eke.specimens 1.1.1

ERNE Specimen Management for the EDRN Knowledge Environment

This product, eke.specimens, provides display and RDF ingest of ERNE (EDRN Resource Network Exchange) specimens for the Early Detection Research Network (EDRN) Knowledge Environment (EKE). EDRN uses the EKE to make it easy to discover, share, search for, and retrieve all of EDRN’s collective knowledge, including cancers and other diseases, biomarkers, publications, investigators, participants, studies, protocols, and, as in the case of this product, specimens.

Although intended for the EDRN public portal, it can be installed in any Plone compatible site.

This software is developed by the EDRN Informatics Center at JPL, operated by the California Institute of Technology, for NCI.

Installation

Use Buildout with the plone.recipe.zope2instance recipe.

• Add eke.specimens to the list of eggs to install, e.g.:

  [buildout]
  ...
  eggs =
      ...
      eke.specimens

• Tell the plone.recipe.zope2instance recipe to install a ZCML slug:

  [instance]
  recipe = plone.recipe.zope2instance
  ...
  zcml =
      eke.specimens

• Re-run buildout, e.g. with:

  % ./bin/buildout

You can skip the ZCML slug if you are going to explicitly include the package from another package’s configure.zcml file.

Changelog

What follows is a history of changes from release to release. Within each description, you can find more details about cited issue numbers by visiting the issue tracker at https://oodt.jpl.nasa.gov/jira/browse/CA

1.1.1 — Thus Spake Christos

This release addresses the following:

• CA-823 - Modify eke.specimens per Christos’s commentary

• CA-825 - Evening telecon

1.1.0 — Strong Simplification

This release simplifies specimens so that only the common attributes between Specimen Reference Sets, PRoBE, and ERNE Specimens are represented.

1.0.1 — Upgrade Cleanup

This release updates the GenericSetup profile to 4, provides upgrade steps to that profile, and makes the testing and development harness depend on “trunk” level of other eggs instead of on released versions of those eggs. It also takes advantage of factored out common testing setup.

1.0.0 — Plone 4

This release makes eke.specimens compatible with Plone 4.

0.0.3 — NYU

This release tackles the following:

• If an ERNE site is down and the ERNE cache returns an HTTP 500 error, don’t abort the entire ingest. Just skip that site and go forward. “Keep calm and carry on.”

0.0.2 — A Mixed Bag

This release addresses the following issue:

• CA-698 - “Structural” objects appear in searches

0.0.1 — Goodbye, Peter Lin

This time around, the EKE specimen package provides direct display of ERNE specimen data without having to delegate to the ERNE UI web application. (There is no corresponding issue in the issue tracker for this new feature; or if there is, the issue tracker is down as I write this and can’t confirm.)

This release also addresses the following issues:

• CA-683 — Counts are off on specimen search

• CA-685 — Specimen Tab search results returns records for the same search summary more than one time (should be grouped together)

0.0.0 — Unreleased

Initial release into beta.

Copyright

Copyright 2010 by the California Institute of Technology. ALL RIGHTS RESERVED.

The Software is owned by Caltech/JPL and is protected by United States copyright laws and applicable international treaties and/or conventions. The United States Government may have prior rights to use some or all of the Software as determined under applicable contracts and license agreements with Caltech/JPL.

This software was developed at the Jet Propulsion Laboratory, an operating division of the California Institute of Technology and is not available for use by any person, organization, or other entity without prior, specific written permission.