Update README.md

Updated readme to make clearer and to indicate 'source' and 'document' servers are now one server, now known as 'application server'
Update README.md
Update README.md

more updates
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Update README.md
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Merge remote-tracking branch 'upstream/master'
Merge remote-tracking branch 'upstream/master'
Add new screenshots for 0.2
Update user_manual.md

Had to update this page to conform with version 0.2 and the extra steps involved if the source needs to turn off Javascript and how the journalist has to flag the source for replying and wait before actually replying
remove direct links to external sites from source templates, fixes #195
Quick fix for 'KeyError: "flagged"' on new session

Fixes #185. We need to set the flagged variable on login, since
most people will clear sessions between checking for replies.
Simulate session logout in test_reply

Realistically, clients will clear sessions between submitting
docs / checking for replies, so we should simulate that.
test.py will now fail before 195d0ef and pass after, as
expected.
Add session-clearing to all tests that need it

Add test for logout (clearing a session) in the source
unit tests. Also clear sessions in integration tests
whenever a source/journalist is probably going to
close their browser.
Warn people that they cannot use Percona with setup_ubuntu.sh
Moves the config file to a config submodule.  This allows us to easily
separate out the configs for each environment, as well as the config
vars that are shared.  This is also structured to retain the ease by
which setup_ubuntu.sh replaces vars using sed, by having different
environment configs being separated into different files.
Modifying setup_ubuntu.sh to modify config files in new location
MySQL credentials should be replaced with the actual created user in
the setup_ubuntu.sh script for the development environment, not the
test environment.
Update HACKING.md to reflect new config file locations
abspath should refer to securedrop/securedrop path