LabKey Server v12.1 now Available

Posted on May 3, 2012 by Brian

The LabKey team is proud to announce the release of LabKey Server 12.1. This release includes new features for ancillary studies, visualization and user management.

Highlights of the 12.1 Release

  • Find participants by ID, cohort or group with a faceted participant page
  • Focus on important study participants with customizable and exportable participant reports
  • Understand data variability with time chart error bars
  • Control and audit access with new security options and permission reports
  • Collaborate in context by associating email- or web-based discussions with datasets and reports


Download LabKey Server v12.1.
Use LabKey in the cloud (LabKey 12.1 AMI).
Read the full list of v12.1 features.

 
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New Videos Available

Posted on February 1, 2012 by Ren

The release of LabKey Server v11.3 included a more streamlined user interface, and significant enhancements to data visualization and ancillary study support.  Steve has put together a few short videos highlighting how you could utilize these enhancements.   Enjoy!

  • Focus on interesting results with custom subject groups and ancillary study support
    (watch video)
  • Understand individual and group trends with an improved time chart designer (watch video)
  • Organize and navigate more easily with new tabbed folder layouts, data grid enhancements, and a unified data browser (watch video)

 
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LabKey Server AMI is now available

Posted on January 5, 2012 by Brian

Update:[05/03/2012] New versions of the LabKey Server AMIs have been released. See Install LabKey in the Cloud for the list of available AMIs and for instructions on using one.

 

With the release of LabKey Server v11.3, we will start publishing a Amazon Web Services AMI for every LabKey server release. So if you have an Amazon Web Services account, then with just a few clicks you can bring up LabKey Server and get working.

 

Amazon EC2 Published Images

 

Region arch ami Description
US West (Oregon) amd64 ami-dab439ea LabKey Server 11.3(18455) x86-64. Configured to work on instances with 8GB of memory or more (m1.large or larger). Operating System = Ubuntu 11.10
US West (Oregon) i386 ami-deb439ee LabKey Server 11.3(18455) 32bit. Configured to work on instances with 2GB of memory or more (m1.small or larger). Operating System = Ubuntu 11.10
US East amd64 ami-c1489ca8 LabKey Server 11.3(18455) x86-64. Configured to work on instances with 8GB of memory or more (m1.large or larger). Operating System = Ubuntu 11.10
US East i386 ami-ab489cc2 LabKey Server 11.3(18455) 32bit. Configured to work on instances with 2GB of memory or more (m1.small or larger). Operating System = Ubuntu 11.10

 
 

How to Get Started with the AMI

 

Using the Management Console

If you use the AWS Management Console to start and stop your AWS instances then all you need to do is

  1. click on the link in the ami column, above, for the AMI you would like to start
    • This will open the AWS Management Console so you can login
  2. Start a new instance using the AMI

Once the instance is started, all you need to do is open your favorite browser and connect to the new instance. You will be asked to initialize your LabKey Server and you should be ready to go.

NOTE: By default the AMI will have only 8GB of storage available when you start it. This can be changed at start time or at a later date.

 

Using the command line

If you prefer to use the command line, all you need to do is run 

ec2-run-instances <ami-id> -k <EC2_KEYPAIR> -t <instance-type> --region <region-name>

where <region-name> will need to match the AMI you selected above

 

Once the instance is started, all you need to do is open your favorite browser and connect to the new instance. You will be asked to initialize your LabKey Server and you should be ready to go.

NOTE: By default the AMI will have only 8GB of storage available when you start it. This can be changed at start time or at a later date.

 
 

Configuration Information

 

This is sort of geeky information, but I thought I would add it here just in case anyone was interested. The LabKey Server uses a number of other open source packages. Information about the LabKey Server and the other software is below.

NOTE: This information is for advanced users, most people do not need to read any farther

Start and Stop your LabKey Server

Log on to your instance using ssh and then run

To Start the Server

sudo /etc/init.d/tomcat start

 

To Stop the Server

sudo /etc/init.d/tomcat stop

 

 

How to connect to the instance using SSH

You will need to connect to the server public/private keypair authentication

  • Username = ubuntu
  • Keypair that you selected when started the instance.

You can use a command similar to 

ssh -i ~/ec2/id_rsa_keypairName ubuntu@INSTANCE_IP

 

Logins as the root user is disabled by default, so to become the root user you will need to use the sudo command. Similar to 

sudo su -

 

 

Tomcat

  • Version: 6.0.33
  • Installation Directory: /labkey/apps/tomcat
  • Log Directory: /labkey/apps/tomcat/logs
  • Service Script: /etc/init.d/tomcat

 

PostgreSQL

  • Version: 9.0.5
  • Installation Directory: /labkey/apps/postgresql-9.0.5
  • Data Directory: /labkey/apps/postgresql-9.0.5/data
  • Log Directory: /labkey/apps/postgresql-9.0.5/data/pg_log

 

Update 1: LabKey has released an important security update for LabKey Server v11.3. I strongly recommend downloading the update and upgrading your new instance immediately after installation. You can find the update here. You can find instructions for upgrading your new LabKey Server at labkey.org.

 

Update 2: The LabKey Server AMI will not run on the t1.micro instance due to the limited resources of this instance type.

 
 

 
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LabKey Server v11.3 now Available

Posted on December 21, 2011 by Ren

The LabKey team is proud to announce the release of LabKey Server 11.3.  This release includes new features for ancillary studies, visualization and user management.

Hilghlights of the 11.3 Release

Data Management

  • Create an ancillary study to focus on interesting subsets of your data.
  • Easily organize your data with a new tabbed user interface.
  • Quickly create participant groups and cohorts.

Advanced Data Visualization

  • Browse visual summaries of all your data in the new data browser.
  • See aggregate data trends with an improved time chart designer.
  • Effortlessly scroll through large data grids with an improved data viewer.
  • Ensure high-quality Luminex data with new graphical quality control tools.

Data Security

  • Easily create sophisticated security policies with nested security groups.
  • Manage complex security group relationships with a graphical security visualizer.
  • Test security settings by impersonating groups in addition to individual users.


Download LabKey Server v11.3.
Read the full list of v11.3 features.

 
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