use proper command markup
IM3: replace tabs with spaces and remove trailing whitespace
IM3: close file handles and make internal classes static

This is necessary to make automated tests pass on .im3 files.
Merge pull request #1452 from joshmoore/xsd-fu-imports

Use __import__ for generateDS to handle FS case issues
merge develop -Dorg -Ssuccess-only: PR 1365 (PrairieView 5.2 fixes and improvements)
merge develop -Dorg -Ssuccess-only: PR 1407 (TIFF: fix plane count calculation for pyramids with multiple planes)
merge develop -Dorg -Ssuccess-only: PR 1420 (Updating samples and adding units samples)
merge develop -Dorg -Ssuccess-only: PR 1442 (Update roi handler)
merge develop -Dorg -Ssuccess-only: PR 1454 (C++: Autoload schema catalogues and set up environment for tests)
merge develop -Dorg -Ssuccess-only: PR 1456 (add note about using mvn eclipse:eclipse)
merge develop -Dorg -Ssuccess-only: PR 1457 (IM3: fix memoization and whitespace)
merge develop -Dorg -Ssuccess-only

Repository: openmicroscopy/bioformats
Excluded PRs:
  # PR 1381 melissalinkert 'Parse physical pixel sizes from CellSens .vsi datasets' (label: exclude)
  # PR 1443 joshmoore 'Genshi ZIP' (label: exclude)
  # PR 858 melissalinkert 'Initial support for Veeco AFM data' (label: exclude)
  # PR 1177 rleigh-dundee 'specification: Add metadata for HDF5 embedding' (exclude comment)
  # PR 857 melissalinkert 'Initial support for Zeiss .lms files' (label: exclude)
  # PR 1366 ctrueden 'Miscellaneous cleanup' (label: exclude)
  # PR 1458 sbesson 'Fix Javadocs warnings' (label: exclude)
  # PR 1426 qidane 'Initial Rendering Definitions schema' (exclude comment)
  # PR 1015 qidane 'Messy binary' (exclude comment)
  # PR 1309 melissalinkert 'Allow tile-based access of large JPEG-2000 images' (exclude comment)
  # PR 1161 sommerc 'Initial CellH5 Reader class' (user: sommerc)
  # PR 1437 stelfrich 'Changed handling of empty series names in ND2 files' (user: stelfrich)
Updating c3521e7..ac6a0ab
Previously merged:
  # PR 1452 joshmoore 'Use __import__ for generateDS to handle FS case issues'
  # PR 1448 melissalinkert 'Metamorph: allow both sanitized and unsanitized delimiters'
  # PR 1455 sbesson 'Remove source code hyperlinks from Java source files'
  # PR 1453 jburel 'Fix mock object to match changes from int to double for channel'

Merged PRs:
  # PR 1365 ctrueden 'PrairieView 5.2 fixes and improvements'
  # PR 1407 melissalinkert 'TIFF: fix plane count calculation for pyramids with multiple planes'
  # PR 1420 qidane 'Updating samples and adding units samples'
  # PR 1442 bramalingam 'Update roi handler'
  # PR 1454 rleigh-dundee 'C++: Autoload schema catalogues and set up environment for tests'
  # PR 1456 mtbc 'add note about using mvn eclipse:eclipse'
  # PR 1457 melissalinkert 'IM3: fix memoization and whitespace'

Generated by OME-5.1-merge-push#625 (http://ci.openmicroscopy.org/job/OME-5.1-merge-push/625/)