{ "info": { "author": "Sean Kelly", "author_email": "sean.kelly@jpl.nasa.gov", "bugtrack_url": null, "classifiers": [ "Development Status :: 4 - Beta", "Environment :: Web Environment", "Framework :: Plone", "Intended Audience :: Healthcare Industry", "Intended Audience :: Science/Research", "License :: OSI Approved :: Apache Software License", "Operating System :: OS Independent", "Programming Language :: Python", "Topic :: Internet :: WWW/HTTP", "Topic :: Scientific/Engineering :: Bio-Informatics", "Topic :: Software Development :: Libraries :: Python Modules" ], "description": "********\nedrn.rdf\n********\n\nServer for the Early Detection Research Network (EDRN) that provides\ndescriptions of EDRN's knowledge using the Resource Description Format (RDF).\n\n\n\nedrn.rdf Installation\n=====================\n\nUse zc.buildout and the plone.recipe.zope2instance recipe to manage your\nproject, and do the following:\n\n* Add ``edrn.rdf`` to the list of eggs to install, e.g.::\n\n [buildout]\n ...\n eggs =\n ...\n edrn.rdf\n \n* Re-run buildout, e.g. with::\n\n $ ./bin/buildout\n \nYou don't need a ZCML slug because it uses z3c.autoinclude.plugin with the\nPlone target.\n\n\nChangelog\n=========\n\nWhat follows is a log of changes from release to release. Where issue\nidentifiers appear, you can find more about them by visiting this project's\nissue tracker at https://oodt.jpl.nasa.gov/jira/browse/CA.\n\n\n1.3.7 \u2014 LabCAS\n--------------\n\n\u2022 This release provides an RDF format of LabCAS data from Solr\n\n\n1.3.6 \u2014 Involved Logs\n---------------------\n\n\u2022 CA-1492 - Involved investigator sites not appearing on protocols\n\u2022 Fixed biomuta default data source to point to new location.\n\u2022 CA-1525: RDF Server needs to provide current employment status on person feed\n\u2022 CA-1526: Provide site ID in publications RDF\n\u2022 CA-1547: Have EDRN RDF server log unused slots\n\n\n1.3.5 \u2014 Upgrades\n----------------\n\n\u2022 Added an upgrade step to enable Biomuta RDF ingestion.\n\n\n1.3.4 \u2014 Biomuta\n---------------\n\n\u2022 Added Biomuta RDF ingestion system and source.\n\n\n1.3.3 \u2014 Predicates and Packaging\n--------------------------------\n\n\u2022 Fix predicate URIs for EDRN title and account name.\n\u2022 Obey PyPI's new restrictions on package hosting, PEP-470.\n\u2022 Added Biomuta RDF generator and source.\n\u2022 Upgrade for Travis-CI container & caching mechanisms.\n\n\n1.3.2 \u2014 Ontology 1.8\n--------------------\n\nThis release sets up additional predicate handlers and is compatible with the\nSOAP Ontology API 1.8.\n\n\n1.3.1 \u2014 I Had Some Chicken; Pass the FLOSS\n------------------------------------------\n\nThis package is now free, open source software under the Apache License v2.\n\n\n1.3.0 \u2014 Texas-Sized\n-------------------\n\n\u2022 Compatible with RDFLib 4.0.1\n\u2022 Compatible with Plone 4.3.2\n\u2022 Compatible with zc.buildout 2.2.1\n\u2022 Compatible with EDRN Ontology 1.8\n\u2022 Compatible with DMCC Web Services (test tier) as of 20140401\n\n\n1.2.3 \u2014 Protocols Without Publications\n--------------------------------------\n\nThe DMCC's SOAP service always lists a slot for publications even when a\nprotocol has no publications. But in RDF, we don't want make any statement\nabout publications when there aren't any. This release addresses that.\n\n\n1.2.2 \u2014 Upgrades\n----------------\n\nThis release addresses the following:\n\n* Compatible with RDFLib 3.2.3\n* Compatible with Plone 4.2.2\n\n\n1.2.1 \u2014 Links\n-------------\n\nThis release addresses the following:\n\n* CA-1031 - New RDF server fails to link protocols correctly\n\n\n1.2.0 \u2014 Webbed\n--------------\n\nThis release drops the SQL Server access and uses the DMCC's SOAP services\ninstead.\n\n\n1.1.3 \u2014 Ahoy Skipper\n--------------------\n\nThis release updates the tunnel to contact the DMCC's SQL Server database on\nits new home, skipper.fhcrc.org.\n\n* CA-957 - DMCC SQL Server for dbEKE password is no longer valid\n\n\n1.1.2 \u2014 Release Early, Release Often\n------------------------------------\n\nThis release fixes the default password for the EKE database. (We should\nreally just make this a parameter on a control panel, except we're supposed to\nswitch over to the ws_newcompass webservice anyway.)\n\n\n1.1.1 \u2014 Default Database Deliberation\n-------------------------------------\n\nThis release uses the database on ``localhost`` by default, since that's the\npoint of combining the RDF server with the tunneled backend deployment.\n\n\n1.1.0 \u2014\u00a0Upgrade Containerize\n----------------------------\n\nThis release makes edrn.rdf compatible with:\n\n* Zope 2.13\n* Plone 4.1\n* plone.testing 4.0.2\n\nIt also prepares the RDF server for decommissioning on ginger.fhcrc.org and\nrelocating at the EDRN Informatics Center.\n\n\n1.0.0 - Committees\n------------------\n\nThe following are addressed in this release:\n\n* Physical, mailing, and shipping addresses are no longer provided for each\n EDRN site. The DMCC removed all of them from the EKE database. However,\n they did add a single address to registered people. As a result, this\n release drops addresses from sites and adds them to people.\n* Committees. RDF feeds for the list of committees, their types, and their\n members are now available.\n\n\n0.0.11 - Author! Author!\n------------------------\n\nThe RDF feed for EDRN publications has had absolutely no author information in\nit. And yet no one noticed until today! So, this release fixes that issue.\n\nBy the way, if you're curious, you can see details about the issue at the\nfollowing location: https://oodt.jpl.nasa.gov/jira/browse/CA-582\n\n\n0.0.10 - PyMSSQL Lockdown\n-------------------------\n\nThis package depends on the Python Microsoft SQL Server library known as\n\"pymssql\", but never specified a version of the library to use. The latest\nversion available was just fine for quite some time.\n\nUntil today.\n\nToday, pymssql 1.9.905.1 was suddenly available, and it doesn't build. So,\nwe're locking ourselves down to pymssql version 1.0.2, which does build and\nworks just fine for what we need.\n\n\n0.0.9 - Account Names\n---------------------\n\nThe DMCC now provides user account names for registered people. This release\nsupports that by providing a place to specify the URI to the RDF predicate,\nand the RDF export uses that URI to state the account names of people who have\naccounts.\n\n\n0.0.8 - Official EKE Database\n-----------------------------\n\nThis release updates the database server changing it from pongo to compass1.\nThe new server, compass1, hosts the official RDF source information and\ncontains no funky testing data like \"Greg's Cool Protocol\".\n\n\n0.0.7 - Protocol Types and Eligibility Criteria\n-----------------------------------------------\n\nGreg Warnick has added additional data to the DMCC RDF database, comprising\nthe two following new slots:\n\n* ``Elibility_critera`` describing eligibility criteria of a protocol\n* ``Protocol_type``, what we thought was once long lost, is back!\n\nThis release of the RDF_ Server provides these two additional fields.\nAdditionally, it updates its test data and function test battery.\n\n\n0.0.6 - Investigators and Staff Strike Back\n-------------------------------------------\n\nThe \"Site\" view within the DMCC RDF database has gotten tons of action\nrecently. It's changed as follows:\n\n* ``Site_Specialty_Description`` is now called ``Site_Program_Description``\n* New field: ``IDs_for_Investigators``\n* New field: ``IDs_for_CoInvestigators``\n* New field: ``IDs_for_CoPrincipalInvestigator``\n\nIn addition, the ``Registered_Person`` view gained four new fields:\n\n* ``Fax``\n* ``Specialty``\n* ``Photo``\n* ``EDRN_Title``\n\nTherefore, this release of the EDRN_ RDF_ Server accommodates these updates.\nIn addition, it also updates its battery of tests and test data.\n\n\n0.0.5 - Investigators and Staff\n-------------------------------\n\nThe \"Site\" view within the DMCC RDF database now provides primary\ninvestigators, co-investigators, and other staff members at each site. This\nrelease updates the Site RDF_ generation to include such details.\n\n\n0.0.4 - Database Correction\n---------------------------\n\nRelease 0.0.3 got away with a test database setting still set. This release\ncorrects that and uses the correct source of RDF data.\n\n\n0.0.3 - Registered People\n-------------------------\n\nThis release of EDRN_ RDF_ Server provides a new data source: registered\npeople. Registered people are people known to EDRN. This data source\nprovides RDF descriptions of EDRN people. In addition, it also fixes the\nfollowing issues:\n\n* CA-296: Site-Specific URI Prefix missing on Protocol control panel. Added\n it in r4905.\n* CA-285: Numeric fields of research replaced with actual names; r4906.\n* CA-264: Export registered people; r4907.\n\nIn addition, we've reduced the amount of test data and made the unit tests run\na lot faster.\n\n\n0.0.2 - New DB Structure\n------------------------\n\nThis release of the EDRN_ RDF_ Server accommodates the new DMCC database\nstructure, particularly for diseases and protocols. Specifically, it\naddresses these issues:\n\n* CA-252: http://ginger.fhcrc.org/dmcc/rdf-data/diseases/rdf produces error\n* CA-253: http://ginger.fhcrc.org/dmcc/rdf-data/protocols/rdf produces error\n\nIn addition, it updates the functional tests' test database.\n\n0.0.1 - Protocols\n-----------------\n\nThis release of the EDRN_ RDF_ Server includes implementation of RDF service\nfor EDRN Protocols and Studies as tracked by the Data Management and\nCoordinating Center (DMCC).\n\nIn addition, this release contains:\n\n* Fixes to the layout of control panel pages for Body Systems, Diseases,\n Publications, and Site RDF sources.\n* Addition of a download URL to the PyPI package data.\n* Updates to the functional tests' test database.\n\n\n0.0.0 - Unreleased\n------------------\n\n* Initial release\n\n\n.. 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