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2019-09-17
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   What's New in 19.2
   Release Notes: 19.2
   Upcoming Features
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LabKey Server Documentation

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What's New in 19.2


We're delighted to announce the release of LabKey Server version 19.2.x.

Feature Highlights of Version 19.2.x

  • General Performance Improvements - We've improved performance across the server through database schema changes and optimizing caching behavior.
  • Parent Column Aliases - When importing sample data, indicate one or more columns that contain parentage information. (docs)
  • SQL Aggregate Functions - LabKey SQL supports new aggregating functions such as standard deviation, variance, and median. Additional PostgreSQL-specific functions include: correlation coefficient, population covariance, and many others. (docs | docs)
  • Improved Issues API - Insert and update issues using the JavaScript API. (docs)
  • WebDAV Support in Rlabkey - The Rlabkey package now includes support for using WebDAV for file and folder creation, deletion, download, etc. Learn more in the Rlabkey documentation available on CRAN.
  • Biologics: Expanded Characters in Sequences. DNA/RNA sequences can use expanded characters beyond A, C, G, T, and U. (docs)

FDA MyStudies Platform

  • FDA MyStudies - LabKey Server provides key components of the FDA's open source MyStudies platform, including secure data storage and user management. (docs)

Premium Resources

New resources available to users of Premium Editions of LabKey Server include:

Premium Features for Panorama Partners

Members of the Panorama Partners Program have new features available to help them focus on what matters most in QC folders for tracking system suitability in mass spectrometry.

See the full Release Notes: 19.2


The symbol indicates a feature available in a Premium Edition of LabKey Server.




Release Notes: 19.2


Assays

  • Assay QC States - Configure and use custom states for quality control workflows in assays. Available in both LabKey Server and Biologics. (admin docs) and (LabKey Server user docs)

Biologics

  • Expanded Characters in Sequences. DNA/RNA sequences can use expanded characters beyond A, C, G, T, and U. (docs)
  • Reporting Enhancements User-created reports, charts, and custom grids are collected and displayed on the Reports tab. (docs)
  • Assay QC States - Configure and use custom states for quality control workflows in assays. Available in both LabKey Server and Biologics. (admin docs) and (Biologics user docs)

LabKey SQL

  • SQL Aggregate Functions - LabKey SQL now supports additional aggregating functions such as median, standard deviation, and variance. When executing against a PostgreSQL database, queries can also make use of PostgreSQL-specific aggregate functions, including: correlation coefficient, population covariance, and many others. (docs | docs)

Performance Improvements

  • Performance improvements by caching virtual schema metadata - Database schema metadata has always been cached, but beginning with release 19.2.x, table and column metadata for user schemas (i.e., virtual schemas) is also cached per request. This improves performance when processing complex queries.

Sample Sets

  • Parent Column Aliases - When importing sample data, indicate the column or columns that contain parentage information. (docs)
  • Unique Value Counters in Name Expressions - Generate a sequential ID based on values in other columns in a sample set, such as a series per lot. (docs)

Targeted Mass Spectrometry (Panorama)

  • Zip files during upload - .raw and .d directories containing raw data files from Agilent, Waters, and Bruker mass spectrometers are automatically zipped before upload to a Panorama files repository. (docs)
  • Premium Features for Panorama Partners - New features available exclusively to members of the Panorama Partners Program:
    • Panorama Premium: Outlier Notifications - Panorama Partners Program members can subscribe to email notifications for new QC folder data imports, or only when the number of outliers in a series of imports is over a threshold. (docs)
    • Panorama Premium: Configure QC Metrics - Panorama Partners Program members can configure which QC metrics are used for analysis. (docs)

Visualizations

  • Custom Chart Margins - Adjust chart margins for bar, box, line, and scatter plots. This option is useful when axis values overlap labels or for other presentation needs. (docs)

FDA MyStudies Platform

  • FDA MyStudies - LabKey Server provides key components of the FDA's open source MyStudies platform, including secure data storage and user management. (docs)

Operations

  • Log IP Address for Failed Logins - When a user's attempt to sign in fails, their IP address is recorded along with other details about the reason for the log-in failure. (docs)
  • MS1 Module Removed - The MS1 module has reached end of life and due to lack of usage, has been removed.
  • Internet Explorer - End of Support - LabKey no longer supports Internet Explorer. For details, see Supported Technologies.
  • Upgrade to Java 12 - Oracle has ended public support for Java 11 and, as a result, LabKey has completely removed support for Java 11 in the 19.2.0 release. For details, see Supported Technologies.
  • Upgrade all LabKey Dependencies - We strongly recommend that, as part of your LabKey Server upgrade, you also upgrade all major LabKey dependencies to their latest point releases: Java (12.0.2), Tomcat (9.0.22, 8.5.43, or 7.0.94), and PostgreSQL (11.4, 10.9, 9.6.14, 9.5.18, or 9.4.23). These are the releases that LabKey tests. Older point releases have serious security vulnerabilities, reliability issues, and known incompatibilities with LabKey. For details, see Supported Technologies.

Development

  • Source Code Migration to GitHub - Core LabKey Server modules have been migrated from SVN to GitHub, as well as the central automated test code and all of the modules from server/customModules. (docs | docs)
  • Removal of ApiAction base action class - Custom API actions should now extend MutatingApiAction (for actions that perform operations that mutate the database, such as insert, update, or delete) or ReadOnlyAction (for actions that require GET and only perform database reads). (docs)
  • Improved Issues API - Insert and update issues using the JavaScript API. Also available in version 19.1.x. (docs)
  • WebDAV Support in Rlabkey - The Rlabkey package now includes support for using WebDAV for file and folder creation, deletion, download, etc. Learn more in the Rlabkey documentation available on CRAN, beginning on page 63.

Premium Resources

Update: Version 19.2.1

An updated version (19.2.1) is available for download which includes:

  • MATLAB Integration - Create MATLAB analyses and visualizations with data stored in LabKey Server using an ODBC connection. This functionality expands on LabKey ability to provide data to analytic tools such as Tableau, SSRS, Excel, and Access. (docs)

The symbol indicates a feature available in a Premium Edition of LabKey Server.




Upcoming Features


Upcoming Features

Releases we are currently working on:

Recent Documentation Updates

Hover for a details link. Click it to see the most recent changes to the LabKey Server documentation.




Release Notes 19.3


This topic is under construction for the 19.3 release of LabKey Server.

User Experience

  • New Field Designer - The field designer has been improved for assay designs.

External Analytics

  • MATLAB - MATLAB is supported using the ODBC connector. Also available in 19.2.? todo
  • JDBC Driver Supports Folder Filters - Use the containerFilter parameter to scope queries. (docs)

RStudio Integration

  • Shiny Support - Shiny is supported in both RStudio and RStudio Pro.

Biologics

  • Lineage Improvements - Details panel provides information on lineage relationships. Especially useful for large lineage graphs.

Panorama Partners

  • Add Run-Scoped QC Metrics
  • Define Custom QC Metrics

Development

  • Assay Refactoring - Assays are no longer dependent on the study module.