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Removed the intellij files from the root and made an example package …

…for new users. This allows users to start at the same page and then change it as they see fit without interfering with the repo (thanks guillermo!)
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MauricioCarneiro committed Sep 27, 2012
1 parent 54909a6 commit d07e44107a04a5b339f87b7dcc903789b8396c5d
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-cmi-gatk
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-<?xml version="1.0" encoding="UTF-8"?>
-<project version="4">
- <component name="AntConfiguration">
- <defaultAnt bundledAnt="true" />
- <buildFile url="file://$PROJECT_DIR$/build.xml">
- <additionalClassPath />
- <antReference projectDefault="true" />
- <customJdkName value="" />
- <maximumHeapSize value="128" />
- <maximumStackSize value="2" />
- <properties />
- </buildFile>
- </component>
-</project>
-
@@ -1,13 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<project version="4">
- <component name="ProjectCodeStyleSettingsManager">
- <option name="PER_PROJECT_SETTINGS">
- <value>
- <XML>
- <option name="XML_LEGACY_SETTINGS_IMPORTED" value="true" />
- </XML>
- </value>
- </option>
- </component>
-</project>
-
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@@ -1,21 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<project version="4">
- <component name="CompilerConfiguration">
- <option name="DEFAULT_COMPILER" value="Javac" />
- <resourceExtensions />
- <wildcardResourcePatterns>
- <entry name="?*.properties" />
- <entry name="?*.xml" />
- <entry name="?*.gif" />
- <entry name="?*.png" />
- <entry name="?*.jpeg" />
- <entry name="?*.jpg" />
- <entry name="?*.html" />
- <entry name="?*.dtd" />
- <entry name="?*.tld" />
- <entry name="?*.ftl" />
- </wildcardResourcePatterns>
- <annotationProcessing enabled="true" useClasspath="true" />
- </component>
-</project>
-
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-<component name="CopyrightManager">
- <settings default="">
- <module2copyright />
- </settings>
-</component>
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-<?xml version="1.0" encoding="UTF-8"?>
-<project version="4">
- <component name="Encoding" useUTFGuessing="true" native2AsciiForPropertiesFiles="false" />
-</project>
-
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@@ -1,8 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<project version="4">
- <component name="HighlightingAdvisor">
- <option name="SUGGEST_TYPE_AWARE_HIGHLIGHTING" value="false" />
- <option name="TYPE_AWARE_HIGHLIGHTING_ENABLED" value="true" />
- </component>
-</project>
-
@@ -1,11 +0,0 @@
-<component name="InspectionProjectProfileManager">
- <profile version="1.0" is_locked="false">
- <option name="myName" value="Project Default" />
- <option name="myLocal" value="false" />
- <inspection_tool class="SpellCheckingInspection" enabled="false" level="TYPO" enabled_by_default="false">
- <option name="processCode" value="true" />
- <option name="processLiterals" value="false" />
- <option name="processComments" value="true" />
- </inspection_tool>
- </profile>
-</component>
@@ -1,7 +0,0 @@
-<component name="InspectionProjectProfileManager">
- <settings>
- <option name="PROJECT_PROFILE" value="Project Default" />
- <option name="USE_PROJECT_PROFILE" value="true" />
- <version value="1.0" />
- </settings>
-</component>
@@ -1,12 +0,0 @@
-<component name="libraryTable">
- <library name="GATK libraries">
- <CLASSES>
- <root url="file://$PROJECT_DIR$/lib" />
- </CLASSES>
- <JAVADOC />
- <SOURCES>
- <root url="file://$PROJECT_DIR$/../../picard/src/java" />
- </SOURCES>
- <jarDirectory url="file://$PROJECT_DIR$/lib" recursive="false" />
- </library>
-</component>
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@@ -1,32 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<project version="4">
- <component name="EntryPointsManager">
- <entry_points version="2.0" />
- </component>
- <component name="IdProvider" IDEtalkID="1AD151C138300C50536BAE046D66308C" />
- <component name="JavadocGenerationManager">
- <option name="OUTPUT_DIRECTORY" />
- <option name="OPTION_SCOPE" value="protected" />
- <option name="OPTION_HIERARCHY" value="true" />
- <option name="OPTION_NAVIGATOR" value="true" />
- <option name="OPTION_INDEX" value="true" />
- <option name="OPTION_SEPARATE_INDEX" value="true" />
- <option name="OPTION_DOCUMENT_TAG_USE" value="false" />
- <option name="OPTION_DOCUMENT_TAG_AUTHOR" value="false" />
- <option name="OPTION_DOCUMENT_TAG_VERSION" value="false" />
- <option name="OPTION_DOCUMENT_TAG_DEPRECATED" value="true" />
- <option name="OPTION_DEPRECATED_LIST" value="true" />
- <option name="OTHER_OPTIONS" value="" />
- <option name="HEAP_SIZE" />
- <option name="LOCALE" />
- <option name="OPEN_IN_BROWSER" value="true" />
- </component>
- <component name="ProjectResources">
- <default-html-doctype>http://www.w3.org/1999/xhtml</default-html-doctype>
- </component>
- <component name="ProjectRootManager" version="2" languageLevel="JDK_1_6" assert-keyword="true" jdk-15="true" project-jdk-name="1.6" project-jdk-type="JavaSDK">
- <output url="file://$PROJECT_DIR$/out" />
- </component>
- <component name="WebServicesPlugin" addRequiredLibraries="true" />
-</project>
-
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@@ -1,9 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<project version="4">
- <component name="ProjectModuleManager">
- <modules>
- <module fileurl="file://$PROJECT_DIR$/cmi-gatk.iml" filepath="$PROJECT_DIR$/cmi-gatk.iml" />
- </modules>
- </component>
-</project>
-
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-<component name="DependencyValidationManager">
- <state>
- <option name="SKIP_IMPORT_STATEMENTS" value="false" />
- </state>
-</component>
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@@ -1,125 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<project version="4">
- <component name="Palette2">
- <group name="Swing">
- <item class="com.intellij.uiDesigner.HSpacer" tooltip-text="Horizontal Spacer" icon="/com/intellij/uiDesigner/icons/hspacer.png" removable="false" auto-create-binding="false" can-attach-label="false">
- <default-constraints vsize-policy="1" hsize-policy="6" anchor="0" fill="1" />
- </item>
- <item class="com.intellij.uiDesigner.VSpacer" tooltip-text="Vertical Spacer" icon="/com/intellij/uiDesigner/icons/vspacer.png" removable="false" auto-create-binding="false" can-attach-label="false">
- <default-constraints vsize-policy="6" hsize-policy="1" anchor="0" fill="2" />
- </item>
- <item class="javax.swing.JPanel" icon="/com/intellij/uiDesigner/icons/panel.png" removable="false" auto-create-binding="false" can-attach-label="false">
- <default-constraints vsize-policy="3" hsize-policy="3" anchor="0" fill="3" />
- </item>
- <item class="javax.swing.JScrollPane" icon="/com/intellij/uiDesigner/icons/scrollPane.png" removable="false" auto-create-binding="false" can-attach-label="true">
- <default-constraints vsize-policy="7" hsize-policy="7" anchor="0" fill="3" />
- </item>
- <item class="javax.swing.JButton" icon="/com/intellij/uiDesigner/icons/button.png" removable="false" auto-create-binding="true" can-attach-label="false">
- <default-constraints vsize-policy="0" hsize-policy="3" anchor="0" fill="1" />
- <initial-values>
- <property name="text" value="Button" />
- </initial-values>
- </item>
- <item class="javax.swing.JRadioButton" icon="/com/intellij/uiDesigner/icons/radioButton.png" removable="false" auto-create-binding="true" can-attach-label="false">
- <default-constraints vsize-policy="0" hsize-policy="3" anchor="8" fill="0" />
- <initial-values>
- <property name="text" value="RadioButton" />
- </initial-values>
- </item>
- <item class="javax.swing.JCheckBox" icon="/com/intellij/uiDesigner/icons/checkBox.png" removable="false" auto-create-binding="true" can-attach-label="false">
- <default-constraints vsize-policy="0" hsize-policy="3" anchor="8" fill="0" />
- <initial-values>
- <property name="text" value="CheckBox" />
- </initial-values>
- </item>
- <item class="javax.swing.JLabel" icon="/com/intellij/uiDesigner/icons/label.png" removable="false" auto-create-binding="false" can-attach-label="false">
- <default-constraints vsize-policy="0" hsize-policy="0" anchor="8" fill="0" />
- <initial-values>
- <property name="text" value="Label" />
- </initial-values>
- </item>
- <item class="javax.swing.JTextField" icon="/com/intellij/uiDesigner/icons/textField.png" removable="false" auto-create-binding="true" can-attach-label="true">
- <default-constraints vsize-policy="0" hsize-policy="6" anchor="8" fill="1">
- <preferred-size width="150" height="-1" />
- </default-constraints>
- </item>
- <item class="javax.swing.JPasswordField" icon="/com/intellij/uiDesigner/icons/passwordField.png" removable="false" auto-create-binding="true" can-attach-label="true">
- <default-constraints vsize-policy="0" hsize-policy="6" anchor="8" fill="1">
- <preferred-size width="150" height="-1" />
- </default-constraints>
- </item>
- <item class="javax.swing.JFormattedTextField" icon="/com/intellij/uiDesigner/icons/formattedTextField.png" removable="false" auto-create-binding="true" can-attach-label="true">
- <default-constraints vsize-policy="0" hsize-policy="6" anchor="8" fill="1">
- <preferred-size width="150" height="-1" />
- </default-constraints>
- </item>
- <item class="javax.swing.JTextArea" icon="/com/intellij/uiDesigner/icons/textArea.png" removable="false" auto-create-binding="true" can-attach-label="true">
- <default-constraints vsize-policy="6" hsize-policy="6" anchor="0" fill="3">
- <preferred-size width="150" height="50" />
- </default-constraints>
- </item>
- <item class="javax.swing.JTextPane" icon="/com/intellij/uiDesigner/icons/textPane.png" removable="false" auto-create-binding="true" can-attach-label="true">
- <default-constraints vsize-policy="6" hsize-policy="6" anchor="0" fill="3">
- <preferred-size width="150" height="50" />
- </default-constraints>
- </item>
- <item class="javax.swing.JEditorPane" icon="/com/intellij/uiDesigner/icons/editorPane.png" removable="false" auto-create-binding="true" can-attach-label="true">
- <default-constraints vsize-policy="6" hsize-policy="6" anchor="0" fill="3">
- <preferred-size width="150" height="50" />
- </default-constraints>
- </item>
- <item class="javax.swing.JComboBox" icon="/com/intellij/uiDesigner/icons/comboBox.png" removable="false" auto-create-binding="true" can-attach-label="true">
- <default-constraints vsize-policy="0" hsize-policy="2" anchor="8" fill="1" />
- </item>
- <item class="javax.swing.JTable" icon="/com/intellij/uiDesigner/icons/table.png" removable="false" auto-create-binding="true" can-attach-label="false">
- <default-constraints vsize-policy="6" hsize-policy="6" anchor="0" fill="3">
- <preferred-size width="150" height="50" />
- </default-constraints>
- </item>
- <item class="javax.swing.JList" icon="/com/intellij/uiDesigner/icons/list.png" removable="false" auto-create-binding="true" can-attach-label="false">
- <default-constraints vsize-policy="6" hsize-policy="2" anchor="0" fill="3">
- <preferred-size width="150" height="50" />
- </default-constraints>
- </item>
- <item class="javax.swing.JTree" icon="/com/intellij/uiDesigner/icons/tree.png" removable="false" auto-create-binding="true" can-attach-label="false">
- <default-constraints vsize-policy="6" hsize-policy="6" anchor="0" fill="3">
- <preferred-size width="150" height="50" />
- </default-constraints>
- </item>
- <item class="javax.swing.JTabbedPane" icon="/com/intellij/uiDesigner/icons/tabbedPane.png" removable="false" auto-create-binding="true" can-attach-label="false">
- <default-constraints vsize-policy="3" hsize-policy="3" anchor="0" fill="3">
- <preferred-size width="200" height="200" />
- </default-constraints>
- </item>
- <item class="javax.swing.JSplitPane" icon="/com/intellij/uiDesigner/icons/splitPane.png" removable="false" auto-create-binding="false" can-attach-label="false">
- <default-constraints vsize-policy="3" hsize-policy="3" anchor="0" fill="3">
- <preferred-size width="200" height="200" />
- </default-constraints>
- </item>
- <item class="javax.swing.JSpinner" icon="/com/intellij/uiDesigner/icons/spinner.png" removable="false" auto-create-binding="true" can-attach-label="true">
- <default-constraints vsize-policy="0" hsize-policy="6" anchor="8" fill="1" />
- </item>
- <item class="javax.swing.JSlider" icon="/com/intellij/uiDesigner/icons/slider.png" removable="false" auto-create-binding="true" can-attach-label="false">
- <default-constraints vsize-policy="0" hsize-policy="6" anchor="8" fill="1" />
- </item>
- <item class="javax.swing.JSeparator" icon="/com/intellij/uiDesigner/icons/separator.png" removable="false" auto-create-binding="false" can-attach-label="false">
- <default-constraints vsize-policy="6" hsize-policy="6" anchor="0" fill="3" />
- </item>
- <item class="javax.swing.JProgressBar" icon="/com/intellij/uiDesigner/icons/progressbar.png" removable="false" auto-create-binding="true" can-attach-label="false">
- <default-constraints vsize-policy="0" hsize-policy="6" anchor="0" fill="1" />
- </item>
- <item class="javax.swing.JToolBar" icon="/com/intellij/uiDesigner/icons/toolbar.png" removable="false" auto-create-binding="false" can-attach-label="false">
- <default-constraints vsize-policy="0" hsize-policy="6" anchor="0" fill="1">
- <preferred-size width="-1" height="20" />
- </default-constraints>
- </item>
- <item class="javax.swing.JToolBar$Separator" icon="/com/intellij/uiDesigner/icons/toolbarSeparator.png" removable="false" auto-create-binding="false" can-attach-label="false">
- <default-constraints vsize-policy="0" hsize-policy="0" anchor="0" fill="1" />
- </item>
- <item class="javax.swing.JScrollBar" icon="/com/intellij/uiDesigner/icons/scrollbar.png" removable="false" auto-create-binding="true" can-attach-label="false">
- <default-constraints vsize-policy="6" hsize-policy="0" anchor="0" fill="2" />
- </item>
- </group>
- </component>
-</project>
-
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@@ -1,10 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<project version="4">
- <component name="ClearCaseSharedConfig">
- <option name="myUseUcmModel" value="true" />
- </component>
- <component name="VcsDirectoryMappings">
- <mapping directory="" vcs="Git" />
- </component>
-</project>
-
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@@ -1,31 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<module type="JAVA_MODULE" version="4">
- <component name="FacetManager">
- <facet type="scala" name="Scala">
- <configuration>
- <option name="compilerLibraryLevel" value="Project" />
- <option name="compilerLibraryName" value="GATK libraries" />
- </configuration>
- </facet>
- </component>
- <component name="NewModuleRootManager" inherit-compiler-output="true">
- <exclude-output />
- <content url="file://$MODULE_DIR$">
- <sourceFolder url="file://$MODULE_DIR$/public/java/src" isTestSource="false" />
- <sourceFolder url="file://$MODULE_DIR$/private/java/src" isTestSource="false" />
- <sourceFolder url="file://$MODULE_DIR$/private/java/test" isTestSource="true" />
- <sourceFolder url="file://$MODULE_DIR$/public/java/test" isTestSource="true" />
- <sourceFolder url="file://$MODULE_DIR$/private/scala/src" isTestSource="false" />
- <sourceFolder url="file://$MODULE_DIR$/public/scala/src" isTestSource="false" />
- <sourceFolder url="file://$MODULE_DIR$/private/scala/test" isTestSource="true" />
- <sourceFolder url="file://$MODULE_DIR$/public/scala/test" isTestSource="true" />
- <sourceFolder url="file://$MODULE_DIR$/build/queue-extensions/src" isTestSource="false" />
- <sourceFolder url="file://$MODULE_DIR$/protected/java/src" isTestSource="false" />
- <sourceFolder url="file://$MODULE_DIR$/protected/java/test" isTestSource="true" />
- </content>
- <orderEntry type="inheritedJdk" />
- <orderEntry type="sourceFolder" forTests="false" />
- <orderEntry type="library" name="GATK libraries" level="project" />
- </component>
-</module>
-

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