Talk:DEC OMERO Server

2017

OMERO 5.3 - JPGXR announcement

2016

Release of OMERO 5.2.7

Postby jburel » Tue Dec 13, 2016 12:05 pm

Dear All,

Today we are releasing OMERO 5.2.7. This is a release aimed at system administrators or developers wanting to build OMERO with Ice 3.6.3.

This release also upgrades the version of Bio-Formats which OMERO uses to 5.1.10 [1].

All scripts handling Regions of Interest (ROIs) now support ROI not linked to any plane as defined by the OME Model.

The software is available at: http://downloads.openmicroscopy.org/omero/5.2.7

Regards,

The OME Team

June 2015 Meeting

https://www.openmicroscopy.org/site/community/minutes/meetings/10th-annual-users-meeting-june-2015

Test Image Link

Sydney folder -> 2010-08-29-1 -> Stage 22 Human Embryo (Mark Hill-001.svs) dimensions 32538 x 28770

(Note - Will need to login to access image)

• Full Image
• Spinal Cord

Server Groups

• Private (rw----): All data in this group is only visible to the user who owns it and the group owner. Other users cannot see who else is in the group or view their data. The group owner can view the data for other group members but not make any edits (same as read-only behaviour).
• Read-Only (rwr---): Users in groups with this permission setting can view each others' data, but cannot edit or annotate another user's data. You can view another users' images but not comment, rate or tag their images.
• Read-Annotate (rwra--): Users in a Read-Annotate group can view and annotate the data belonging to other users. You can tag another user's images or use their tags to annotate your own images. You can add comments to their images and save your own rendering settings for each image. However, you cannot edit the names of their images, projects, datasets or tags etc.

Hardware

Apple

• Model Name - Mac Pro (Late 2013)
• Model Identifier - MacPro6,1
• Processor Name - Quad-Core Intel Xeon E5
• Processor Speed - 3.7 GHz
• Number of Processors - 1
• Total Number of Cores - 4
• L2 Cache (per Core) - 256 KB
• L3 Cache - 10 MB
• Memory - 12 GB
• Thunderbolt - Apple’s Thunderbolt 2 can support up to six devices in a daisy chain, on a single port.

Storage

Areca ARC-5028T2, Thunderbolt 2, 6 Gb/s, 6-Bay

• features two interfaces, Thunderbolt 2 and SuperSpeed USB 3.0. Thunderbolt 2 pushes performance up to 20Gbs and enables 4K video file transfer and display simultaneously. The ARC-5028T2 is equipped with dual Thunderbolt 2 ports for connecting to any Thunderbolt 2 enabled host such as the new Mac Pro, and is backwards compatible to the same cables and connectors used with current Thunderbolt devices. In addition to high performance Thunderbolt 2, the ARC-5028T2 also gives the user the option to connect by SuperSpeed USB 3.0 interface for environments not having a Thunderbolt port.
• File:ARC 5028T2 Quick Start Guide.pdf
• File System - Journaled HFS+

HDD

• Seagate (7200 RPM) 8Tb, 128 Mb cache, SATA 3, 6Gb/s (ST8000AS0002-1NA17Z)
  • Seagate 8Tb | Datasheet
• HGST Deskstar NAS (7200 RPM) 4Tb, 64 Mb cache, SATA 3, 6 Gb/s

RAID

The DEC storage device uses a RAID 5 (Redundant Array of Inexpensive Disks 5) configuration.

• RAID 0 – Fast, cheap, no data redundancy. Requires a minimum of two hard drives inside the RAID enclosure. Most often used when speed combined with low cost are paramount.
• RAID 1 – Complete data redundancy. Requires a minimum of two hard drives inside the RAID enclosure. Often called “mirroring,” each drive is a complete copy of the other. Most often used for backing up servers or when on-set for DIT media work. No faster than the slowest drive in the system.
• RAID 3 – Very fast, data redundancy. Requires a minimum of three drives. More popular on the PC than the Mac. Should one drive go down, your data is safe. This technology has been principally replaced by RAID 5 systems.
• RAID 5 – Very fast, data redundancy. Requires a minimum of three drives. Most often found with four or five drives inside. More popular on the Mac, when one drive goes down, your data is safe. This is the most popular mid-priced RAID for video editing and generally connected to just one computer system.
• RAID 6 – Fast, extra data redundancy. Requires a minimum of four drives. This version protects your data in the event two hard drives die at the same time. More expensive than RAID 5, but, generally, the same physical size. Like the RAID 5 this is most often used connected to just one computer. Not as fast as a RAID 5.

Space

May 2016

• Total usage: 48.19 GB
• Free space: 36.33 TB

March 2016

• Total usage: 48.19 GB
• Free space: 18.14 TB