I couldn't reproduce this again, but I'll post it in case it helps. Feel free to close the issue if not useful.
I just installed v0.11.0 and ran it with the following config:
rpcuser=user
rpcpassword=pass
server=1
txindex=1
I then wanted to test the new -prune=N option, so I ran:
$ ./bitcoin-qt -testnet -prune=2048
I got a UI error saying -txindex is incompatible with -prune, so I went and deleted the txindex=1 line from my config. When I ran it again I got:
$ ./bitcoin-qt -testnet -prune=2048
Auto configuration failed
139732253796224:error:02001002:system library:fopen:No such file or directory:bss_file.c:169:fopen('/home/ubuntu/build/bitcoin/depends/x86_64-unknown-linux-gnu/etc/openssl/openssl.cnf','rb')
139732253796224:error:2006D002:BIO routines:BIO_new_file:system lib:bss_file.c:174:
139732253796224:error:0E078002:configuration file routines:DEF_LOAD:system lib:conf_def.c:199:
bitcoin-qt: /home/ubuntu/build/bitcoin/depends/x86_64-unknown-linux-gnu/include/boost/thread/pthread/recursive_mutex.hpp:110: void boost::recursive_mutex::lock(): Assertion `!pthread_mutex_lock(&m)' failed.
Aborted (core dumped)
Here's my debug.log file for today: http://pastebin.com/n90GTrmY (filtered with cat 2015-07-14-debug.log | grep -v 'UpdateTip')
When I ran it again, it worked. I wasn't able to reproduce this behavior again. Any other info I can provide?