IO exception during deployment scanning causes applications on EAP 6 to be undeployed

Issue

We use the deployment scanner with default settings, hence 5000 milliseconds scan interval. We have seen the following exception and our application is undeployed:

java.io.FileNotFoundException: /path/to/jboss/standalone/deployments/app.ear.pending (Too many open files)
        at java.io.FileOutputStream.open(Native Method)
        at java.io.FileOutputStream.<init>(FileOutputStream.java:194)
        at java.io.FileOutputStream.<init>(FileOutputStream.java:145)
        at org.jboss.as.server.deployment.scanner.FileSystemDeploymentService.createMarkerFile(FileSystemDeploymentService.java:911)
        at org.jboss.as.server.deployment.scanner.FileSystemDeploymentService.access$2700(FileSystemDeploymentService.java:84)
        at org.jboss.as.server.deployment.scanner.FileSystemDeploymentService$ScannerTask.<init>(FileSystemDeploymentService.java:957)
        at org.jboss.as.server.deployment.scanner.FileSystemDeploymentService$ScannerTask.<init>(FileSystemDeploymentService.java:946)
        at org.jboss.as.server.deployment.scanner.FileSystemDeploymentService$UndeployTask.<init>(FileSystemDeploymentService.java:1147)
        at org.jboss.as.server.deployment.scanner.FileSystemDeploymentService$UndeployTask.<init>(FileSystemDeploymentService.java:1142)
        at org.jboss.as.server.deployment.scanner.FileSystemDeploymentService.scan(FileSystemDeploymentService.java:409)
        at org.jboss.as.server.deployment.scanner.FileSystemDeploymentService$DeploymentScanRunnable.run(FileSystemDeploymentService.java:146)
        at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:441)
        at java.util.concurrent.FutureTask$Sync.innerRunAndReset(FutureTask.java:317)
        at java.util.concurrent.FutureTask.runAndReset(FutureTask.java:150)
        at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.access$101(ScheduledThreadPoolExecutor.java:98)
        at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.runPeriodic(ScheduledThreadPoolExecutor.java:180)
        at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.run(ScheduledThreadPoolExecutor.java:204)
        at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908)
        at java.lang.Thread.run(Thread.java:662)
        at org.jboss.threads.JBossThread.run(JBossThread.java:122)