Add 32-bit only note to QTJava
Update release notes for 5.0.4
Update 5.0.4 date and add mention of PicoQuant support
Add missing dash
Update build script to correctly pass Sphinx options to Ant
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.
Merge pull request #1308 from rleigh-dundee/imagetools-fixes

ImageTools: Correct autoscaling logic
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only: PR 1154 (Leica: prevent exception when linking EmissionFilter)
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only: PR 1252 (Add Example code or writing Plate data to ome-tiff.)
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only: PR 1302 (Add branch-specific link for downloading the JAR file if unfound (rebased onto develop))
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only: PR 1304 (Correct timebase for picoQuant .bin files.)
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only: PR 1306 (Add support for PrairieView version 5.2 datasets)
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only: PR 1310 (Add 32-bit only note to QTJava)
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only: PR 1312 (Update release notes for 5.0.4 (rebased onto develop))
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only: PR 1313 (Fix CLI tools when used from a source working copy (rebased onto develop))
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only

Repository: openmicroscopy/bioformats
Excluded PRs:
  # PR 1249 PremyslFiala 'ND2 - Bug fixes' (user: PremyslFiala)
  # PR 1311 melissalinkert 'Performance and position count fixes for ND2 (rebased onto develop)' (status: error)
  # PR 1161 sommerc 'Initial CellH5 Reader class' (user: sommerc)
  # PR 816 melissalinkert 'Add support for multi-channel Volocity Clipping datasets' (label: exclude)
  # PR 858 melissalinkert 'Initial support for Veeco AFM data' (label: exclude)
  # PR 1309 melissalinkert 'Allow tile-based access of large JPEG-2000 images' (exclude comment)
  # PR 1315 LeeKamentsky 'IM3Reader for Perkin-Elmer Nuance' (user: LeeKamentsky)
  # PR 1141 LeeKamentsky 'Reader for Amaris FlowSight .cif format' (label: exclude)
  # PR 1054 qidane 'Additional annotation points throughout the model' (exclude comment)
  # PR 1265 qidane 'New units' (label: exclude breaking)
  # PR 857 melissalinkert 'Initial support for Zeiss .lms files' (label: exclude)
  # PR 1015 qidane 'Messy binary' (exclude comment)
  # PR 1177 rleigh-dundee 'specification: Add metadata for HDF5 embedding' (exclude comment)
  # PR 1296 melissalinkert 'Add test for getRequiredDirectories' (status: failure)
Updating 56d46da..126e167
Previously merged:
  # PR 1308 rleigh-dundee 'ImageTools: Correct autoscaling logic'
  # PR 1314 sbesson 'Set the Sphinx version to 1.2.2'
  # PR 1307 rleigh-dundee 'cmake: Add Windows cmd configuration template'

Merged PRs:
  # PR 1154 melissalinkert 'Leica: prevent exception when linking EmissionFilter'
  # PR 1252 imunro 'Add Example code or writing Plate data to ome-tiff.'
  # PR 1302 sbesson 'Add branch-specific link for downloading the JAR file if unfound (rebased onto develop)'
  # PR 1304 imunro 'Correct timebase for picoQuant .bin files.'
  # PR 1306 ctrueden 'Add support for PrairieView version 5.2 datasets'
  # PR 1310 hflynn 'Add 32-bit only note to QTJava'
  # PR 1312 melissalinkert 'Update release notes for 5.0.4 (rebased onto develop)'
  # PR 1313 melissalinkert 'Fix CLI tools when used from a source working copy (rebased onto develop)'

Generated by OME-5.1-merge-push#428 (http://ci.openmicroscopy.org/job/OME-5.1-merge-push/428/)