Eclipse中修改的application.xml导致部署问题

Question

在将Maven项目导入到Eclipse时(有时只是刷新工作区)，文件application.xml会被修改，并导致将EAR部署到Jboss 5时出现问题：

org.jboss.deployers.spi.DeploymentException: Exception determining structure: AbstractVFSDeployment
Caused by: org.jboss.xb.binding.JBossXBRuntimeException: {http://java.sun.com/xml/ns/j2ee}library-directory cannot appear in this position. Expected content of {http://java.sun.com/xml/ns/j2ee}application is unordered_sequence: {http://java.sun.com/xml/ns/j2ee}module* {http://java.sun.com/xml/ns/j2ee}security-role* {all {http://java.sun.com/xml/ns/j2ee}descriptionGroup}?

IDE已被替换：

<application version="1.4" xmlns="http://java.sun.com/xml/ns/j2ee" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://java.sun.com/xml/ns/j2ee http://java.sun.com/xml/ns/j2ee/application_1_4.xsd">

出自：

<application xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns="http://java.sun.com/xml/ns/j2ee" xmlns:application="http://xmlns.jcp.org/xml/ns/javaee" xsi:schemaLocation="http://java.sun.com/xml/ns/j2ee http://java.sun.com/xml/ns/j2ee/application_1_4.xsd" version="1.4">

并添加了：

<library-directory>lib/</library-directory>

Eclipse Mars和Eclipse露娜发生了这种情况，这是因为IDE中的某些配置吗？