Study and protocol information for the EDRN Knowledge Environment
Project description
This product, eke.study, provides display and RDF ingest of participating studies and medical protocols that are being executed, will be executed, or have been executed by the Early Detection Research Network (EDRN). Studies and protocols are the major research efforts (and therefore funded entities) that EDRN researchers pursue, and therefore are a vital component of the 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, specimens, participants, staff, and-as in the case of this product-studies and protocols.
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.
Note for Developers: Tests for this package do not work correctly under the RoadRunner. Use the standard instance test runner instead. (It’s not the fault of the RoadRunner; it has to do with co-dependency of this project with eke.biomarker).
Installation
Use Buildout with the plone.recipe.zope2instance recipe.
Add eke.study to the list of eggs to install, e.g.:
[buildout] ... eggs = ... eke.studyRe-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
A retrospective of the various releases this component has had, what’s been changed, what’s been fixed, and so forth, follows. For issue IDs mentioned below, see the issue tracker at https://oodt.jpl.nasa.gov/jira/browse/CA
1.1.18 — Plone 4.3.9 Upgrade
CA-1592
1.1.17 — Let’s Get Involved!
CA-1492 - Need to include involved investigators in Investigator and Protocol pages
1.1.16 — You’re Not That Vain
CA-1492 - Involved investigator sites not appearing on protocols
CA-1497 - Duplicates appearing in involved investigator sites
CA-1498 - Add anchors for biomarkers and science data
CA-1450 - eke.study ingest should honor http://edrn.nci.nih.gov/rdf/schema.rdf#projectFlag
1.1.15 — Werk Werk
CA-1436 - Collaborative Group Workspaces - Separate Projects and Protocols
CA-1437 - Portal upgrade clears “project” flag
1.1.14 — Bad Data
CA-1430 - Portal cannot ingest protocol #0
1.1.13 — Bug Fixes
CA-1300
CA-1292
CA-1302
1.1.12 — I Had Some Chicken; Pass Me the FLOSS
First official release as free/libre/open source software.
1.1.11 — Let’s Talk
CA-1229 - Discussion re-enabled after upgrade
1.1.10 — Non-EDRN Protocols and Non-EDRN Protocols
CA-1122 - Indicate if Protocol is not an EDRN Protocol
CA-1148 - Remove description from Protocols it’s duplicated in the abstract
1.1.9 — Closing Security Holes
Made compatible with Plone 4.3.
1.1.8 — More Upgrades
Made compatible with Plone 4.2.4
1.1.7 — Unicode, Again
CA-1005 - Non-US-ASCII characters in protocol title causes catalog rebuild to fail.
1.1.6 — Upgrades
Made compatible with Plone 4.1.5 and eea.facetednavigation 4.5. Also, addressed the following issues:
CA-965 - Log the upgrade process
CA-978 - eke.study can’t handle RDF with duplicate protocol titles
1.1.5 — Test Support
This release includes:
Depending on just Plone the framework instead of Plone the application.
Working around null dataset names and investigator names.
1.1.4 — Permanently adds 15 resilience to a shoulder slot item
This release makes functional tests even more resilient.
1.1.3 — Adds 40 Resilience Rating
This release makes functional tests more resilient.
1.1.2 — Yay Team!
This release expands on team projects, adding an index for projects, badging of projects, and a vocabulary to enumerate them. Also, during RDF ingest, it connects protocols to collaborative groups.
1.1.1 — 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. Also, it removes in incompatible profile dependency.
1.1.0 — Plone 4
This release makes eke.study compatible with Plone 4.
1.0.2 — A Mixed Bag
This release fixes a couple of issues:
CA-583 - Add PDFs to Protocols
CA-620 - Locks appear on biomarkers listed under a protocol incorrectly (implementation)
1.0.1 — Protocol IDs
This release addresses just one tiny little issue:
CA-659 - Add protocol ID to protocol view
You can find the issue tracker at https://oodt.jpl.nasa.gov/jira/browse/CA
1.0.0 — Prime Time
This release addresses a number of issues that make this component (and some of its selected counterparts) “prime time” for the operational NCI portal.
This release addresses the following issues:
CA-528 Automatic periodic ingest of RDF
You can find the issue tracker at https://oodt.jpl.nasa.gov/jira/browse/CA
0.0.3 — Filler Text
This release addresses the following issues:
CA-586 - Show alternative text (if abstract text is empty) on protocol list page
CA-604 - Add PI to Protocol List
You can find the issue tracker at https://oodt.jpl.nasa.gov/jira/browse/CA
0.0.2 — To Be Named At Release Time
This release addresses the following issues:
https://oodt.jpl.nasa.gov/jira/browse/CA-551 - Add lock icon to biomarkers and science data that are “secure” to protocol pages
https://oodt.jpl.nasa.gov/jira/browse/CA-523 - Create search indexes; in particular, searches are enabled for abbreviated protocol name, biomarker names, PI names, collaborative group text, dataset names (courtesy of updates to eke.ecas), and involved investigator sites.
0.0.1 — HTML Formatting
The following issue is the sole issue addressed in this release:
http://oodt.jpl.nasa.gov/jira/browse/CA-472 - Protocols and other items seem to still have encoded ASCII characters in the titles
Release 0.0.0
Beta release. This release is destined to become the FCS.
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