update reader and fix tests
DICOM: fix dimension population for multi-series filesets

Fixes #12369
Merge pull request #1385 from rleigh-dundee/cpp-tiffreader

C++: Add TIFF reader
Adding T and C units sample
Merge branch 'some-units-samples' of github.com:qidane/bioformats into some-units-samples
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only: PR 1407 (TIFF: fix plane count calculation for pyramids with multiple planes)
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only: PR 1419 (Flake8 Bio-Formats Python files)
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only: PR 1420 (Updating samples and adding units samples)
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only: PR 1421 (Units mock)
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only: PR 1422 (Zeiss TIFF: fix used file list when expected files are missing)
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only: PR 1423 (TIFF: attempt to correct incorrectly stored StripByteCounts values)
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only: PR 1424 (DICOM: fix dimension population for multi-series filesets)
merge develop -Dorg -Ijburel/openmicroscopy:qa-submit-new -Ssuccess-only

Repository: openmicroscopy/bioformats
Excluded PRs:
  # PR 857 melissalinkert 'Initial support for Zeiss .lms files' (label: exclude)
  # PR 1425 jburel 'Convert tolerance to NonNegativeInt to NonNegativeFloat' (label: exclude breaking)
  # PR 1383 LeeKamentsky 'Fix im3 metadata' (user: LeeKamentsky)
  # PR 1177 rleigh-dundee 'specification: Add metadata for HDF5 embedding' (exclude comment)
  # PR 1381 melissalinkert 'Parse physical pixel sizes from CellSens .vsi datasets' (label: exclude)
  # PR 1015 qidane 'Messy binary' (exclude comment)
  # PR 1161 sommerc 'Initial CellH5 Reader class' (user: sommerc)
  # PR 1426 qidane 'Initial Rendering Definitions schema' (exclude comment)
  # PR 1309 melissalinkert 'Allow tile-based access of large JPEG-2000 images' (exclude comment)
  # PR 1362 melissalinkert 'Make FormatReader's RandomAccessInputStream transient' (label: breaking)
  # PR 1365 ctrueden 'PrairieView 5.2 fixes and improvements' (label: exclude)
  # PR 1366 ctrueden 'Miscellaneous cleanup' (label: exclude)
  # PR 1418 rleigh-dundee 'IFormatReader: Remove deprecated methods' (exclude comment)
  # PR 858 melissalinkert 'Initial support for Veeco AFM data' (label: exclude)
Already up-to-date.

Merged PRs:
  # PR 1407 melissalinkert 'TIFF: fix plane count calculation for pyramids with multiple planes'
  # PR 1419 sbesson 'Flake8 Bio-Formats Python files'
  # PR 1420 qidane 'Updating samples and adding units samples'
  # PR 1421 jburel 'Units mock'
  # PR 1422 melissalinkert 'Zeiss TIFF: fix used file list when expected files are missing'
  # PR 1423 melissalinkert 'TIFF: attempt to correct incorrectly stored StripByteCounts values'
  # PR 1424 melissalinkert 'DICOM: fix dimension population for multi-series filesets'

Generated by OME-5.1-merge-push#592 (http://ci.openmicroscopy.org/job/OME-5.1-merge-push/592/)
Update auto-generated documentation

Repository: snoopycrimecop/bioformats

Generated by BIOFORMATS-5.1-merge-docs-autogen#108 (http://ci.openmicroscopy.org/job/BIOFORMATS-5.1-merge-docs-autogen/108/)