Update release notes for 5.0.4
Update version numbers to 5.0.4
Update 5.0.4 date and add mention of PicoQuant support
Fix CLI tools when used from a source working copy

There is no longer a bio-formats.jar. We can use formats-gpl.jar
instead, which references the others in its manifest Class-Path.
Add missing dash
Update build script to correctly pass Sphinx options to Ant
Add branch-specific link for downloading the JAR file if unfound
Also modify link in bf.bat
Merge pull request #1300 from snoopycrimecop/dev_5_0/latest/autogen

Update auto-generated documentation
Merge pull request #1281 from melissalinkert/5.0.4-version-history

Update release notes for 5.0.4
Merge pull request #1298 from ctrueden/fix-cli-dev

Fix CLI tools when used from a source working copy
Merge pull request #1301 from sbesson/tools_download_link

Add branch-specific link for downloading the JAR file if unfound
Merge pull request #1282 from melissalinkert/5.0.4-version

Update version numbers to 5.0.4
Update POM version numbers to 5.0.5-SNAPSHOT
Set the Sphinx version to 1.2.2
Merge pull request #1318 from sbesson/5.0.5-snapshot

Update POM version numbers to 5.0.5-SNAPSHOT
Merge pull request #1319 from sbesson/rebased/dev_5_0/sphinx_122

Set the Sphinx version to 1.2.2 (rebased onto dev_5_0)
Add 32-bit only note to QTJava
Fixing indenting to remove blue highlighting
Merge pull request #1326 from hflynn/rebased/dev_5_0/QTJava

Add 32-bit only note to QTJava (rebased onto dev_5_0)