Unable to apply patch on Fuse

Issue

• In our system test environment I attempted to install Rollup 2 and Rollup 2 Patch 1 .

The install into the system test environment appears to have failed and generated many zero length jar files in /var/opt/jboss-fuse/data/maven.

Now I can not apply the patch again as I get an IOException.

I have rolled back to the previous fabric version, but cannot now roll forward to the patched version as I can't install it.
I do not want to rebuild the whole fabric environment, what I can do now?

java.lang.RuntimeException: Unable to apply patch
        at io.fabric8.service.PatchServiceImpl.applyPatch(PatchServiceImpl.java:143)
        at io.fabric8.commands.PatchApply.doExecute(PatchApply.java:62)
        at org.apache.karaf.shell.console.OsgiCommandSupport.execute(OsgiCommandSupport.java:39)
        at org.apache.felix.gogo.commands.basic.AbstractCommand.execute(AbstractCommand.java:35)
        at org.apache.felix.gogo.runtime.CommandProxy.execute(CommandProxy.java:78)[15:org.apache.felix.gogo.runtime:0.11.0.redhat-610379]
        at org.apache.felix.gogo.runtime.Closure.executeCmd(Closure.java:477)[15:org.apache.felix.gogo.runtime:0.11.0.redhat-610379]
        at org.apache.felix.gogo.runtime.Closure.executeStatement(Closure.java:403)[15:org.apache.felix.gogo.runtime:0.11.0.redhat-610379]
        at org.apache.felix.gogo.runtime.Pipe.run(Pipe.java:108)[15:org.apache.felix.gogo.runtime:0.11.0.redhat-610379]
        at org.apache.felix.gogo.runtime.Closure.execute(Closure.java:183)[15:org.apache.felix.gogo.runtime:0.11.0.redhat-610379]
        at org.apache.felix.gogo.runtime.Closure.execute(Closure.java:120)[15:org.apache.felix.gogo.runtime:0.11.0.redhat-610379]
        at org.apache.felix.gogo.runtime.CommandSessionImpl.execute(CommandSessionImpl.java:89)
        at org.apache.karaf.shell.console.jline.Console.run(Console.java:189)
        at java.lang.Thread.run(Thread.java:745)[:1.7.0_65]
        at org.apache.karaf.shell.ssh.ShellFactoryImpl$ShellImpl$4.doRun(ShellFactoryImpl.java:158)[49:org.apache.karaf.shell.ssh:2.3.0.redhat-610379]
        at org.apache.karaf.shell.ssh.ShellFactoryImpl$ShellImpl$4$1.run(ShellFactoryImpl.java:149)
        at java.security.AccessController.doPrivileged(Native Method)[:1.7.0_65]
        at org.apache.karaf.jaas.modules.JaasHelper.doAs(JaasHelper.java:47)[27:org.apache.karaf.jaas.modules:2.3.0.redhat-610379]
        at org.apache.karaf.shell.ssh.ShellFactoryImpl$ShellImpl$4.run(ShellFactoryImpl.java:147)[49:org.apache.karaf.shell.ssh:2.3.0.redhat-610379]
Caused by: java.lang.NullPointerException
        at io.fabric8.service.PatchServiceImpl.applyPatch(PatchServiceImpl.java:65)

[svcmktfusetst@test maven]$ pwd
/var/opt/jboss-fuse/data/maven
[svcmktfusetst@test maven]$ du -sh *
5.0M    agent
18M proxy
[svcmktfusetst@test maven]$ 


-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-agent-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-agent-1.0.0.redhat-424.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-agent-commands-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-autoscale-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-boot-commands-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-camel-autotest-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-commands-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-docker-api-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-dosgi-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-features-service-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-git-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-git-1.0.0.redhat-424.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-git-hawtio-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-groups-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-hadoop-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-redirect-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-web-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-zookeeper-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-zookeeper-1.0.0.redhat-424.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 fabric-zookeeper-commands-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 gateway-fabric-support-1.0.0.redhat-423.jar
-rw-r--r--. 1 svcmktfusetst mktjbossfuse 0 Mar 19 10:42 mq-fabric-camel-6.1.1.redhat-423.jar