Our normal setup for web servers is apache, sometimes using the Cool Web Stack or something like it, so tomcat isn't something that my team has any familiarity with. Additionally, I built this server, but that was just the OS (RHEL). A third party installed the tomcat application server with grails on top of it, for the purpose of hosting some mobile apps (Android and iPhone) created using their toolkit. They set this up without SSL, and in looking through their available documentation, the only reference I could find to SSL was a single footnote on a document about the security of the system which essentially said, since you asked, of course this should all be done over SSL. Just ignore the fact that none of our documentation or reference implementations bother to do so.
So, I set about trying to get the SSL cert working, armed with a set of instructions (team standard procedures) for doing so with apache, and a single page from our wiki on setting up SSL in Tomcat. This page was proof that someone had done so in the past, but it consisted of a couple command lines to run, some java source code to be compiled and then invoked, and no reference to the implementation details of telling tomcat to use the SSL cert itself. The command line invocations converted the standard x509 cert we received from our CA and the key we generated when making the CSR into another format, DER.The java source code formed a program which would read in the der formatted certificate and key, and convert them into a Java keystore (JKS) formatted file. The instructions were for Solaris, our main OS, and not RHEL which these servers were running. The java program wouldn't compile, because the JDK that the third party installed for use with tomcat seemed to have a broken compiler! I installed a new jdk from the RHEL repos, and found that the source code didn't have any include statements, which also caused problems. A bunch of wildcard based includes later, I had a compiled program and a freshly created keystore. I installed it into tomcat, using some helpful online instructions, made a mental note that I wanted to come back at some point and find a way to convert the SSL cert without using a custom compiled program, because that seems like overkill for a problem where standard tools should exist, and continued on my way, after verifying that the site was accessible over SSL now.
I did end up finding a way to convert from the openSSL cert to a java keystore without using a custom compiled java program. After much, much searching, I found a tough to navigate site that was stuffed with useful information! This page shows how to use the openssl tool to combine a key and a cert into one PKCS12 file. Then, this page shows how to use the java (or JDK maybe) command keytool to import the PKCS12 file into a Java KeyStore file. Thus, we are now able to use two commands where before we used 2 different commands & a custom compiled java program. (In theory, we don't have to perform the conversion to a Java KeyStore format, as Tomcat can be told to use the PKCS12 file directly as a keystore. However, this involves more poorly documented tomcat configuration, and I didn't want to keep pressing my luck once I got everything working. If someone else wants to try for efficiency later on, then they are more than welcome to it.)
Those in charge of this project then decided I should turn off all non-SSL traffic to the servers. After doing this, they discovered that they could not download the new APK files to their Android phones from the server over SSL. Android was throwing an untrusted certificate error (the kind you expect with a self-signed cert, not a CA issued one) and will silently fail to download files from a server over SSL in this scenario.
I suspected that the intermediate certs were not being handed out correctly, and was eventually able to prove this with the help of these two sites. Our internal instructions said to import the intermediate cert from our CA into the JKS file with an alias of intermediateca. The official instructions said to import it with an alias of root. Somewhere else online said to use an alias of intermediate. I tried all of these, as well as combining them all, with no luck. I looked through the documentation, and could find no mention of a specific alias name to use for tomcat to magically pick it up and serve it out.
I went searching again, and finally stumbled upon this question on stack overflow. This was the same problem I was having, so I tried the solution, but ran into problems. They placed the intermediate cert into /etc/ssl/certs, then ran the command to create the PKCS12 file with an additional flag -chain. RHEL doesn't have an /etc/ssl/certs, so I searched, and found the equivalent at /etc/pki/tls/certs. I tried placing the intermediate cert there, and running the command with -chain added, and got errors because the cert wasn't found. I then went looking to see what options could be passed to the openssl command, and found the -CAfile and -caname flags. Using these, I was able to use the -chain flag and eventually get a Java KeyStore that caused tomcat to serve out the intermediate cert correctly.
After some experimenting, I finally isolated what creates a working keystore. The -chain flag with the openssl command is the critical key. Combine this with -CAfile to create the PKCS12 file with the intermediate cert included. The -caname flag ends up to not be needed at all. Importing the intermediate certs into the JKS (Java KeyStore) file with an alias, doesn't matter at all. (It doesn't break anything to have them there, but it also isn't needed for it to work.) Counterintuitively, the working JKS file will only show to contain one cert when viewed with keytool -list.
[root@fido sslcerts]# keytool -list -keystore fido.jks Enter keystore password: Keystore type: JKS Keystore provider: SUN Your keystore contains 1 entry tomcat, Mar 22, 2012, PrivateKeyEntry, Certificate fingerprint (MD5): 83:F5:A4:7D:2A:39:35:FB:8B:41:B7:34:B5:97:45:92
I was able to verify with both of the SSL checking sites above that this file will serve out the intermediate certs correctly. On Android, it no longer throws the untrusted cert error, and now silently validates. So, now, we have a new working procedure that only requires the same files we were downloading from the CA before, and uses two commands to turn them into a working Java KeyStore that will serve out intermediate certs correctly
openssl pkcs12 -export -inkey fido-2012-03-15.key -in fido-2012-03-15-cert.cer \ -out fido_key_cert_chain.p12 -chain -name tomcat -CAfile fido-2012-03-15-interm.cer keytool -importkeystore -srckeystore fido_key_cert_chain.p12 -srcstoretype pkcs12 \ -srcstorepass changeme -destkeystore fido.jks -deststoretype jks -deststorepass changeme