Create a separate page per module and control the toc depth

OME-DCO-1.1-Signed-off-by: Sebastien Besson <seb.besson@gmail.com> (github: sbesson)
merge dev_5_0 -D org: PR 2242 (Use mklink under Windows)
merge dev_5_0 -D org: PR 2595 (12311 auto memory)
merge dev_5_0 -D org: PR 2596 (Groups users menu 12082)
merge dev_5_0 -D org: PR 2615 (Sphinx api improvements)
merge dev_5_0 -D org: PR 2667 (Add a quiet option to CLI commands)
merge dev_5_0 -D org: PR 2676 (Overhaul of Insight's Search, Part 2)
merge dev_5_0 -D org: PR 2678 (Matlab CZI job)
merge dev_5_0 -D org: PR 2681 (12252 script limit)
merge dev_5_0 -D org: PR 2693 (Mousewheel zoom centres on mouse location)
merge dev_5_0 -D org: PR 2726 (Preview fix)
merge dev_5_0 -D org: PR 2741 (add trivial checksum algorithm that reflects file size only)
merge dev_5_0 -D org: PR 2743 (`fs rename` command for modifying template values)
merge dev_5_0 -D org: PR 2744 (mark testInputs integration test as failing)
merge dev_5_0 -D org: PR 2746 (adjust results parameter in flaky testInputs integration test)
merge dev_5_0 -D org: PR 2769 (Auto close)
merge dev_5_0 -D org: PR 2773 (fix #11096: ensure that new %time% directory is unique)
merge dev_5_0 -D org: PR 2774 (clear sessions (rebased onto dev_5_0))
merge dev_5_0 -D org: PR 2775 (Permissions Test Matlab : Whole Suite)
merge dev_5_0 -D org

Repository: openmicroscopy/openmicroscopy
Excluded PRs:
  # PR 2759 snoopycrimecop 'Update dev_5_0 submodules' (status: pending)
  # PR 2653 joshmoore 'Server unit tests' (status: failure)
  # PR 2108 rleigh-dundee 'release-src includes bioformats version metadata' (label: exclude)
  # PR 2228 jburel 'Connection scifio' (label: exclude)
Already up-to-date.

Merged PRs:
  # PR 2242 joshmoore 'Use mklink under Windows'
  # PR 2595 joshmoore '12311 auto memory'
  # PR 2596 will-moore 'Groups users menu 12082'
  # PR 2615 sbesson 'Sphinx api improvements'
  # PR 2667 sbesson 'Add a quiet option to CLI commands'
  # PR 2676 dominikl 'Overhaul of Insight's Search, Part 2'
  # PR 2678 bramalingam 'Matlab CZI job'
  # PR 2681 joshmoore '12252 script limit'
  # PR 2693 will-moore 'Mousewheel zoom centres on mouse location'
  # PR 2726 jburel 'Preview fix'
  # PR 2741 mtbc 'add trivial checksum algorithm that reflects file size only'
  # PR 2743 joshmoore '`fs rename` command for modifying template values'
  # PR 2744 mtbc 'mark testInputs integration test as failing'
  # PR 2746 mtbc 'adjust results parameter in flaky testInputs integration test'
  # PR 2769 joshmoore 'Auto close'
  # PR 2773 mtbc 'fix #11096: ensure that new %time% directory is unique'
  # PR 2774 aleksandra-tarkowska 'clear sessions (rebased onto dev_5_0)'
  # PR 2775 bramalingam 'Permissions Test Matlab : Whole Suite'
Repository: openmicroscopy/bioformats
Updating e598e14..607705e
Merged PRs (fast-forward):
  # PR 1188 mtbc 'AFI: populate magnification and physical pixel size metadata (rebased from develop)'

Merged PRs:
  # PR 1196 joshmoore 'Close IFormatReader copy if not to be used'
  # PR 1197 melissalinkert 'Add modulo support for LI-FLIM data (rebased onto dev_5_0)'
  # PR 1198 melissalinkert 'ScanR: fix exposure time units (rebased onto dev_5_0)'
  # PR 1201 melissalinkert 'Leica LIF: do not set Channel.Color for RGB images (rebased onto dev_5_0)'
  # PR 1202 melissalinkert 'DICOM: fix units for physical sizes (rebased onto dev_5_0)'
Repository: ome/scripts
Already up-to-date.

Merged PRs:
  # PR 89 bpindelski 'Avoid division by 0 in Plot Profile.'
Repository: openmicroscopy/ome-documentation
Updating db2db83..5140f7a
Merged PRs (fast-forward):
  # PR 848 aleksandra-tarkowska 'Nginx doc (rebased onto dev_5_0)'
  # PR 851 aleksandra-tarkowska 'adding HTTP response header (rebased onto dev_5_0)'
  # PR 844 hflynn 'Re-working OMERO sysadmin index page'
  # PR 847 hflynn 'Reformatting VA docs to make them less scary '
  # PR 842 sbesson 'Insert OMERO sidebar template after page TOC sidebar'

Merged PRs:
  # PR 819 joshmoore '12311 auto memory docs'
  # PR 836 mtbc 'Managed repository template path expansions'
  # PR 852 hflynn 'Tidy Upgrade page incl. Paris requests for 5.0.3'
  # PR 853 sbesson 'Document orphaned datasets/plates retrieval via getProjects/getScreens'
  # PR 855 aleksandra-tarkowska 'Session engine (rebased onto dev_5_0)'
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