Core"-"Shutter" = "Cobolt"
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Will set property: "Core"-"Focus" = "Picard Z Stage"
2014-04-07T11:27:48.695945 p:6356 t:6460 [LOG] Focus device set to Picard Z Stage
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] > Notification for Device: Core Property: Focus changed to value: Picard Z Stage
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Did set property: "Core"-"Focus" = "Picard Z Stage"
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Will set property: "Core"-"AutoShutter" = "1"
2014-04-07T11:27:48.695945 p:6356 t:6460 [LOG] Auto shutter ON.
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] > Notification for Device: Core Property: AutoShutter changed to value: 1
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Did set property: "Core"-"AutoShutter" = "1"
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Waiting for device COM3...
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Finished waiting.
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Waiting for device Cobolt...
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Finished waiting.
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Waiting for device OrcaFlash...
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Finished waiting.
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Waiting for device Picard Twister...
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Finished waiting.
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Waiting for device Picard Z Stage...
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Finished waiting.
2014-04-07T11:27:48.695945 p:6356 t:6460 [dbg] Waiting for device Picard XY Stage...
2014-04-07T11:27:48.727946 p:6356 t:6460 [dbg] Finished waiting.
2014-04-07T11:27:48.727946 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> i? \r
2014-04-07T11:27:48.737947 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:27:48.737947 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n0.0\r
2014-04-07T11:27:48.737947 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> f? \r
2014-04-07T11:27:48.747948 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:27:48.747948 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:27:48.747948 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> hrs? \r
2014-04-07T11:27:48.757948 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:27:48.757948 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n98.24\r
2014-04-07T11:27:48.757948 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> ilk? \r
2014-04-07T11:27:48.767949 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:27:48.767949 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:27:48.767949 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> l? \r
2014-04-07T11:27:48.777949 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:27:48.777949 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:27:48.777949 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> l? \r
2014-04-07T11:27:48.787950 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:27:48.787950 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:27:48.787950 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> pa? \r
2014-04-07T11:27:48.797950 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:27:48.797950 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n-0.0000\r
2014-04-07T11:27:48.797950 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> p? \r
2014-04-07T11:27:48.807951 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:27:48.807951 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n0.0235\r
2014-04-07T11:27:48.807951 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> sn? \r
2014-04-07T11:27:48.817952 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:27:48.817952 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n488006152\r
2014-04-07T11:27:48.817952 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> ver? \r
2014-04-07T11:27:48.827952 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:27:48.827952 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n6.65\r
2014-04-07T11:27:48.827952 p:6356 t:6460 [LOG] System state cache updated.
2014-04-07T11:27:48.860954 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> l? \r
2014-04-07T11:27:48.867954 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 8
2014-04-07T11:27:48.867954 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \n0\r
2014-04-07T11:27:48.867954 p:6356 t:6460 [LOG] Error occurred. Device CMMCore::getShutterOpen(). Error in device Cobolt: Invalid state (position) requested.
2014-04-07T11:27:48.867954 p:6356 t:6460 [LOG] > 
java.lang.Exception: Error in device Cobolt: Invalid state (position) requested.  in Thread[AWT-EventQueue-0,6,main]
  at mmcorej.MMCoreJJNI.CMMCore_getShutterOpen(Native Method)
  at mmcorej.CMMCore.getShutterOpen(CMMCore.java:837)
  at org.micromanager.MMStudioMainFrame.updateGUI(MMStudioMainFrame.java:2948)
  at org.micromanager.MMStudioMainFrame.updateGUI(MMStudioMainFrame.java:2918)
  at org.micromanager.MMStudioMainFrame.initializeGUI(MMStudioMainFrame.java:2875)
  at org.micromanager.MMStudioMainFrame.loadSystemConfiguration(MMStudioMainFrame.java:3303)
  at org.micromanager.MMStudioMainFrame.access$2400(MMStudioMainFrame.java:155)
  at org.micromanager.MMStudioMainFrame$48.windowOpened(MMStudioMainFrame.java:1514)
  at java.awt.AWTEventMulticaster.windowOpened(AWTEventMulticaster.java:322)
  at java.awt.Window.processWindowEvent(Window.java:1862)
  at javax.swing.JFrame.processWindowEvent(JFrame.java:274)
  at java.awt.Window.processEvent(Window.java:1823)
  at java.awt.Component.dispatchEventImpl(Component.java:4652)
  at java.awt.Container.dispatchEventImpl(Container.java:2099)
  at java.awt.Window.dispatchEventImpl(Window.java:2478)
  at java.awt.Component.dispatchEvent(Component.java:4482)
  at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:644)
  at java.awt.EventQueue.access$000(EventQueue.java:85)
  at java.awt.EventQueue$1.run(EventQueue.java:603)
  at java.awt.EventQueue$1.run(EventQueue.java:601)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:87)
  at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:98)
  at java.awt.EventQueue$2.run(EventQueue.java:617)
  at java.awt.EventQueue$2.run(EventQueue.java:615)
  at java.security.AccessController.doPrivileged(Native Method)
  at java.security.AccessControlContext$1.doIntersectionPrivilege(AccessControlContext.java:87)
  at java.awt.EventQueue.dispatchEvent(EventQueue.java:614)
  at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
  at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
  at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:174)
  at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:169)
  at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:161)
  at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)
2014-04-07T11:27:48.894956 p:6356 t:6460 [LOG] > Startup script file (C:\Users\User\Desktop\OpenSPIM.app/MMStartup.bsh) not present.
2014-04-07T11:27:49.205974 p:6356 t:6460 [LOG] > [UI] JButton "OK" clicked in MMIntroDlg.
2014-04-07T11:27:54.752291 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> l1\r
2014-04-07T11:27:54.777292 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 26
2014-04-07T11:27:54.777292 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \nOK\r
2014-04-07T11:27:54.777292 p:6356 t:6460 [LOG] > [UI] JToggleButton "toggleShutterButton" toggled on in MMStudioMainFrame.
2014-04-07T11:27:55.832353 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> l0\r
2014-04-07T11:27:55.837353 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 6
2014-04-07T11:27:55.837353 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \nOK\r
2014-04-07T11:27:55.837353 p:6356 t:6460 [LOG] > [UI] JToggleButton "toggleShutterButton" toggled off in MMStudioMainFrame.
2014-04-07T11:27:57.192431 p:6356 t:6460 [LOG] > [UI] JComboBox "Binning" clicked in MMStudioMainFrame.
2014-04-07T11:27:58.664515 p:6356 t:6460 [LOG] > [UI]  "ComboBox.list" set to "4x4" in MMStudioMainFrame.
2014-04-07T11:27:58.664515 p:6356 t:6460 [dbg] Will set property: "OrcaFlash"-"Binning" = "4x4"
2014-04-07T11:27:58.903528 p:6356 t:6460 [dbg] Did set property: "OrcaFlash"-"Binning" = "4x4"
2014-04-07T11:28:00.760635 p:6356 t:6460 [LOG] > [UI] JMenu "Plugins" clicked in MMStudioMainFrame.
2014-04-07T11:28:11.496249 p:6356 t:6460 [LOG] > [UI] JMenu "File" clicked in MMStudioMainFrame.
2014-04-07T11:28:19.477705 p:6356 t:6460 [LOG] > [UI] JButton "Multi-D Acq." clicked in MMStudioMainFrame.
2014-04-07T11:28:26.002078 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> l1\r
2014-04-07T11:28:26.034080 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 33
2014-04-07T11:28:26.034080 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \nOK\r
2014-04-07T11:28:26.034080 p:6356 t:6460 [dbg] Waiting for device Cobolt...
2014-04-07T11:28:26.034080 p:6356 t:6460 [dbg] Finished waiting.
2014-04-07T11:28:26.174088 p:6356 t:6460 [dbg] Sequence acquisition started.
2014-04-07T11:28:26.492106 p:6356 t:6460 [LOG] > [UI] JToggleButton "Live" toggled off in MMStudioMainFrame.
2014-04-07T11:28:35.615628 p:6356 t:6460 [LOG] > [UI] JButton "Auto" clicked in MMStudioMainFrame.
2014-04-07T11:28:43.680089 p:6356 t:6460 [LOG] > [UI] JMenu "Plugins" clicked in MMStudioMainFrame.
2014-04-07T11:28:44.549139 p:6356 t:6460 [LOG] > [UI] JMenu "Plugins" clicked in MMStudioMainFrame.
2014-04-07T11:28:49.047396 p:6356 t:6460 [LOG] > Stop called in LivemodeTimer, true
2014-04-07T11:28:49.070398 p:6356 t:6520 [dbg] Device COM3 debug message: SetCommand -> l0\r
2014-04-07T11:28:49.080398 p:6356 t:6520 [dbg] Device COM3 debug message: GetAnswer # retries = 11
2014-04-07T11:28:49.080398 p:6356 t:6520 [dbg] Device COM3 debug message: GetAnswer <- \nOK\r
2014-04-07T11:28:49.099399 p:6356 t:6460 [dbg] Sequence acquisition stopped.
2014-04-07T11:28:49.100400 p:6356 t:6460 [LOG] > [UI] JButton "Live" clicked in DisplayWindow.
2014-04-07T11:28:58.407932 p:6356 t:6460 [LOG] > [UI] JMenu "Plugins" clicked in MMStudioMainFrame.
2014-04-07T11:29:08.639517 p:6356 t:6460 [LOG] > Stop called in LivemodeTimer, true
2014-04-07T11:29:08.762524 p:6356 t:6460 [dbg] Waiting for device COM3...
2014-04-07T11:29:08.762524 p:6356 t:6460 [dbg] Finished waiting.
2014-04-07T11:29:08.762524 p:6356 t:6460 [dbg] Waiting for device Cobolt...
2014-04-07T11:29:08.762524 p:6356 t:6460 [dbg] Finished waiting.
2014-04-07T11:29:08.762524 p:6356 t:6460 [dbg] Waiting for device OrcaFlash...
2014-04-07T11:29:08.762524 p:6356 t:6460 [dbg] Finished waiting.
2014-04-07T11:29:08.762524 p:6356 t:6460 [dbg] Waiting for device Picard Twister...
2014-04-07T11:29:08.762524 p:6356 t:6460 [dbg] Finished waiting.
2014-04-07T11:29:08.762524 p:6356 t:6460 [dbg] Waiting for device Picard Z Stage...
2014-04-07T11:29:08.762524 p:6356 t:6460 [dbg] Finished waiting.
2014-04-07T11:29:08.762524 p:6356 t:6460 [dbg] Waiting for device Picard XY Stage...
2014-04-07T11:29:08.762524 p:6356 t:6460 [dbg] Finished waiting.
2014-04-07T11:29:08.864530 p:6356 t:6460 [dbg] Device COM3 debug message: SetCommand -> l0\r
2014-04-07T11:29:08.897730 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer # retries = 5
2014-04-07T11:29:08.897730 p:6356 t:6460 [dbg] Device COM3 debug message: GetAnswer <- \nOK\r