Fix compile errors in utils due to units changes
Fix indexes for physical size population

Also removes unnecessary setSeries calls.
merge develop -Dnone -Ibreaking -Eexclude -Sno-error: PR 1362 (Make FormatReader's RandomAccessInputStream transient)
merge develop -Dnone -Ibreaking -Eexclude -Sno-error: PR 1417 (Units length)
merge develop -Dnone -Ibreaking -Eexclude -Sno-error

Repository: openmicroscopy/bioformats
Excluded PRs:
  # PR 1383 LeeKamentsky 'Fix im3 metadata' (user: LeeKamentsky)
  # PR 1413 rleigh-dundee 'C++: Correct version embedding' (user: rleigh-dundee)
  # PR 1177 rleigh-dundee 'specification: Add metadata for HDF5 embedding' (exclude comment)
  # PR 1365 ctrueden 'PrairieView 5.2 fixes and improvements' (user: ctrueden)
  # PR 857 melissalinkert 'Initial support for Zeiss .lms files' (user: melissalinkert)
  # PR 1309 melissalinkert 'Allow tile-based access of large JPEG-2000 images' (exclude comment)
  # PR 1381 melissalinkert 'Parse physical pixel sizes from CellSens .vsi datasets' (user: melissalinkert)
  # PR 1385 rleigh-dundee 'C++: Add TIFF reader' (user: rleigh-dundee)
  # PR 1415 melissalinkert 'Update Travis to build the 'utils' Ant target' (user: melissalinkert)
  # PR 858 melissalinkert 'Initial support for Veeco AFM data' (user: melissalinkert)
  # PR 1366 ctrueden 'Miscellaneous cleanup' (user: ctrueden)
  # PR 1161 sommerc 'Initial CellH5 Reader class' (user: sommerc)
  # PR 1407 melissalinkert 'TIFF: fix plane count calculation for pyramids with multiple planes' (user: melissalinkert)
  # PR 1395 rleigh-dundee 'C++: Various minor fixes' (user: rleigh-dundee)
  # PR 1015 qidane 'Messy binary' (exclude comment)
Updating e9cb435..0b26906
Previously merged:
  # PR 1416 melissalinkert 'Update version history for 5.0.6 (rebased onto develop)'
  # PR 1404 melissalinkert 'Re-enable URLHandleTest'
  # PR 1411 melissalinkert 'Metamorph: fix double value parsing for locales that use a comma separator'
  # PR 1412 melissalinkert 'Zeiss CZI: prepend 0s so that image names are all the same length'
  # PR 1410 mtbc 'add RandomAccessOutputStream(byte[]) constructor'
  # PR 1409 hflynn 'Removing jpeg 2000 broken link (rebased onto develop)'
  # PR 1403 hflynn 'Removing dead visiquest link'
  # PR 1387 sbesson 'Fix testng JAR for Bio-Formats tools components'
  # PR 1384 melissalinkert 'OME-TIFF: return blank planes if the corresponding file does not exist'
  # PR 1386 melissalinkert 'Zeiss CZI: fix dimension calculations when expected planes are missing'
  # PR 1397 hflynn 'replacing boostpro link'

Merged PRs:
  # PR 1362 melissalinkert 'Make FormatReader's RandomAccessInputStream transient'
  # PR 1417 joshmoore 'Units length'

Generated by OME-5.1-breaking-push#180 (http://ci.openmicroscopy.org/job/OME-5.1-breaking-push/180/)