Release of OMERO 5.4.8



This release focuses on a number of import performance improvements while including several other fixes as well as an upgrade of Bio-Formats.

Import improvements include:

  • cli: new experimental --parallel-upload and --parallel-fileset flags to the import command
  • cli: new fs importtime cli command
  • cli: add support for --skip, --parallel-upload, --parallel-fileset and --readers options in bulk import configuration files
  • insight: new options for skipping various import steps to speed up the process (match cli’s --skip option)
  • insight: supporting imports with thousands of files by providing a lightweight UI
  • insight: new loading placeholder when browsing data to show when an image is busy being processed and not ready to generate a thumbnail
  • insight: added error placeholder when browsing data to indicate a failed import
  • server: preventing recalculation of checksums for upload
  • server: providing better performance logging, accessible to users via fs logfile
  • as well as preservation of Bio-Formats’ knowledge of channel colors where provided.

Other client changes include:

  • web: better handling of large numbers of channels
  • web: fixed socket leakage on unclosed web sessions
  • web: fixed issue with bulk annotation table handling
  • cli: deprecating admin sessionlist and config list

Sysadmin improvements include:

  • new %thread% option for omero.fs.repo.path as well as fix a few bugs for dealing with parallel imports
  • new omero.threads.background_threads property to limit the number of simultaneous imports

This release also upgrades the version of Bio-Formats which OMERO uses to 5.9.2.

Upgrade information is on the server upgrade page.

The software is also available at archived downloads.

Any problems or comments, please use the OME Forums or mailing lists.