Merge branch 'master', remote branch 'origin' into tom

Discussion/README.md

+# Technical Discussion
+
+This directory contains technical discussions and related notes between developers on the project.

Discussion/Relational Databases.md

+# Discussion on Relational Databases
+
+#### What is "normal form" and what informs the database schema design?
+
+Edgar F. "Ted" Codd created 12 rules (revised with a 13th rule) to clarify the Relational Database Management
+System (RDBMS).
+
+https://en.wikipedia.org/wiki/Edgar_F._Codd
+
+Breaking any of these rules weakens data integrity and the ability of the system to manage the data. An RDBMS
+is not merely a bucket of data, but an entire eco-system for the management of data and data related
+activities. Before Codd's work, databases were managed on an ad-hoc basis as collections of files with
+links. It was a mess. Data was lost. Only the DBA knew how to find the data, and access methods could be very
+different for data in different locations. Accessing data could also be extremely slow. In addition to
+assuring the integrity of data, as well as managing it, relational database systems are very fast.
+
+https://en.wikipedia.org/wiki/Codd%27s_12_rules
+
+The "R" in RDBMS is "relational" and Codd invented the relational model of data. Key to relational data
+modeling is "normal form".
+
+https://en.wikipedia.org/wiki/Database_normalization
+
+The RDBMS world generally uses third normal form. Lower levels of normalization create additional work for
+data operations. Higher forms rarely show any improvements. The key concept of normalization is that a datum
+only exists in one place. In the RDBMS world where SQL implements relational algebra, normal form is both
+convenient and natural. In other venues such as paper ledgers, data stored in flat files, or in spreadsheets,
+normal form can seem awkward.

Discussion/Staffing Model.md

+# Staffing Model (Brian's draft suggestions)
+
+Production of a cooperatively maintained high profile web site requires
+different types of Technical and non-technical work.
+
+Operations Team
+
+- Communications and interactions with end users and content owners,
+    from marketing to user support, assessment
+- Manages help desk
+-   Support production web application infrastructure, including
+    monitoring, "on call" for first tier response to system monitors
+- batch ingest of new data sources
+-   signs up and on-boards new pilot members
+- Proactive content QA and remediation
+-   work organized around issue queue / customer relationship management
+    system
+
+Main Artifact: Ticketing Issue tracker that automatically generates a
+ticket for an email to help@example.edu
+
+Development Team
+
+- Create new features that deliver customer value
+-   Maintain tests for new features
+- second tier support of deployed features, developers on call for
+    their deployed code
+- deploy code to test, stage, and production environments
+-   work organized around sprints
+
+Main Artifact: User story backlog that supports scoring stories by
+points,
+
+Research Team
+
+- Conduct experiments with new algorithms and technologies
+- interoperation (and participation in the development) of relevant
+    domain specific standards and practices
+
+Main Artifact: Research Agenda, schemas and specifications (esp. merge
+spec)

Help-using-gitlab.md → Help/Git-and-Gitlab.md

-### Info about Markdown
-
-Markdown is a markup language that is used in Gitlab for documentation text files. Markdown files have a .md extension and can be edited locally or online. However, for best results, we recommend editing files locally and then uploading them. There are good guides to the syntax [here](https://confluence.atlassian.com/stash/using-stash/markdown-syntax-guide) and [here](https://en.wikipedia.org/wiki/Markdown). 
-
-### Editing
-You can also edit markdown files locally, using a text editing application (such as TextEdit) or a word processing program (such as Word). However, be aware that some word processing programs may affect line breaks and formatting, which may change how information is displayed.
-
-You can edit markdown files from the Gitlab web site. From the Gitlab home page, click a project on the right
-side. On the project home page, click "Files" in the left navigation bar. Click a .md file. Click the "Edit"
-button on the right side. Update the text and when finished, enter a commit message below, and click the
-"Commit Changes" button.
-
-#### Markdown, local complete reference
-http://gitlab.iath.virginia.edu/help/markdown/markdown.md
-
-#### Markdown, same info, somewhat different format
-https://help.github.com/articles/markdown-basics/
-
-#### Github extensions to standard markdown:
-https://help.github.com/articles/github-flavored-markdown/
-
-#### Standard markdown notes:
-https://github.com/adam-p/markdown-here/wiki/Markdown-Cheatsheet
-
 ### Working locally and version control
 
 The Git technology was created to track revisions to many files. Gitlab provides a web site with some ability
@@ -86,4 +62,4 @@ http://doc.gitlab.com/ce/ssh/README.html
 https://confluence.atlassian.com/display/STASH/Creating+SSH+keys#CreatingSSHkeys-CreatinganSSHkeyonWindows
 
 #### Mac github, requires 10.9, probably github only.
-https://mac.github.com/
+https://mac.github.com/
\ No newline at end of file

Help/Markdown.md

+### Info about Markdown
+
+Markdown is a markup language that is used in Gitlab for documentation text files. Markdown files have a .md extension and can be edited locally or online. However, for best results, we recommend editing files locally and then uploading them. There are good guides to the syntax [here](https://confluence.atlassian.com/stash/using-stash/markdown-syntax-guide) and [here](https://en.wikipedia.org/wiki/Markdown).
+
+### Editing
+You can edit markdown files locally, rather than on the website.  One full-featured cross-platform Markdown editor is [Atom](http://atom.io).  After opening a file, pressing `Ctrl-Shift-M` for Win/Linux and `Cmd-Shift-M` for Mac will open a real-time preview of the markdown file.
+
+![Atom Screenshot](http://gitlab.iath.virginia.edu/snac/Documentation/raw/b39387646432816488537cce327f00e41aa79452/images/atom-screenshot.png "Screenshot of Atom editing Interface")
+
+You can also edit markdown files using a text editing application (such as TextEdit or Notepad). However, be aware that some word processing programs may affect line breaks and formatting, which may change how information is displayed.  
+
+You can edit markdown files from the Gitlab web site. From the Gitlab home page, click a project on the right
+side. On the project home page, click "Files" in the left navigation bar. Click a .md file. Click the "Edit"
+button on the right side. Update the text and when finished, enter a commit message below, and click the
+"Commit Changes" button.
+
+### Resources
+
+* [Gitlab markdown reference (local)](http://gitlab.iath.virginia.edu/help/markdown/markdown.md)
+* [Github markdown reference](https://help.github.com/articles/markdown-basics/)
+* [Github extensions to standard markdown](https://help.github.com/articles/github-flavored-markdown/)
+* [Alternate markdown cheatsheet](https://github.com/adam-p/markdown-here/wiki/Markdown-Cheatsheet)
+* [Official Markdown documentation](http://daringfireball.net/projects/markdown/)

Help/README.md

+# SNAC Help
+
+This directory contains helpful links and documentation on how to use various pieces of the subsystem.  Specifically, it contains help files for Git, Gitlab, and the Markdown syntax.

Historical Documentation/README.md

+# Historical Documentation
+
+This directory catalogs documentation related to previous iterations of the SNAC project.

LICENSE

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Notes/Other-Requirements.md

+
+Notes to merge with other requirements
+---
+
+Note for TAT functional requirements: need to have UI widget for search of very long fields, such as the Joseph Henry cpfRelations
+that contain some 22K entries. Also need to list all fields which migh have large numbers of values. In fact, part of the meta data for
+every field is "number of possible entries/reapeat values" or whatever that's called.This wiki serves as the documentation of the SNAC technical team as relates to Postgres and storage of data.  Currently, we are documenting:
+* the schema and reasons behind the schema,
+* methods for handling versioning of eac-cpf documents, and
+* elastic search for postgres.
+
+* Need a data constraint and business logic API for validating data in the UI. This layer checks user inputs against some set of rules and when there is an issue it informs the user of problems and suggests solutions. Data should be saved regardless. We could allow "bad" data to go into the database (assumes text fields) and flag for later cleaning. That's ugly. Probably better to save inputs in some agnostic repo which could be json, frozen data structures, or name-value pairs, or even portable source format. The problem is that most often data validation is hard coded into UI JavaScript or host code. Validation really should be configurable separate from the display of data, workflow automation, and data storage. While our database needs to do certain rudimentary sanity checks, the database can't be expected to send messages all the way back up to the UI layer. Nor should the database be burdened with validation rules which are certain to be mutable. Ideally, the validation rules would work in the same state machine framework as the workflow automation API, and might even share some code.
+
+* Need a mechanism to lock records. Even mark-as-deleted records won't necessarily solve all our problems, so we might want records that are "live", but not editable for whatever reason. The ability to lock records and having the lock integrated across all the data-aware APIs is a good idea.
+
+* On the topic of data, we will have user/group/other and r/w permissions, and all data-aware APIs should be designed with that in mind.
+
+* "Literate programming" Using MCV and the state machine workflow automation probably meets (and exceeds) Knuth's ideas of Literate programming. Look at his idea and make sure we aren't missing any key concepts.
+
+* QA and testing needs to be several layers, one of which is simple documentation. We should have code that examines data for various qualities, which when done in a comprehensive manner will test the data for all properties described in the requirements. As bugs are discovered and features added, this data testing code would expand. Code should be tested on several levels as well, and the tests plus comments in the tests constitute our full understanding of both data and code.
+
+* Entities (names) have ID values, ARKs and various kinds of persistent ids. Some subsystem needs to know how to gather various ID values, and how to generate URIs and URLs from those id values. All discovered ids need to be attached to the cpf identity in a table related_id. We will need to track the authority that issued the id, so we need an authority table. Perhaps it is best (as previously discussed) to create a CPF record for each authority, and use the CPF persistent ID as the authority identifier in the related_id table.
+
+```
+create table related_id (
+        ri_id auto primary key,
+        id_value text,
+        uri text,
+        url text,
+        authority_id int -- fk to cpf.id?
+);
+
+```
+
+
+* Allow config of CPF output formats via web interface. For example, in the CPF generator, we can offer some format and config options such as name formats in <part> and/or <relationEntry>
+
+  - include 4 digit fromDate-toDate for person
+  - include dates for corporateBody
+  - use "fl." for active dates
+  - use "active" for active dates
+  - use explicit "b." and "d."
+  - only use "b." or "d." for single 4 digit dates
+  - enclose date in parentheses
+  - add comma between name and dates (applies only if there is a date)
+
+and so on. In theory that could be done for all kinds of CPF variations. We should have a single checkbox for "use most portable CPF formats" although I suspect the best data exchange format is not XML, but SQlite, SQL INSERT statements, or json.
+
+* Does our schema track who edited a record? If not, we should add user_id to the version table.
+
+* We should review the schema and create rules that human beings follow for primary key names, and foreign key names. Two options are table_id and table_id_fk. There may be a better option
+  * Option 1 is nice for people doing "join on", but I find "join on" syntax confusing, especially when combined with a where clause
+  * Option 2 seems more natural, especially when there is a where clause. Having different field names means that field names are more likely to be unique, thus not requiring explicit table.field syntax. Option 2a will be used most of the time. Option 2b shows a three table join where table.field syntax is required.
+
+```
+-- 1
+select * from foo as a, bar as b where a.table_id=b.table_id;
+
+-- 2a
+select * from foo as a, bar as b where table_id=table_id_fk;
+-- or 2b
+select * from foo as a, bar as b, baz as c where a.table_id=b.table_id_fk and a.table_id=c.table_id_fk;
+
+```
+
+* Identity Reconciliation has a planned "why" feature to report on why a match matches. It would be nice to also report the negative: why didn't this match X? I'm not even sure that is possible, but something to think about.

Notes/README.md

+# Technical Notes
+
+This directory contains technical notes related to the SNAC project by developers.

README.md

-# Introduction to Documentation
+# SNAC Documentation
 
-The currently-being-revised TAT requirements are found in the [tat_requirements](tat_requirements).
+This repository contains all the documentation for the SNAC Web Application and related frameworks, engines, and pieces.  Specifically:
 
-The best place to start is the big, overall [plan](tat_requirements/plan.md).
+* The currently-being-revised Technical Requirements are found in the [Requirements Directory](Requirements).  
+* Formal Specifications for those requirements are in the [Specifications Directory](Specifications).
+* [Help](Help) on using Gitlab, Git, and the Markdown text format
+* [Documentation](Third Party Documentation) on third-party software and applications being used
+* [Historical Documentation](Historical Documentation) on previous iterations of SNAC
+* Technical [Discussions](Discussion) related to the SNAC project
+* [Notes](Notes) from the technical team.
 
-This is Gitlab, a work-alike clone of the Github web site, but installed locally on a SNAC server. Gitlab is a
+The best place to start is the big, overall [plan](plan.md) document, which describes the process forward with defining requirements and specifications.
+
+This repository is stored in Gitlab, a work-alike clone of the Github web site, but installed locally on a SNAC server. Gitlab is a
 version control system with a suite of project management tools.
 
-Ideally we will all create documentation in markdown format (.md files). You may create and edit files from
-the web interface here on gitlab, or download files and edit locally. You can also upload any file type using
+Ideally we will all create documentation in [markdown format](http://daringfireball.net/projects/markdown/) (.md files). You may create and edit files from
+the web interface here on Gitlab, or download files and edit locally. You can also upload any file type using
 standard git commands, or use a Git graphical client (see below). Choose a relevant directory for your docs,
-or create a new directory as necessary.
+or create a new directory as necessary.  
 
 Markdown files are simple text files, which makes them easy to edit and universally portable. Markdown has a
 limited set of conventions to denote headers, lists, URLs and so on. When uploaded to gitlab or github,
 markdown files are rendered into nicely styled HTML. Tools are available to convert markdown into .doc, .pdf,
-LaTex and other formats.
-
-#### How to use gitlab and markdown
-
-[Help using gitlab](Help-using-gitlab.md)
-
-
----
-
-
-Notes to merge with other requirements
----
-
-Note for TAT functional requirements: need to have UI widget for search of very long fields, such as the Joseph Henry cpfRelations
-that contain some 22K entries. Also need to list all fields which migh have large numbers of values. In fact, part of the meta data for
-every field is "number of possible entries/reapeat values" or whatever that's called.This wiki serves as the documentation of the SNAC technical team as relates to Postgres and storage of data.  Currently, we are documenting:
-* the schema and reasons behind the schema, 
-* methods for handling versioning of eac-cpf documents, and
-* elastic search for postgres.
-
-* Need a data constraint and business logic API for validating data in the UI. This layer checks user inputs against some set of rules and when there is an issue it informs the user of problems and suggests solutions. Data should be saved regardless. We could allow "bad" data to go into the database (assumes text fields) and flag for later cleaning. That's ugly. Probably better to save inputs in some agnostic repo which could be json, frozen data structures, or name-value pairs, or even portable source format. The problem is that most often data validation is hard coded into UI JavaScript or host code. Validation really should be configurable separate from the display of data, workflow automation, and data storage. While our database needs to do certain rudimentary sanity checks, the database can't be expected to send messages all the way back up to the UI layer. Nor should the database be burdened with validation rules which are certain to be mutable. Ideally, the validation rules would work in the same state machine framework as the workflow automation API, and might even share some code.
-
-* Need a mechanism to lock records. Even mark-as-deleted records won't necessarily solve all our problems, so we might want records that are "live", but not editable for whatever reason. The ability to lock records and having the lock integrated across all the data-aware APIs is a good idea.
-
+LaTex and other formats. For more information on Markdown, see [this guide](Help/Markdown.md).
+
+#### Help Links
+
+* [Git and Gitlab](Help/Git-and-Gitlab.md)
+* [Markdown](Help/Markdown.md)
+
+<p xmlns:dct="http://purl.org/dc/terms/" xmlns:vcard="http://www.w3.org/2001/vcard-rdf/3.0#" align="center">
+  <a rel="license"
+     href="http://creativecommons.org/publicdomain/zero/1.0/">
+    <img src="http://i.creativecommons.org/p/zero/1.0/88x31.png" style="border-style: none;" alt="CC0" />
+  </a>
+  <br />
+  To the extent possible under law,
+  <span resource="[_:publisher]" rel="dct:publisher">
+    <span property="dct:title">SNAC Cooperative</span></span>
+  has waived all copyright and related or neighboring rights to
+  <span property="dct:title">SNAC Documentation</span>.
+This work is published from:
+<span property="vcard:Country" datatype="dct:ISO3166"
+      content="US" about="[_:publisher]">
+  United States</span>.
+</p>
\ No newline at end of file
-* On the topic of data, we will have user/group/other and r/w permissions, and all data-aware APIs should be designed with that in mind. 
-
-* "Literate programming" Using MCV and the state machine workflow automation probably meets (and exceeds) Knuth's ideas of Literate programming. Look at his idea and make sure we aren't missing any key concepts.
-
-* QA and testing needs to be several layers, one of which is simple documentation. We should have code that examines data for various qualities, which when done in a comprehensive manner will test the data for all properties described in the requirements. As bugs are discovered and features added, this data testing code would expand. Code should be tested on several levels as well, and the tests plus comments in the tests constitute our full understanding of both data and code.
-
-* Entities (names) have ID values, ARKs and various kinds of persistent ids. Some subsystem needs to know how to gather various ID values, and how to generate URIs and URLs from those id values. All discovered ids need to be attached to the cpf identity in a table related_id. We will need to track the authority that issued the id, so we need an authority table. Perhaps it is best (as previously discussed) to create a CPF record for each authority, and use the CPF persistent ID as the authority identifier in the related_id table. 
-
-```
-create table related_id (
-        ri_id auto primary key,
-        id_value text,
-        uri text,
-        url text,
-        authority_id int -- fk to cpf.id?
-);
-
-```
-
-
-* Allow config of CPF output formats via web interface. For example, in the CPF generator, we can offer some format and config options such as name formats in <part> and/or <relationEntry>
-
-  - include 4 digit fromDate-toDate for person
-  - include dates for corporateBody
-  - use "fl." for active dates
-  - use "active" for active dates
-  - use explicit "b." and "d."
-  - only use "b." or "d." for single 4 digit dates
-  - enclose date in parentheses
-  - add comma between name and dates (applies only if there is a date)
-
-and so on. In theory that could be done for all kinds of CPF variations. We should have a single checkbox for "use most portable CPF formats" although I suspect the best data exchange format is not XML, but SQlite, SQL INSERT statements, or json.
-
-* Does our schema track who edited a record? If not, we should add user_id to the version table.
-
-* We should review the schema and create rules that human beings follow for primary key names, and foreign key names. Two options are table_id and table_id_fk. There may be a better option
-  * Option 1 is nice for people doing "join on", but I find "join on" syntax confusing, especially when combined with a where clause
-  * Option 2 seems more natural, especially when there is a where clause. Having different field names means that field names are more likely to be unique, thus not requiring explicit table.field syntax. Option 2a will be used most of the time. Option 2b shows a three table join where table.field syntax is required.
-
-```
--- 1
-select * from foo as a, bar as b where a.table_id=b.table_id;
-
--- 2a
-select * from foo as a, bar as b where table_id=table_id_fk;
--- or 2b
-select * from foo as a, bar as b, baz as c where a.table_id=b.table_id_fk and a.table_id=c.table_id_fk;
-
-```
-
-* Identity Reconciliation has a planned "why" feature to report on why a match matches. It would be nice to also report the negative: why didn't this match X? I'm not even sure that is possible, but something to think about. 
-

Requirements/Generated Documents.md

+# System-Generated Documents
+
+The following documents and data should be generated from the completed system.
+
+## Data Interoperability
+
+Data should be available to be downloaded in the following formats:
+
+* EAC-CPF XML
+    * Individual identity constellations should be download-able as fully-formed EAC-CPF XML documents
+* Turtle Triples
+    * Subsets of the data, including the entire database, should be exportable as well-formed Turtle triples
+* RDF Triples
+    * Subsets of the data, including the entire database, should be exportable as well-formed RDF triples
+* JSON-LD
+    * Subsets of the data, not including the entire database, should be exportable as well-formed JSON-LD
+
+
+## System Reports
+
+While the web interface is the primary public face of SNAC, many other views of the data and meta data are
+necessary, especially for admins and governance. Those "views" are reports and will primary be generated via
+integration of a third-party reporting package such as Jaspersoft Business Intelligence Suite, which is free,
+open source, and includes a full range of tools.
+
+For each user of the system, the following reports should be available for download:
+
+* List of records the user has edited
+* Number of records the user has edited
+
+For each holding institution, the following reports should be available for download:
+
+* Number of records the institution has edited
+* Number of records the institution has contributed
+* List of records the institution has contributed
+* List of records the institution has edited
+* List of individuals within the institution and the records edited by each person
+* List of records the institution has contributed with individuals who contributed to each record
+
+General reporting:
+
+* Number of participating holding institutions
+* Number of records edited per hour, day, month, year
+* Number of identity constellations available in the database

Requirements/Identity Reconciliation.md

+# Identity Reconciliation

Requirements/Internal Data Storage.md

+
+# Internal Data Storage
+
+The data should be stored in a SQL database. Every piece of data is in a separate field to the extent that is practical.
+Data is organized into fields (columns) records (rows) and tables. Fields related to each other are in the
+same table. Every record has a unique, permanent, numerical id often called a "key" or "primary key". For
+the SNAC Co-op we have decided that records are never overwritten during update.  An update operation creates a new record identical to the old record except for updated
+fields. All old records are available for viewing via special interface. The old records are invisible to
+operations that are intellectually acting on "current" data.
+
+Version history, including past versions of a field and record, users that made changes to that data, institution history, and timestamps must be kept in the internal data storage.
+
+Provenance of each element must be captured as well, including across merges and splits of identity constellations.
+
+
+The application must avoid storing mixed markup as much as possible.  (Brad Westbrook sugests we avoid mixed markup).
+
+
+## Captured actions on data
+
+Prior to human edits, merged records can be algorithmically split by the computer, assuming we write code to
+perform such a split. After human edit, a split must be performed by a human. It is a requirement that all
+previous versions can be viewed (read-only) during the human-mediated split operation so the human can refer
+back to previous information.
+
+After human edits, rollback only applies to human edited versions. There is a fire-break where rollback cannot
+cross from human edits back to machine-merged descriptions. The policy group needs to supply policy
+requirements for the tech folks to implement.
+
+The broad requirements for the application are: edit data, split records, merge records. Secondary features to
+make the system useful include: work flow enforcement, search, reporting (including "watch" features),
+administration, authorization (data privileges).

Requirements/Licensing.md

+# Licensing and Copyright
+
+The documentation and code generated by the SNAC Cooperative must have license files and text associated with them.
+
+* [Documentation](#documentation)
+* [Code](#code)
+
+
+## Documentation
+
+All documentation must be assigned the Creative Commons Zero (CC0) license.  It's text is below:
+
+```
+CC0 1.0 Universal
+
+Statement of Purpose
+
+The laws of most jurisdictions throughout the world automatically confer
+exclusive Copyright and Related Rights (defined below) upon the creator and
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+
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+and redistribute as freely as possible in any form whatsoever and for any
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+reputation or greater distribution for their Work in part through the use and
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+
+For these and/or other purposes and motivations, and without any expectation
+of additional consideration or compensation, the person associating CC0 with a
+Work (the "Affirmer"), to the extent that he or she is an owner of Copyright
+and Related Rights in the Work, voluntarily elects to apply CC0 to the Work
+and publicly distribute the Work under its terms, with knowledge of his or her
+Copyright and Related Rights in the Work and the meaning and intended legal
+effect of CC0 on those rights.
+
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+to, the following:
+
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+
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+
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+
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+
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+  European Parliament and of the Council of 11 March 1996 on the legal
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+
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+  based on applicable law or treaty, and any national implementations thereof.
+
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+applicable law, Affirmer hereby overtly, fully, permanently, irrevocably and
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+
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+For more information, please see
+<http://creativecommons.org/publicdomain/zero/1.0/>
+```
+
+## Code
+
+All code must be assigned the BSD 3-Clause license, including the copyright header for the Rector and Visitors of the University of Virginia, and
+the Regents of the University of California, as printed in the text below:
+
+```
+Copyright (c) 2015, the Rector and Visitors of the University of Virginia, and
+the Regents of the University of California
+All rights reserved.
+
+Redistribution and use in source and binary forms, with or without
+modification, are permitted provided that the following conditions are met:
+
+1. Redistributions of source code must retain the above copyright notice, this
+list of conditions and the following disclaimer.
+
+2. Redistributions in binary form must reproduce the above copyright notice,
+this list of conditions and the following disclaimer in the documentation
+and/or other materials provided with the distribution.
+
+3. Neither the name of the copyright holder nor the names of its contributors
+may be used to endorse or promote products derived from this software without
+specific prior written permission.
+
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
+ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
+WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
+DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE
+FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
+DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
+SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
+CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
+OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
+OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+```

Requirements/Mellon Proposal.md

+## Technology
+
+The long-term technological objective for the Cooperative is a platform that will support a continuously expanding, curated corpus of reliable biographical descriptions of people linked to and providing contextual understanding of the historical records that are the primary evidence for understanding their lives and work. Building and curating a reliable social-document corpus will involve a balanced combination of computer processing and human identity verification and editing. The next step towards realizing the long-term objective is to transition from a research and demonstration project to a production web service.  From a technical perspective, this means transitioning from a multistep human-mediated batch process to an integrated transaction-based platform. Instead of the data being passed along from one programmer to another, the architecture will automate the flow of data in and out of the different processing steps by interconnecting the processing components, with events taking place in one component triggering related events in another. For example, the addition of a new descriptive record will lead to automatic updating of graph data in Neo4J and updating the indexed data in the History Research Tool. The coordinated architecture will support both the batch ingest of data and human editing of the data to verify identities and refine and augment the descriptions over time. 
+
+Using techniques developed in the research and demonstration phase of SNAC, computer processing will be used to extract and ingest existing name authority and biographical data from existing archival descriptions. Identity reconciliation, i.e. matching and combining two or more descriptions for the same person, organization, or family, has relied solely on algorithms in the research phase. While identity reconciliation techniques will continue to inform the reconciliation process, Cooperative professional editors, beginning with librarians and archivists though expanding over time to include allied scholars, will verify identities and curate the data. This two faceted approach, combining intelligent computer processing and professional editing, will enable building a large corpus of networked social-document data that is not constrained geographically or by historical period, and over time establishes an expanding core of reliable identities within the overall corpus. (See Appendix 4 for a diagram showing the relationship between certain/uncertain data and dense/sparse evidence for identity resolution.)
+
+
+### Current SNAC R&D Technology Platform
+
+Current SNAC processing employs a complex sequence of steps that produces a collection of biographical descriptions used to produce the History Research Tool. 
+
+* Acquire source data from archives, libraries, and OCLC WorldCat (EAD-encoded finding aids; MARC21; and ad hoc authority and biographical data sets).
+* Extract data essential to assembling descriptions of persons, organizations, and families into standardized descriptions (EAC-CPF).
+* Load the name and, when available, the existence dates of the entity described in each EAC-CPF instance into the PostgreSQL database the multi-component platform that attempts to match and combine different descriptions of the same identity into a single description.  
+* Names in the PostgreSQL database are matched against more than 25 million identities in the Virtual International Authority File (VIAF), maintained by OCLC. Cheshire, an XML-based indexing tool developed at the University of California, Berkeley is a key component of this step. Based on a sequence of matching attempts, additional data is associated with each identity in the PostgreSQL database.
+* Based on an evaluation of the match processing results, a final set of EAC-CPF instances is produced to serve as the basis for the History Research Tool. For instances that are deemed to be for the same identity, the different instances are combined based on complex merge algorithms; instances deemed to be possibly for the same identity but lacking sufficient confidence to be merged are related to one another as "maybe the same as;" and finally instances that do not match or weakly match are passed into the results as is.
+* A subset of the EAC-CPF data is extracted and loaded into Neo4J, a graph database. The graph database serves two primary functions: support of graphical representations of the SNAC social-document network, and exposing a subset of the SNAC data as Resource Description Framework (RDF) Linked Open Data (LOD).1 
+* The resulting set of EAC-CPF instances is used to produce the History Research Tool. The key underlying platform is XTF, an open-source XML-based publishing tool developed at the California Digital Library. 
+
+Transforming the existing platform into a platform that supports both ingesting of large batches of data but also manual maintenance of the data will require a reconfiguration of major components of the current underlying technology. Two major existing components will be retained with minimal modification during the pilot: the "back end," the processing used to extract data from existing descriptive sources and assemble it into EAC-CPF instances; and the "front end," the History Research Tool. While the code and technology for these two components of the SNAC infrastructure would benefit from additional development and refinement, each is sufficiently robust and functionally complete to remain largely unchanged during the pilot. The intermediate technologies used in loading and matching of the EAC-CPF will need to be thoroughly revised, retaining existing functionality but in a configuration that will support both batch and manual maintenance. One component, the processes used to merge or combine matching EAC-CPF instances will be deferred to a later stage of development (to be described below). Finally, two components that will be developed in the pilot are entirely new: an API to support both batch processing and an Editing User Interface, and development of the Editing User Interface itself. While the transformation of the underlying technology is underway, there will be a one-year pause in batch ingesting new data in order to focus programming resources on the essential development work needed to go forward. No large batches of new source data have been solicited for the pilot, although pilot member institutions will contribute batches of data for use in first testing and then bringing online the batch ingest function of the Cooperative. During the pilot, new sources of batch data will be solicited for the second two-year phase of establishing the Cooperative.
+
+### Data Maintenance Store
+
+In the current processing stream, the EAC-CPF instances are placed in a read-only directory as the primary data store.  A small number of select components (name strings) of each EAC-CPF XML-encoded instance are loaded into a PostgreSQL database.  In order to support dynamic manual editing of the EAC-CPF instances, it will be necessary to parse the entirety of each EAC-CPF instance into PostgreSQL tables.2 Parsing all (or most) components of the EAC-CPF instances into SQL tables is necessary because no open source native XML database will efficiently support the essential maintenance functionality required, in particular effectively managing editing transactions at the component-level of each EAC-CPF instance.3 MarkLogic would enable maintaining the data in XML, but it is an expensive commercial platform. The most robust of the open source native XML databases, eXist, does not support transaction management. Further, EAC-CPF was not designed as a maintenance format, but rather as a communication format and, with this in mind, was intentionally designed to facilitate the serialization of the data into and out of SQL environments.4
+
+The PostgreSQL Data Maintenance Store (DMS) will represent the core foundation of the SNAC technology platform. It will hold the crucial SNAC data, including: the parsed EAC-CPF instances, version control for modified data fields, editor authorization privileges, editor work histories (e.g., edit status on individual EAC-CPF instances), local controlled vocabularies (e.g., occupations, functions, subjects, and geographic names), and workflow management data. An open source authentication system will mediate editor/user access to the DMS. All other component subsystems will rely in large part on the DMS, with several of the DMS functions being generalized to be effective through the component APIs. Additionally, nearly all reporting for editors and administrators will be based on the DMS. We will use an open source reporting package, but the reports themselves will need to be generated by the DMS. With the DMS as the core foundation of the SNAC technology platform, evolving features of the component subsystems will often require further development of corresponding functions in the DMS.
+
+### Identity Reconciliation
+
+A major focus of the SNAC R&D has been on identity reconciliation. A fundamental human activity in the development of knowledge involves the identification of unique "real world" entities (for example, a particular person or a specific book) and recording facts about the observed entity that when taken together uniquely distinguishes the entity from all others. Establishing the identity of a person, for example, involves examining available evidence, including the existing knowledge base, and recording facts associated with him or her. For a person, the facts would include names used by and for them, dates and places of birth and death, occupation, and so on.  Establishing identities is an ongoing, cumulative activity that both leverages existing established identities and establishes new identities. Identity reconciliation is the process by which an encountered identity is compared against established identities, and if not found, is itself contributed to the established base of identities. The networked computing environment presents opportunities for using algorithm-based inference methods for comparing newly encountered entities with established identities to determine the probability that a new entity represents the same person or thing as an established identity. In this way, the ongoing expansion of the base of reliable identities is an interplay of human research, knowledge recording, and computational methods. 
+
+With the emergence of Linked Open Data (LOD) and the opportunity it presents to interconnect distributed sets of information, new names for entities are introduced, namely the URI's used to provide globally unique identifiers to entities. In order to exploit the opportunity presented by LOD, it necessary to include these URI's in the reconciliation process. SNAC assigns its own identifiers (ARKS) because doing so is essential to effectively managing the identities throughout the processing and maintenance. Even if this were not essential for managing the workflow, the majority of the identities in SNAC will not be found in other sources such as VIAF, and thus the SNAC identifiers and associated data that establish the identity are likely to be unique, at least in the near term.5 For those identities that do overlap with VIAF, SNAC processing takes advantage of the VIAF reconciliation to associate the VIAF identifier as well as identifiers for Wikipedia and WorldCat Identity.
+
+SNAC identity reconciliation processing, while sufficiently reliable for the research and demonstration purposes of SNAC, is inadequate for meeting the long-term objective of building a large corpus of networked social-document data that, over time, establishes an expanding core of reliable identities within the overall corpus. This objective will require a calibrated balance of computational methods and human verification of identities, and it must be possible to refine the balance over time as new understandings and insights into the processing arise, and as new data patterns are encountered in new sources data. To inform the refinement of the match processing in balanced relation with the human verification, an ongoing quality review regimen needs to be put in place that supports efficient evaluation of match algorithms that employs both benchmark data used in testing and revising algorithms, and feedback for revision of algorithms. Revision of the match processing will require the following:
+
+* Developing an Identity reconciliation services module with API that supports batch match evaluation processing, evaluation of identities that are manually added through the Editing User Interface, and OpenRefine users interested in reconciling names against SNAC identities.6
+* Establishing a quality review process that employs benchmark or "ground truth" data to be used in evaluating and refining match algorithms and a regimen of ongoing human review that is performed collaboratively by Cooperative staff and members. The benchmark data will be initially based on the in-depth match quality evaluation that was performed by an outside consultant during the SNAC research phase. The consultant’s report, describing in detail both methods employed and results will also serve as the basis for training Cooperative staff and members.
+
+The major components of the current match or identity reconciliation processing are Cheshire and PostgreSQL. For each EAC-CPF instance, Cheshire is used to perform a series of queries of the Virtual International Authority File (VIAF), with the results of the queries (positive matches, possible matches, and non-matches) being stored in the PostgreSQL database for use in later processing. The Cheshire index may be replaced because it has proven to be problematic to maintain, though the final decision will be based on ongoing testing of alternatives, such as ElasticSearch, to ensure that that any replacement for Cheshire will provide the performance and functionality required. 
+
+There are three major reconciliation results: reliable match; possible match; and no match. These determinations are based on string matching combined with the relative "identity strength" of each name string, that is, the extent to which the name string is likely to uniquely identify a person, organization, or family in a large population. Factors considered in determining the "identity strength" of a name string are the following: length of the string, the number and length of name components, the order of the name components, the presence or absence of life dates, how common the surname is, and others. Another way of understanding "identity strength" is as a determination of the quantity and quality of available evidence.7 If two matching strings contain sufficient evidence, then two strings are deemed a reliable match; if the strings do not contain sufficient evidence, then the strings are flagged as a possible match.  
+
+The reconfiguration will enable the identity reconciliation processing to be integrated with the extraction/assembling processing, the data maintenance platform, and the editing user interface.8 EAC-CPF extracted and assembled using existing archival descriptions (EAD-encoded finding aids, MARC21, or existing non-standard archival authority records) will be batch ingested into the SNAC Cooperative PostgreSQL database; when ingested, the Identity Reconciliation module will be invoked to flag reliable matches, possible matches, non-matches. The results of the identity reconciliation evaluation will be available to editors through the Editing User Interface to assist them in verifying identities.  When editors create new identity descriptions or revise existing descriptions, the Identity reconciliation module will be invoked to provide the editors with feedback on likely and potential matches that may be otherwise overlooked when employing human-only authority control techniques. 
+
+Merge processing, that is the automatic merging or combining of EAC-CPF instances deemed reliably to be for the same identity, will be deferred until after the revision of the match processing and developing an effective quality evaluation regimen. The current merge processing combines two or more EAC-CPF instances into one. The combining is primarily cumulative, though redundant data fields are combined as a further step. Once human verification and editing is introduced, any automatic merging of records will necessarily need to respect the integrity of the judgment of the human editors.  The merge algorithms will need to be based on policies developed in consultation with the Cooperative community, taking into account quality evaluation findings and the nature of the components of each description. The engagement of the archivists and librarians thus will be essential in developing an appropriate balance of computer and human maintenance of the data. An informed understanding of the issues will not be possible until the editing platform and editing interface are functional, and the community knowledgeably engaged. 
+
+### Editing User Interface
+
+Developing the Editing User Interface (EUI) is a primary objective of the two-year pilot. The SNAC developers have identified the essential functional requirements for the interface, and extensive user studies with archivist and librarians have been used to refine and substantially extend the requirement list. Because the EUI is dependent on the reconfiguration and development of the data maintenance and identity reconciliation modules, and the development of the Edit API, the development will first focus on engaging the pilot participants by means of wireframes of the EUI, in conjunction with rehearsing established research and description tasks, the order or orders in which such task are performed, and walk-throughs of the steps involved in manually adding, revising, merging, and splitting identity descriptions. These activities and the findings that result from them will inform the parallel development of the maintenance platform. When the underlying data maintenance platform is in place, development of the EUI will commence, informed by the activities described above. As the EUI becomes functional, the pilot participants will transition to iteratively testing and using it to perform editing tasks to ensure that the essential functions are supported and that this support makes the performance of the tasks logical and efficient. Those functions of the EUI that overlap with the History Research Tool will employ a common interface. The bulk of the EUI will be based on JavaScript running in modern web browsers.  
+
+
+### Graph Data Store – Visualizations and Exposure of RDF/LOD
+
+Neo4J, an open source graph database, is currently used to generate social-document network data as GraphML. The generated GraphML supports the graphic representations of the social-document network in the History Research Tool. In addition, it supports exposure of the SNAC data for third-party use through Resource Description Framework (RDF) Linked Open Data (LOD). The Neo4J component will not require major reconfiguration during the pilot, but will be used as an active source of the social-document network data in place of static GraphML representation. In this capacity, the Neo4J database will provide a number of services: serving graph data to drive social-document network graphs in the HRT; and serving and providing LOD through a SPARQL endpoint and RDF exports for third-party consumption. It will, however, be necessary to integrate both the data ingest and data serving functionality of Neo4J into the coordinated system architecture in order to ensure that the graph data and dependent services remain current with the evolving SNAC data. 
+
+While the initial focus of the Cooperative is on the curation of data, it is interested in using the social-document network data in public graphical displays of the networks and exposing the data as LOD in RDF syntaxes (RDF/XML and RDF compatible JSON-LD) for use by third parties. By exposing the data for use in a variety ways (including making available full EAC-CPF XML-encoded instances) the Cooperative will contribute to global open data initiatives that are intended, among other objectives, to promote use and reuse of data in innovative ways, and to interconnect and interrelate complementary resources that currently exist in isolation from one another.   
+
+Currently there is no existing ontology for archival description, and thus the classes and properties used in exposing graph data expressed in RDF is based on classes and attributes selected from existing, well-known and widely used ontologies and vocabularies: Friend of a Friend, OWL, SKOS, Europeana Data Model (EDM), RDA Group 2 Element Vocabulary, Schema.org, and Dublin Core elements and terms.9 In the long term, it should be noted that the International Council on Archives' Expert Group on Archival Description (EGAD; chaired by the PI) is developing an ontology for archival entities and the description thereof. While the initial focus of EGAD necessarily is focused on developing a clear model of the world based on archival curatorial principles, once this work is completed, the group intends to collaborate in mapping the archival ontology to CIDOC CRM, which incorporates both museum and library description.10
+
+
+### Component Subsystem Integration
+
+In order to integrate the component subsystems of the Cooperative technological platform we will develop a thin middleware component that routes each request from a client or from an intra-server process to the appropriate individual subsystem based on SNAC workflows we will establish. The middleware component invokes the required functions via calls to the subsystems: Identity Reconciliation, PostgreSQL database, Neo4J graph database, History Research Tool, and Editing User Interface. These subsystems deal with the variety of automated and semi-automated transactions required by the Cooperative platform.
+
+We will develop the Cooperative middleware component as a LAMP application rather then using an open source Enterprise Service Bus (ESB).11 We will use LAMP (with PostgreSQL) for efficiency of coding; flexibility enabled by a very large number of available software modules; ease of maintenance; and clarity of software architecture (that is, the model-view-controller).12 The result will be a lightweight and easy to administer software stack. (See Appendix 11 for diagrams illustrating the basic system architecture.) ESBs contain far more features than required by the Cooperative architecture, and because of the complexity these unwanted features present, it would be less efficient to configure and maintain the middleware using an ESB than simply selecting only the components needed by the architecture from a large library of existing open source LAMP modules.
+
+The thin middleware component will be available via a RESTful API, allowing appropriate third party access to services. A simple example might be a dedicated MARC21-to-EAC converter where a MARC21 record is uploaded, data extracted and transformed into EAC-CPF, and returned in a single transaction. Another example is saving an identity record where the data is written to PostgreSQL, EAC-CPF is exported to and indexed by XTF, and the Neo4j database is updated. The three steps are sequenced by the thin middleware component.  
+
+With respect to potential third party applications, Brad Westbrook from Lyrasis has participated in the technical planning for the Cooperative, in anticipation of extending ArchivesSpace to include a SNAC editing interface. Adding this capacity will enable archives, libraries, and museums using ArchivesSpace to benefit from the Cooperative data, and to link the description of local holdings to SNAC descriptions of organizations, persons, and families.  The PI has also had discussions with Susan Perdue at the Virginia Foundation for the Humanities and Director of Document Compass. Perdue is currently in the planning stages of developing an open source platform to support documentary editing. Incorporating a SNAC editing interface into this platform would be of significant benefit to documentary editors (as a reference resource), and would expand the range of professionals participating in the SNAC Cooperative. Finally, the Staatsbibliothek zu Berlin is keenly interested in interrelating Kalliope with SNAC, contributing 600,000 person and organization descriptions linked to 2.5 million descriptions of archival holdings.

Requirements/New Features.md

+# Required New Features
+
+The majority of new features will be in two areas: the maintenance
+system, and the administration system. None of this code exists. The
+maintenance system has a web UI and a server-based back end that
+interacts with the same database used by the match-merge. The
+maintenance system also requires an authentication system (login) that
+allows us to manage the extensive collaborative efforts. The current
+processing of data is accomplished only on servers at the command line,
+and is handled directly by project programmers. In the new maintenance
+system, that will be driven by content experts via a web site, and
+therefore must expect the issues of authentication and authorization
+inherent in collaborative data manipulation web applications.
+
+The system will require reports. These will cover broad classes of
+issues related to managing resources, usage statistics, administration,
+maintenance, and some reports for end user researchers.
+
+- Web application (architect: Robbie)
+
+The web application is a wrapper for all the APIs. It can have an API of it own, or not. It handles all http
+requests, validating the data, deciding what needs to be done, doing real work, and handing some output back
+to the user. Typically the output is HTML, but we are already planning for file downloads, and JSON data as
+output from REST API calls.
+
+- Data validation API
+
+Data from the web browser needs sanity checking and untainting before being handed to the rest of the
+application. Initially the data validation API can consist of nothing more than untaining input from the
+browser. We can add various checks and tests. We need to decide if the validation API can reject data, and if
+it can, then it needs to interact with the work flow engine, the actual work flow, and whatever messaging
+system we use to display messages to end users.
+
+- Identitiy Reconciliation (aka IR) (architect: Robbie)
+
+This API uses many aspects of identity, testing each against a target population of other identities. The
+final anwser is a floating point number giving a match strength. IR has two modes of operation. Mode one
+compares two identities and returns a match strength. Mode two compares a single identity againast the entire
+database returning match strength. Mode two is somewhat unclear.
+
+- workflow manager (Tom)
+
+Every action the application can perform is part of the work flow. The names of these actions along with names
+of their requisites are organized into a work flow table. The work flow engine does not know how to do real
+work, but it does know the names of the functions which do the real work. A new feature (aka function, task)
+is added to the application, by adding its name to the work flow, and creating a function of the same name in
+the application. Likewise, requistes are determined by boolean functions, and every requisite must have a
+matching function known to the work flow engine. The work flow enforces role-based behavior by testing the
+requisites. The workflow engine exists, but needs to be ported from Perl to PHP, and the work flow data should
+be stored in the SQL database.
+
+- Support for work history and task staging.
+
+Editing consists of several stages of work that may be performed by different people and/or different
+roles. We need database tables to support saving of work state data. Create a prototype table schema so we can
+think about this problem and create a functional spec.
+
+For an edit we need the CPF id, user id, timedate stamp, bitfield or work flow tags, optional user notes. For
+search we need: user id, search string, timedate stamp.
+
+- SQL schema (Robbie, Tom)
+
+All data is stored in a SQL database. Details are given elsewhere.
+
+- Controlled vocabulary subsystem or API [Tag system](#controlled-vocabularies-and-tag-system)
+
+We need controlled vocabulary for several data fields. This system handles all aspects of all controlled vocabularies.
+
+- CPF to SQL parser (Robbie)
+
+The input for the application is CPF files. These files need to be parsed into data fields and input into the
+SQL database. This application exists, but needs some additional functionality.
+
+- Name serialization tool, selectable pre-configured formats
+
+Outputting name strings based on name data fields in the database is a tricky problem. There are several
+output formats. The name serialization deals with this issue.
+
+- Name string parser
+
+Names in CPF files are currently strings. The CPF <part> element has been imported into the SQL database as a
+string, but data needs require individual name components. Parsing names is a tricky problem, but several
+parsers exist. We need to integrate one or more parsers, and perhaps tweak those parsers to handle the SNAC names.
+
+- Date parser
+
+We have several date parsers, but none are fully comprehensive. We can use the existing parsers, but they need
+to be integrated into a single, comprehensive parser.
+
+- CPF record edit, edit each field
+
+Record editing on the server is handled by a collection of functions. The specifications for this may evolve
+in parallel to the code. We know that each field needs to be changed, but the details of work flow and data
+validation have not been determined. Work flow and validation are both likely to change as the SNAC policies
+evolve. There are UI requirements for editing.
+
+- CPF record split, split data into separate cpf identities, deprecate old ARK, mint new ARKs
+
+Record splitting requires a set of functions and UI requirements documented elsewhere.
+
+- CPF record merge, combine fields, deprecate old ARKs, mint new ARK
+
+Record merge requires a set of functions and UI requirements documented elsewhere.
+
+- Object architecture, coding style, class template (architect Robbie)
+
+We will have a specific architecture of the web application, and of the classes and objects involved.
+
+- UI widgets, mostly off the shelf, some custom written. We need to have UI edit/chooser widget for search and
+  select of large numbers of options, such as the Joseph Henry cpfRelations that contain some 22K
+  entries. Also need to list all fields which might have large numbers of values. In fact, part of the meta
+  data for every field is "number of possible entries/reapeat values" or whatever that's called. From a
+  software architecture perspective, the answer is 0, 1, infinite.
+
+One important aspect of the project is long-term viability and preservation. We should be able to export all
+data and metadata in standard formats. Part of the API should cover export facilities so that over time we can
+easily add new export features to support emerging standards.
+
+The ability to export all the data for preservation purposes also gives us the ability to offer bulk data
+downloads to researchers and collaborating peer institutions.

Requirements/README.md

+# Requirements Documents
+
+These documents describe the functionality desired of the system.  These should be high-level requirements, geared toward the policy side, of the form "The system should do X."
+

Requirements/Software Development Process.md

+# Software Development Process
+
+Development on the SNAC web application should use agile development practices, with the shortest-possible-but-reasonable sprint size possible.  See [scrum documentation](http://scrummethodology.com/scrum-sprint/) for more detailed information about agile development methods.  Test-driven development should also be employed to automate testing and interconnect testing with the development process.
+
+The git version control system should be used as the repository for code in the application.  It allows distributed editing with highly-configurable branching of development, a "blame" system that allows viewing which developer added a specific line of code, and is cross-platform.  It is also supported by [gitlab](http://gitlab.iath.virginia.edu), which should be used for internal development timelines, milestones, bug- and issue-tracking, and project management.  Final versions of the repositories may then be pushed to the public-facing [github](https://github.com/snac-cooperative) repositories.
+
+
+## General Discussion Notes
+
+Choices for programming languages, operating system, databases, version
+control, and various related tools and practices are based on extensive
+experience of the developer community, and a complex set of requirements
+for the coding process. Current best practices are agile development
+using practices that allow programmers wide leeway for implementation
+while still keeping the processes manageable.
+
+Test-driven development ideally means automated testing, with careful
+attention to regression testing. It takes some extra time up front to
+write the tests. Each test is small, and corresponds to small sections
+of code where both code and text can be quickly created. In this way,
+the software is kept in a working state with only brief downtimes during
+feature creation or bug fixes. Large programs are made up of
+intentionally small functions each of which is tested by a small
+automated test.
+
+Regression testing refers to verifying that old bugs do not reappear.
+Every bug fix has a corresponding test, even if the function in question
+did not originally have a test for the bug. Each new bug needs a new
+test. Bugs frequently reappear, especially in complex sections of code.
+
+Source code version control is vital to both development process, and to
+the release process. During development, frequent small changes are
+checked-in to the version control, along with a meaningful comment. The
+history of the code can be tracked. This occasionally helps to
+understand how bugs come into existence. In the Git system, the history
+command is “blame”, a bit of programmer dark humor where the history is
+used to know who to blame for a bug (or any undesirable feature).
+
+Moving code into Quality Assurance (QA) and then into the production
+environment are both integral with source code management. Many version
+control systems allow tagging a release with a name. The collected
+source code files are marked as a named (virtual) collection, and can be
+used to update a QA area. Human testing and review happens in QA. After
+QA we have release. Depending on the nature of the system release can be
+quite complex with many parties needing to be notified, and coordination
+across groups of developers, sysadmin, managers, support staff, and
+customers. Agile development tends towards small, seamless releases on a
+frequent (weekly or monthly) basis where communication is primarily via
+update of electronic documentation. The process needs to assure that
+fixes and new features are documented. The system must have tools to see
+the current version of the system with its change log, as well as
+comparing that to previous releases. All of these are integrated with
+change management.
+
+Bug reporting and feature requests fall (broadly speaking) into the
+category of change management. Typically a small group of senior
+developers and stakeholders review the bug/feature tracking system to
+assign priorities, clarify, and investigate. There are good
+off-the-shelf systems for tracking bugs and feature requests, so we have
+several choices. This process happens almost as frequently as the
+features/bug fix coding work of the developers. That means on-going,
+more or less continuous review of fix/features requests every few days,
+depending on how independent the developers are. Agile applies to
+everyone on the project. Ideal change management is not onerous. As
+tasks are completed, someone (developers) update feature status with "in
+progress", "completed” and so on. There might be additional status
+updates from QA and release, but SNAC probably isn't large enough to
+justify anything too complex.
+
+#### QA and Related Tests for Test-driven Development
+
+
+The data extraction pipelines manage massive amounts of data, and
+visually checking descriptions for bugs would be inefficient if not
+infeasible. The MARC extraction process is verified by just over 100
+quality assurance descriptions. The output produced from each
+description is checked for some specific value that confirms that the
+code is working correctly and historical bugs have not reappeared. The
+EAD extraction has a set of QA files, but the output verification is not
+yet automated. A variety of file counts and measures of various sorts
+are performed to verify that descriptions have all been processed. All
+CPF output is validated against the Relax NG schema. Processing log
+files are checked for a variety of error messages. Settings used for
+each run are recorded in documentation maintained with the output files.
+The source code is stored in a Subversion repository.
+
+Our disaster recovery processes must be carefully documented.

Requirements/User Documentation.md

+# User Documentation
+
+Every aspect of the system requires documentation. Most visible to the public is the user interface for
+discovery. Maintenance will be complicated, and our processes are somewhat novel, so this will need to be
+extensive, well illustrated with screenshots, and carefully tested.
+
+Documentation intended for developers might be somewhat sparse by comparison, but will be critical to the
+on-going software development process. All the databases, operating system, httpd and other servers need
+complete documentation of installation, configuration, deployment, starting, stopping, and emergency
+procedures.

Requirements/User Interface.md

+# User Interface Requirements
+
+## Web Application
+
+Some aspects of the web app aren't yet clear, so there are details to be worked out, and some large-ish
+concepts to clarify. I'm guessing we will agree on most things, and one of us or the other will just concede
+on stuff where we don't agree.
+
+Requirements:
+
+- expose an http accessible API that is viable for `wget` or `curl`, browser `<form>`, and Ajax calls.
+- Supported input format depends on the complexity of the requested operation.
+- Public functions require no authentication. Everything else must include authentication data.
+- Sandbox functionality to for training and testing, which doesn't modify actual SNAC data
+
+
+
+### Web application output via template
+
+A well known, easy, powerful method of creating presntation output is to use an template module. Templating
+separates business logic from presentation logic, thus following an MVC model. Our business logic is our work
+flow and related function calls. Presentation is our UI, and the work flow engine has no idea that a UI exists,
+let alone how to create it. Curiously, the presentation logic knows how to create the presentation rendering,
+but has no idea what it does or what it interacts with. This is another example of strong separation of
+concerns.
+
+A simple hello world text template with a single variable world = "world" would be:
+
+```
+Hello [% world %]!
+```
+
+Or a simple HTML version:
+
+```
+<html><body>Hello [% world %]!</body></html>
+```
+
+That example is based on the Template Tookit http://www.template-toolkit.org/ for which there is a Perl
+module, and a Python module. Template modules are fairly common, so I'm almost certain we will have several to
+choose from in PHP.
+
+Choosing our own select software modules, including a template module, is better than being locked into a
+large, cumbersome web framework. In general, web frameworks have issues:
+
+- difficult to work with
+
+- no useful functionality that isn't more easily found in another software module
+
+- the often break MVC
+
+- generally make debugging nearly impossible
+
+We can do much better by selecting a few modules to create a lightweight quasi-framework that is perfectly matched to our
+needs.
+
+Once the internal API completes its work, we will have output data. Output data is passed to a rendering
+layer that relies on the template module. The only code that knows anything about rendering is the rendering
+layer. To all the non-rendering code, there is only "output data" which does conform to a standard structure
+(almost certainly an output data object). The rendering layer takes the output object, and the requested format
+of the output (text, html, pdf, xml, etc.) to create the output. Happily, "rendering" is generally a single
+function call. We create a template object, call its "render" method with two arguments:
+
+1. template file name,
+
+2. the output data object.
+
+Default behavior is to write the output to stdout, but the render method can also
+return the output in a variable so we can create an http download.
+
+Templates are human created static files containing placeholders. The template engine fills in the placeholders with
+values from relevant parts of the output data. Clearly, the output data object and the template must share a
+object/property naming convention. The template engine functionality has single value fields, looping over
+input lists, and if statement branching based on input. But that's pretty much it. No work is done in the
+template that is not directly concerned with filling in placeholders, not even formatting (in the sense of
+rounding numbers, capitalizing strings, or adding html tags). Templates are valid documents of the output
+type, except in rare cases. The attached template is well-formed XML.
+
+The web app needs a file download output option as well as output to stdout.
+
+### Watching records
+
+Users may "watch" an identity constellation. If a constellation is being watched, and that constellation is part of an description (merged or
+single) then the watch will apply to the results of human edits, regardless of which part of the description
+was modified. It is possible for someone to wish to track a biogHist, but that biogHist could be completely
+removed in lieu of an improved and updated description. We will not track individual elements in CPF.
+
+The watcher should have the ability to disable their watch. After each edit, all
+watchers will get a notification. The watch does not apply to any single field, but to the entire description, and therefore also to future descriptions which result from merging.
+
+When an identity constellation is split, the watch propagates to both resulting records.  The user will be informed of the change, and then may choose to disable one of the watchers.
+
+### Ability to Open/Close the Site during Maintenance
+
+
+If the web application has a "closed for maintenance" feature, this feature would be available to web admins,
+even though it is the Linux sysadmins who will do the maintenance. A common major failure of web applications
+is the assumption that the product is always up.  This creates havoc when the site simply fails to load due to
+an outage, planned or otherwise. With a little work we should be able to have an orderly "site is closed" web
+page and status message for planned outages. We might be able to failover to some kind of system status
+message. This is a low priority feature since downtime is probably only a few hours per year.  At the same
+time, if it isn't too difficult to implement, it sets our project apart from the majority who either ignore
+the problem, or let their help desk folks spend an hour apologizing to customers.
+
+When the product is closed, web admins should be able to login (assuming login is possible).
+
+comment: Do we want an architecture where the login is essentially a separate product so that we can have a
+"lobby" and other front end features that continue to work even when the backend is down for maintenance?
+
+Most sites simply return a server error or site not available (404) when the site is down for whatever
+reason. We can avoid this a couple of ways. The simplest is to use some Apache server features and a few
+simple scripts so that users see a nice message when the site is down for maintenance. This very simple
+approach requires little or no change to our software architecture. The more elegant approach is to use one of
+several system architectures that  keep a small system front end always running.

Requirements/User Management.md

+# User Management
+
+Authentication is validating user logins to the system. Authorization is the related aspect of controlling
+which parts of the system users may access (or even which parts they may know exist).
+
+We can use OpenID for authentication, but we will need a user profile for SNAC roles and authorization. There
+are examples of PHP code to implement OpenID at stackexchange:
+
+http://stackoverflow.com/questions/4459509/how-to-use-open-id-as-login-system
+
+OpenID seems to constantly be changing, and sites using change frequently. Google has (apparently) deprecated
+OpenID 2.0 in favor of Open Connect. Facebook is using something else, but apparently FB still works with
+OpenID. Stackexchange supports several authentication schemes. If they can do it, so can we. Or we can support
+one scheme for starters and add others as necessary. The SE code is not open source, so we can't see how much
+work it was to support the various OpenID partners.
+
+Authorization involves controlling what users can do once they are in the system. That function is sort of
+more solved by OAuth or OpenID by sharing the user profile. However, SNAC has specific requirements,
+especially our roles, and those will not be found in other system. There is not anything we must have from
+user profiles. We might want their social networking profile, but social networking is not a core function of
+SNAC.
+
+By default users can't do anything that isn't exposed to the non-authenticated public users. Privileges are
+added and users are given roles (aka groups) from which they inherit privileges. The authorization system is
+involved in every transaction with the server to the extent that every request to the server is checked for
+authorization before being passed to the code doing the real work.
+
+The Linux model of three privilege types "user", "group", and "other" works well for authorization permissions
+and we should use this model.  "User" is an authenticated user. "Group" is a set of users, and a user may
+belong to several groups. In SNAC and the non-Linux world "group" is known as "role", so SNAC will call them
+"roles". "Other" privileges apply to SNAC as public, non-authenticated users, although we don't really have
+"other", and the "researcher" role applies to public users.
+
+Users can have several roles, and will have all the privileges of all their roles. Role membership is managed
+by an administrative UI (part of the dashboard) and related API code. User information such as name, phone
+number, and even password can also change. User ID values cannot be changed, and a user ID is never reused,
+even after account deletion.
+
+We expect to create additional roles as necessary for application functions.
+
+Roles include a large number "is instution member" roles. These should be roles like any other, but we may
+want to flag these role records to make them easy to manage and easy to display in the UI. Any user can have
+zero or more roles that define their instutional affiliation. This primarily effects reporting and admin. In
+the case of reports, membership in an institution constrains the reporting. When setting up a report, users
+may only choose from institutions of which they are members. Some reports may auto-detect the user's
+membership.
+
+By and large when we refer to "accounts" we mean web accounts managed by the Manager/Web admin. The general
+public can use the discovery interface without an account, but saving search history, and other
+session related discovery tools requires an account. It is technically possible to have a single session
+dashboard. Although that has not been mentioned as a requirement and is probably a low priority, it might be
+almost trivial to implement.
+
+Every account will be in the "Researcher" role which has the same privileges as the general public, but with a
+TBD set of basic privileges including: search history, certain researcher reports.
+
+
+| User type                  | Role                | Description                                                           |
+|----------------------------+---------------------+-----------------------------------------------------------------------|
+| Sysadmin                   | Server admin        | Maintain server, backups, etc.                                        |
+| Database Administrator     | DBA                 | Schema maintenance, data dumps, etc.                                  |
+| Software engineer          | Developer           | Coding, testing, QA, release management, data loading, etc.           |
+| Manager                    | Web admin           | Web accounts: create, manage, assign roles, run reports               |
+| Peer vetting               | Vetting             | Approve moderators, reviewers, content experts                        |
+| Moderator                  | Moderator           | Approve maintenance changes, posting those changes                    |
+| Reviewer/editor            | Maintenance         | Maintainer privileges, interacts with moderators                      |
+| Content expert             | Maintenance         | Domain expert, may have zero institutional roles                      |
+| Documentary editor         | Maintenance         | Distinguished by?                                                     |
+| Maintenance                | Maintenance         | Distinguished by?                                                     |
+| Researcher                 | Researcher          | Use the discovery interface and history dashboard                     |
+| Archival description donor | Block upload        | Bulk uploads of CPF or finding aids                                   |
+| Name authority manager     | Name authority      | Donates name authority data perhaps via bulk upload                   |
+| Institutional admins       | Institutional admin | Instutional role admin dashboard, institutional reports               |
+| Public                     | Researcher          | No account, researcher role, no dashboard or single session dashboard |
+
+
+Remember: institutional affiliation roles aren't in the table above. There will be many of those roles, and
+users may have zero, one, or several institutional roles that define which insitutions that user is a member
+of.
+
+It is possible for an institutional admin to be a member of more than one institution. Institutional Admins
+have abilities:
+
+- view membership lists of their institution(s)
+- add or remove their instutional role for users.
+
+Roles which require one or more instutitutional roles (affiliation):
+
+- Block upload
+- Name authority
+- Institutional admin
+
+Roles which may have zero or more institutional roles:
+
+- Web admin
+- Vetting
+- Moderator
+- Maintenance (likely to have one or more)
+- Researcher
+
+
+There are several dashboard sections:
+
+- Standard researcher history
+- Standard user account management (password, email, etc.)
+- Web admin account creation, deletion, role assignments
+- Vetting admin (if we have vetting)
+- Available reports.

Specifications/Coding Specifications.md

+# Coding Style
+
+All code generated by the SNAC project will be written in one of the following languages.
+
+* PHP 7 (preferred)
+* PHP 5
+* Java
+* XSLT
+
+
+## Coding Style Specifications
+
+Source code must match the following style guidelines:
+
+* 4-space tabs with literal spaces
+* Maximum line-length of 100 characters
+* Variables and Class names follow standard camel casing syntax, with descriptive names
+    * Class names start with upper-case letters
+    * Variable and field names start with lower-clase letters
+    * No underscores allowed in variable names
+
+## Internal Documentation of Code
+
+All code will be internally-documented using [Javadoc](http://www.oracle.com/technetwork/java/javase/documentation/index-137868.html) style documentation, which has been ported to PHP as [phpdoc](http://www.phpdoc.org/docs/latest/guides/docblocks.html) and XSLT as [XSLTdoc](http://www.pnp-software.com/XSLTdoc/).  Tools to generate documentation from the code is also available for [Java](http://www.oracle.com/technetwork/java/javase/documentation/index-jsp-135444.html), [PHP](http://www.phpdoc.org/), and [XSLT](http://www.pnp-software.com/XSLTdoc/).
+
+* All files, regardless of language,  must have javadoc-style documentation with author attribution, definition of the file, and short-text of the code license, as defined below (in PHP):
+    
+    ```php
+    <?php
+    /**
+     * File Description Headline
+     *
+     * Paragraphs describing the file
+     * 
+     * License:
+     * ....
+     *
+     * @author Robbie Hott
+     * @license http://opensource.org/licenses/BSD-3-Clause BSD 3-Clause
+     * @copyright 2015 the Rector and Visitors of the University of Virginia, and the Regents of the University of California
+     */
+    ?>
+    ```
+
+* All classes, fields, methods, and function definitions must include documentation, as shown below:
+
+    ```php
+    <?php
+    /**
+     * Name Reconciliation Engine Main Class
+     *
+     * This class provides the meat of the reconciliation engine. To run the
+     * reconciliation engine, create an instance of this class and call the
+     * reconcile method.
+     *
+     * @author Robbie Hott
+     */
+    class ReconciliationEngine {
+
+        
+        /**
+         * Main reconciliation function
+         *
+         * This function does the reconciliation and returns the top identity from
+         * the engine.  Other top identities and their corresponding score vectors
+         * may be obtained by other functions within this class.  
+         *
+         * @param identity $identity The identity to be searched. This identity 
+         * must be in the proper form 
+         * @return identity The top identity by the reconciliation
+         * engine
+         */
+        public function reconcile($identity) {
+            return $identity;
+        }
+    }
+    ?>
+    ```
+
+## Licensing in Github/Gitlab
+
+Each code repository must contain the full BSD 3-Clause license below.  It must be saved in the document root as a text file titled `LICENSE`.
+
+```
+Copyright (c) 2015, the Rector and Visitors of the University of Virginia, and
+the Regents of the University of California 
+All rights reserved.
+
+Redistribution and use in source and binary forms, with or without
+modification, are permitted provided that the following conditions are met:
+
+1. Redistributions of source code must retain the above copyright notice, this
+list of conditions and the following disclaimer.
+
+2. Redistributions in binary form must reproduce the above copyright notice,
+this list of conditions and the following disclaimer in the documentation
+and/or other materials provided with the distribution.
+
+3. Neither the name of the copyright holder nor the names of its contributors
+may be used to endorse or promote products derived from this software without
+specific prior written permission.
+
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
+ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
+WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
+DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE
+FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
+DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
+SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
+CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
+OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
+OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+```
+
+

Specifications/LICENSE.md

+Copyright (c) 2015, the Rector and Visitors of the University of Virginia, and
+the Regents of the University of California 
+All rights reserved.
+
+Redistribution and use in source and binary forms, with or without
+modification, are permitted provided that the following conditions are met:
+
+1. Redistributions of source code must retain the above copyright notice, this
+list of conditions and the following disclaimer.
+
+2. Redistributions in binary form must reproduce the above copyright notice,
+this list of conditions and the following disclaimer in the documentation
+and/or other materials provided with the distribution.
+
+3. Neither the name of the copyright holder nor the names of its contributors
+may be used to endorse or promote products derived from this software without
+specific prior written permission.
+
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
+ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
+WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
+DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE
+FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
+DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
+SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
+CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
+OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
+OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

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\ No newline at end of file

Specifications/README.md

+# Formal Specification Documents
+
+These documents describe the specifications of the system.  They include specific decisions for each component and the system as a whole, in order to meet the requirements listed in the [Requirements](/Requirements) section.
\ No newline at end of file

Specifications/Server Architecture.md

+# SNAC Server Architecture
+
+The system will be architected as a LAMP system, with the following components:
+
+* Linux: CentOS 7
+* Apache: Apache 2 web server
+* PHP: PHP 7
+* PostgreSQL: Postgres
+
+Each component of the architecture will run on this platform.  Any sub-component must either produce it's own http server on an available port, such as Elastic Search, or utilize the main Apache web server running a virtual host.
+
+The following diagrams describe the architecture of internal components:
+
+* ![Overall Server Architecture](http://gitlab.iath.virginia.edu/snac/Documentation/raw/master/Specifications/Originals/SNAC%20Server%20Architecture.svg)

Third Party Documentation/README.md

+# Third-Party Documentation
+
+This directory contains documentation and links to off-the-shelf components used by the SNAC project.

Todo-and-Notes.md

-- check into Apache httpd and http/2 as well as supporting Opportunistic encryption:
-    * [ArsTechnica: new firefox version says might as well to encrypting all web traffic](http://arstechnica.com/security/2015/04/new-firefox-version-says-might-as-well-to-encrypting-all-web-traffic/)
-

Unsorted/Additions.md

+#### Brian's API docs need to be merged in or otherwise referred to:
+
+[https://gist.github.com/tingletech/4a3fc5f59e5af3054286](https://www.google.com/url?q=https%3A%2F%2Fgist.github.com%2Ftingletech%2F4a3fc5f59e5af3054286&sa=D&sntz=1&usg=AFQjCNEJeJexryBtHbvLw-WtFYjxP4VwlQ)
+
+#### Not sure where to fit these topics into the requirements. Some of them may not be part of technical requirements:
+
+Discuss. What is "as it is configured now"? Consider implementing linked data standard for relationship links
+instead of having to download an entire document of links (as it is configured now.)
+
+Discuss. This seems to be the controlled vocabulary issue. Sort by common subject headings across all of SNAC - right now SNAC has
+subject headings that have been applied locally without common practice
+across the entire corpus.
+
+We probably need to build our own holdings authority.
+
+We need to write code to get accurate holdings info from WorldCat records. All the other repositories will
+have be handled on a case-by-case basis. Sort by holdings location. Sort by identity's activity location. Sort
+and visualize a person through time (show dates for events in a person or organization's lifetime). Sort and
+visualize an agency or organization as it changes over time.
+
+Continue to develop and refine context widget.
+
+Sort collection links. Add weighting to understand which collections have more material directly related to
+identity. (How is this best handled programmatically or as an input by contributors- maybe both?).
+
+Increase exposure of SNAC to general public by leveraging partnerships.  Suggested agreement with Wikipedia to
+display Wikipedia content in SNAC biographical area and work with Wikipedia to allow for links to SNAC at the
+bottom of all applicable identities. This would serve to escalate and drive traffic to SNAC.

Unsorted/Database Schema.md

+#### Expanded Database Schema
+
+The database schema has been rewritten to capture all the data in CPF files, as well as meet the various data requirements.
+
+
+Each field within CPF may (will?) need provenance meta data. Likewise many fields in the database may need
+data for provenance. This has not been done, and the developers need policy on provenance, as well as
+examples. There seems to be little or no mention of provenance in Rachael's UI requirements.
+
+The new schema has full versions of all records for all time. If not implemented, this is planned. The version
+table records each table name, record id, user id who modified, and time datestamp. No changes were made to
+existing tables, although existing tables may have gotten a field to distinguish old from current
+records. The implementation may change.
+
+Every record has a unique id. The watch system is a query run on some schedule (daily, hourly, ?) that checks
+to see if a watched record has changed. CPF record has links to a “watch” table so users can watch each
+record, and can watch for certain types of changes. Need UI for the watch system. Need an API for the watch
+system.
+
+Need a user table, group (role) table, probably a group permission table so that permissions are hard code
+with groups. We also want to allow several permissions per group. Need UI for user, group, and
+group-permission management.
+
+We have created a generalized workflow system (as opposed to an ad-hoc linked set of reports). There is a work
+flow state table which needs to be moved into the database.
+
+Need fields to deal with delete/embargo. This may be best implemented via a trigger or perhaps a view. By
+making what appear to be simple SELECTs through a view, the view can exclude deleted records. We must think
+about how using a view (or trigger) will effect UPDATE and INSERT.  Ideally the view is transparent. Is there
+some clever way we can restrict access to the original table only via the view?
+
+Need record lock on some types of records. This lock needs to be honored by several modules, so like “delete”,
+lock might best be implemented via a view and we \*only\* access the table in question via the view.
+
+If there are different levels of review for different elements in the record, then we need extra granularity
+in the workflow or the edited record info to know the type of record edited apropos of workflow variations.
+
+If there different reviewers for different parts of the record, then workflow data (and workflow
+configuration) needs to be able to notify multiple people, and would have to get multiple reviewer approvals
+before moving to the next phase of the workflow.
+
+Institutional affiliation is probably common enough to want a field in the user table, as opposed to creating
+a group for each institution. The group is perhaps more generalized and could behave identical (or almost
+identical) to a field (with controlled vocabulary) in the user table.
+
+Make sure we can write a query (report) to count numbers of records based type of edit, institution of the
+editor, and number of holdings.
+
+If we want to be able to quickly count some CPF element such as outgoing links from CPF to a given
+institution, then we should put those CPF values into the SQL database, as meta data for the CPF record.
+
+What is: How many referral links to EAC records that they created?
+
+Be able to count record views, record downloads. Institutional dashboard reports need the ability to group-by
+user, or even filter to a specific user.
+
+Reporting needs to help managers verify performance metrics. This assumes that all changes have a
+date/timestamp. Once workflow and process decisions are set, performance requirements for users such as
+load/performance (how many updates and changes to records can be handled at once), search response time, edit
+time (outside of review workflow), and update times need to be set.
+
+Effort reporting to allow SNAC and participants to communicate to others the actual level of effort
+involved. This sounds like a report with time span and numbers of records handled in various ways. SNAC might
+use this when going from pilot into production so that everyone knows what effort will be required for X
+number of records/actions (of whatever action type).
+
+Time/activity reporting could allow us to assess viability, utility, and efficiency of maintenance system
+processes.
+
+Similar reports might be generated to evaluate the discovery interface.  Something akin to how much time was
+required to access a certain number of records. Rachael said: Assess viability of access funtionality-
+performance time, available features, and ease of use.
+
+We could try to report on the amount of training necessary before a new user was able to work independently in
+each of various areas (content input, review, etc.)

Unsorted/README.md

+# Unsorted Documents
+
+This is a temporary-holding facility for documents as they are parsed and placed into the appropriate sections of the documentation.

Unsorted/Workflow.md

+Internal flow:
+
+1. validate the inputs.
+
+1. Somehow slice and dice the CGI params of the REST call into an abstracted request we can pass to the
+internal API. I suppose that the external and internal APIs are very similar, but we almost certainly need
+some level of symbolic reference aka abstraction. Each REST call has its requisite data. Some data is as
+simple as a record id, and some will be fairly interesting json data structures.
+
+1. The web app API does the tasks specified by the REST request and the work flow engine's directions.
+
+  1. Every http request must go through the work flow engine so that the work flow is validated and managed.
+
+  1. Every web app has a work flow, but people mostly just cobble that together with a bunch of implied
+    functionality using conditionals and side-effect-full function calls. In our code, the internal API is
+    100% work flow agnostic.
+
+  1. I can explain this in more detail, but it makes a huge improvement in the structure of the application.
+
+1. Create the output data object if it wasn't created by the functions doing the work.
+
+1. Pass the output data to a rendering function (or module) to be rendered into the appropriate output format:
+html, text, xml, etc. and sent to stdout, or returned as an http file download. JSON probably doesn't need to
+be rendered since JSON is "data" and not "presentation".
+
+The work flow engine relies on functions that read application data and return booleans so that the
+work flow engine can detect the application's relevant state. I guess that sounds confusing because the work
+flow engine has state, and the application has state. Those two types of state are vastly different and only
+related to each other in that the work flow engine can detect the application's state. The internal API of the
+web app has no idea that the work flow engine even exists. And the work flow engine knows what work needs to
+be done, but has no idea how it will be done. This is a very lovely separation of concerns.

tat_requirements/requirements.md → Unsorted/requirements.md

@@ -21,54 +21,44 @@ This is the definitive list of all requirements, briefly. Anything the applicati
 list. Each item and group of items is explained in detail later in the document. Being a "list", this includes
 only sufficient detail to disambiguate items.
 
-- authentication
+* User Management
+    - authentication
+        - user creation
+        - authentication
+        - account maintenance
+    - authorization
+        - user/group/other (ugo) with read/write (rw) privilege system, typical for Linux
+        - admin tool for group privs
+        - create/edit/delete groups
+        - create privs matched to API functionality
+* User Interface
+    - search/discover cpf data; need a list of filters/facets
+        - dashboard
+    - dashboard content/tabs
+        - search history
+            - clear history
+            - search history
+        - work status
+            - change sort order (maybe version 2)
+    - system/work flow messages
+    - account settings
+    - social media
+    - web admin (for admins only)
+    - institutional admin (for institutional admins only)
+    - moderator admin (for moderators only)
+    - edit cpf data
+        - edit UI
+        - per field data validation
+        - record validation
+        - user message system in UI
+        - work flow
+        - dashboard for workspace, task list
+* Generated Documents
+    - available reports
+    - EAC-CPF export
+    - RDF/Turtle triples
+    - JSON-LD
 
-  - user creation
-  - authentication
-  - account maintenance
-
-- authorization
-
-  - user/group/other (ugo) with read/write (rw) privilege system, typical for Linux
-  - admin tool for group privs
-  - create/edit/delete groups
-  - create privs matched to API functionality
-
-- search/discover cpf data; need a list of filters/facets
-
-  - dashboard
-
-- dashboard content/tabs
-
-  - search history
-    - clear history
-    - search history
-  - work status
-    - change sort order (maybe version 2)
-  - system/work flow messages 
-  - account settings
-
-  - social media
-
-  - web admin (for admins only)
-
-  - institutional admin (for institutional admins only)
-
-  - moderator admin (for moderators only)
-
-  - available reports
-
-  - links to the rest of the web site, especially search and edit
-    
-
-- edit cpf data
-
-  - edit UI
-  - per field data validation
-  - record validation
-  - user message system in UI
-  - work flow
-  - dashboard for workspace, task list
 
 - split merged records, know that some record consists of merged records
 
@@ -93,12 +83,6 @@ only sufficient detail to disambiguate items.
   - architecture of identity, expandable design
   - authority and controlled vocabulary management
 
-- web UI/web application
-
-  - Linux, Apache httpd, PostgreSQL (aka Postgres)
-  - HTML, CSS, JavaScript
-  - work flow
-
 - work flows
 
   - may want wild-west non-locking edits
@@ -106,7 +90,7 @@ only sufficient detail to disambiguate items.
   - ability to issue reminders
   - integrated email notification
   - "watched" records (might be reporting, and not specifically work flow)
-  
+
 - reporting
 
 - help desk
@@ -129,33 +113,37 @@ only sufficient detail to disambiguate items.
     format string and be done with it. However, some URLs have interesting issues that require code and thus
     exceed the abilities of normal format strings. We can certainly roll out an early version with format
     strings, and add some clever functions later as necessary.
+    * **RH: I don't understand this.  If we're generating persistant IDs, then we don't need to write "clever functions"**
 
 - Do we need any additional requirements for related name linking, or more accurately identity linking? Each
   identity has and ARK which is a persistent ID with an assciated URL. Use cases for identity links:
-  
+
   1. SNAC links one identity to another internally based on relations between identities
-  
+
   1. SNAC links to itself as a name authority
-  
+
   1. SNAC links to external identities
-  
+
   1. SNAC links to external archival resources
-  
+
   2. External resources link to SNAC as an authority. (Tom comment: is SNAC also an archival resource?)
 
 - Clarify: the co-op version 1 is not going to support bulk data ingest
+    * This may be a simple bi-product of the Rest API being available
 
 - Clarify: the co-op version 1 is not going to support bi-directional data exchange and update
 
 - Do we need full delete? For example, a CPF contains something illegal and must be fully deleted. How do we
   delete from backups? Are either of these even required by policy?
-  
+
 - Are we assuming that data from the web browser has been sanity checked before hitting the server? (Yes, by
-  the data validation API) 
-  
+  the data validation engine)
+    * **Todo: Where will the engine live, in the browser (Javascript) or on the server?**
+
 - Does the server need to save temporary edit data prior to writing the data to the cpf database? For example, what if
   someone enters "19th century" in a date field? It isn't valid, but we need to save their work. (Yes, we need to save invalid user input, and give the user a useful message for each type of data validation failure.)
-  
+    * **Todo: Where does the data validation engine live?  If we make that part of the UI, it may live on the browser as a downloaded JS engine**
+
 - We need to sanity check any links we create, especially links back into SNAC.
 
 - Don't forget (to create) the X-to-CPF field mapping documentation, and this ties in to the "CPF data contributor's"
@@ -163,11 +151,11 @@ only sufficient detail to disambiguate items.
 
 - We need the "CPF data contributor's" guide.
 
-- What authority work will we be doing? 
+- What authority work will we be doing?
 
     - For example, holding institution ISIL identifier, name, address, contact person, etc.
 
-- What authority data from other sources do we cache locally? 
+- What authority data from other sources do we cache locally?
 
     - We need examples of this, as well as a process to manage those resources. It is important to know where
       the data came from, technically how it was acquired, the date we acquired it, and some methods of
@@ -176,17 +164,17 @@ only sufficient detail to disambiguate items.
 
 - Create detailed functional requirements for controlled vocabularies, and a detailed implementation
   specification.
-  
-- Clarify: versioning is per-record, not per-field. 
+
+- Clarify: versioning is per-record, not per-field.
 
 - Need a watch/notification API. It needs a canonical name. Is there an off-the-shelf event monitor that will
-  easily integrate with the web REST API and work flow manager? 
-  
+  easily integrate with the web REST API and work flow manager?
+
       - We can write our own status and staging API. It only requires modest SQL schema work. Most of the
         necessary data is already planned for other features. For example, records can be locked by a user, we
         know who has the lock, we need administrative functions for unlocking and transfering locks, the work
         flow explicitly lays out the process for each user interaction with the application.
-  
+
 - Clarify: Are we integrating SNAC and ArchiveSpace in co-op version 1? Will ArchiveSpace have to use our REST API?
 
 - How is embargo implemented at the database level? What are the requirements for embargo?
@@ -194,20 +182,20 @@ only sufficient detail to disambiguate items.
 - comment: Clarify and/or verify: Technical review vs content review is handled by a combination of roles and
   work flow.
 
-- comment: Reports: Where are we keeping the Big List of All Reports? 
+- comment: Reports: Where are we keeping the Big List of All Reports?
 
 - comment: Clarify: row 43, (unclear) Consider implementing inked data standard for relationship links
   instead of having to download an entire document of links, as it is configured now.
-  
+
 - Search: need the Big List of Search Facets, and someone needs to verify that Elastic Search can do facets.
 
-- Does co-op version 1 have a timeline visualization? Does it have a "sort by timeline"? 
+- Does co-op version 1 have a timeline visualization? Does it have a "sort by timeline"?
 
     - What does it mean to sort by timeline?
-  
+
 - comment: Clarify: What is a context widget? - row 52, Continue to develop and refine context widget. (technical
   requirements unclear)
-  
+
 - comment: Clarify: we need requirements for citations, and details about where they integrate with the rest of the
   system.
 
@@ -302,7 +290,7 @@ Users will have individual accounts, so we can enable a search history,
 internal bookmarks, and various saved reports (assuming faceted search
 where it could take many mouse clicks to accrete a specific search).
 
-#### User interface for Discovery 
+#### User interface for Discovery
 
 #### Functionality for Splitting
 
@@ -316,7 +304,7 @@ ARK server will note the new ARKs of the resulting descriptions in both human re
 formats.  Outside parties with an invalid ARK will probably have to manually update their descriptions, since
 the entity name is too confusing for a computer to disambiguate. (Although we can easily create a report of
 deprecated ARKs on a per-institution basis.) When merging descriptions, the main ARK will be retained, and
-merged ARKs can simply redirect to it. 
+merged ARKs can simply redirect to it.
 
 Note: determine which operations require a new ARK, either due to the old ARK being so much changed as the
 original reference is meaningless, or other causes TBD.
@@ -494,138 +482,6 @@ also needs to support bulk data edits of several types.
 
 Does this mean the admin dashboard?
 
-#### User Management
-
-Authentication is validating user logins to the system. Authorization is the related aspect of controlling
-which parts of the system users may access (or even which parts they may know exist).
-
-We can use OpenID for authentication, but we will need a user profile for SNAC roles and authorization. There
-are examples of PHP code to implement OpenID at stackexchange:
-
-http://stackoverflow.com/questions/4459509/how-to-use-open-id-as-login-system
-
-OpenID seems to constantly be changing, and sites using change frequently. Google has (apparently) deprecated
-OpenID 2.0 in favor of Open Connect. Facebook is using something else, but apparently FB still works with
-OpenID. Stackexchange supports several authentication schemes. If they can do it, so can we. Or we can support
-one scheme for starters and add others as necessary. The SE code is not open source, so we can't see how much
-work it was to support the various OpenID partners.
-
-Authorization involves controlling what users can do once they are in the system. That function is sort of
-more solved by OAuth or OpenID by sharing the user profile. However, SNAC has specific requirements,
-especially our roles, and those will not be found in other system. There is not anything we must have from
-user profiles. We might want their social networking profile, but social networking is not a core function of
-SNAC. 
-
-By default users can't do anything that isn't exposed to the non-authenticated public users. Privileges are
-added and users are given roles (aka groups) from which they inherit privileges. The authorization system is
-involved in every transaction with the server to the extent that every request to the server is checked for
-authorization before being passed to the code doing the real work.
-
-The Linux model of three privilege types "user", "group", and "other" works well for authorization permissions
-and we should use this model.  "User" is an authenticated user. "Group" is a set of users, and a user may
-belong to several groups. In SNAC and the non-Linux world "group" is known as "role", so SNAC will call them
-"roles". "Other" privileges apply to SNAC as public, non-authenticated users, although we don't really have
-"other", and the "researcher" role applies to public users.
-
-Users can have several roles, and will have all the privileges of all their roles. Role membership is managed
-by an administrative UI (part of the dashboard) and related API code. User information such as name, phone
-number, and even password can also change. User ID values cannot be changed, and a user ID is never reused,
-even after account deletion.
-
-We expect to create additional roles as necessary for application functions.
-
-Roles include a large number "is instution member" roles. These should be roles like any other, but we may
-want to flag these role records to make them easy to manage and easy to display in the UI. Any user can have
-zero or more roles that define their instutional affiliation. This primarily effects reporting and admin. In
-the case of reports, membership in an institution constrains the reporting. When setting up a report, users
-may only choose from institutions of which they are members. Some reports may auto-detect the user's
-membership.
-
-By and large when we refer to "accounts" we mean web accounts managed by the Manager/Web admin. The general
-public can use the discovery interface without an account, but saving search history, and other
-session related discovery tools requires an account. It is technically possible to have a single session
-dashboard. Although that has not been mentioned as a requirement and is probably a low priority, it might be
-almost trivial to implement.
-
-Every account will be in the "Researcher" role which has the same privileges as the general public, but with a
-TBD set of basic privileges including: search history, certain researcher reports. 
-
-
-| User type                  | Role                | Description                                                           |
-|----------------------------+---------------------+-----------------------------------------------------------------------|
-| Sysadmin                   | Server admin        | Maintain server, backups, etc.                                        |
-| Database Administrator     | DBA                 | Schema maintenance, data dumps, etc.                                  |
-| Software engineer          | Developer           | Coding, testing, QA, release management, data loading, etc.           |
-| Manager                    | Web admin           | Web accounts: create, manage, assign roles, run reports               |
-| Peer vetting               | Vetting             | Approve moderators, reviewers, content experts                        |
-| Moderator                  | Moderator           | Approve maintenance changes, posting those changes                    |
-| Reviewer/editor            | Maintenance         | Maintainer privileges, interacts with moderators                      |
-| Content expert             | Maintenance         | Domain expert, may have zero institutional roles                      |
-| Documentary editor         | Maintenance         | Distinguished by?                                                     |
-| Maintenance                | Maintenance         | Distinguished by?                                                     |
-| Researcher                 | Researcher          | Use the discovery interface and history dashboard                     |
-| Archival description donor | Block upload        | Bulk uploads of CPF or finding aids                                   |
-| Name authority manager     | Name authority      | Donates name authority data perhaps via bulk upload                   |
-| Institutional admins       | Institutional admin | Instutional role admin dashboard, institutional reports               |
-| Public                     | Researcher          | No account, researcher role, no dashboard or single session dashboard |
-
-
-Remember: institutional affiliation roles aren't in the table above. There will be many of those roles, and
-users may have zero, one, or several institutional roles that define which insitutions that user is a member
-of.
-
-It is possible for an institutional admin to be a member of more than one institution. Institutional Admins
-have abilities:
-
-- view membership lists of their institution(s)
-- add or remove their instutional role for users. 
-
-Roles which require one or more instutitutional roles (affiliation):
-
-- Block upload
-- Name authority
-- Institutional admin
-
-Roles which may have zero or more institutional roles:
-
-- Web admin
-- Vetting
-- Moderator
-- Maintenance (likely to have one or more)
-- Researcher
-
-
-There are several dashboard sections:
-
-- Standard researcher history
-- Standard user account management (password, email, etc.)
-- Web admin account creation, deletion, role assignments
-- Vetting admin (if we have vetting) 
-- Available reports. 
-
-
-#### Web Application Administration
-
-
-System administration will be required for the web application and the
-server hosting the web site. This is well understood from a technical
-point of view. We should have more than usual documentation of the
-command line accounts involved, and server configuration. This aspect of
-administration integrates with versioning, backup, and software
-releases.
-
-#### Reports
-
-
-While the web interface is the primary public face of SNAC, many other views of the data and meta data are
-necessary, especially for admins and governance. Those "views" are reports and will primary be generated via
-integration of a third-party reporting package such as Jaspersoft Business Intelligence Suite, which is free,
-open source, and includes a full range of tools.  All SNAC data resides in PostgreSQL, the standard SQL
-relational database management system (RDBMS) which simplifies the process of adding reporting and business
-intelligence.
-
-(How much detail do we want about reports? Maybe just half a dozen
-examples?)
 
 #### System Administration
 
@@ -687,79 +543,9 @@ logic that we will support with UI, code, and database tables/fields.
 Many reports will be limited certain roles. Admin users will likely be
 heavy report users.
 
-#### Ability to Open/Close the Site during Maintenance
-
-
-If the web application has a "closed for maintenance" feature, this feature would be available to web admins,
-even though it is the Linux sysadmins who will do the maintenance. A common major failure of web applications
-is the assumption that the product is always up.  This creates havoc when the site simply fails to load due to
-an outage, planned or otherwise. With a little work we should be able to have an orderly "site is closed" web
-page and status message for planned outages. We might be able to failover to some kind of system status
-message. This is a low priority feature since downtime is probably only a few hours per year.  At the same
-time, if it isn't too difficult to implement, it sets our project apart from the majority who either ignore
-the problem, or let their help desk folks spend an hour apologizing to customers.
-
-When the product is closed, web admins should be able to login (assuming login is possible). 
-
-comment: Do we want an architecture where the login is essentially a separate product so that we can have a
-"lobby" and other front end features that continue to work even when the backend is down for maintenance?
-
-Most sites simply return a server error or site not available (404) when the site is down for whatever
-reason. We can avoid this a couple of ways. The simplest is to use some Apache server features and a few
-simple scripts so that users see a nice message when the site is down for maintenance. This very simple
-approach requires little or no change to our software architecture. The more elegant approach is to use one of
-several system architectures that  keep a small system front end always running.
-
-#### Sandbox for Training, perhaps as a clone of the QA system?
 
 
 #### ArchiveSpace Feature Planning via Brad
 
 This section will require some discussion (conference calls) with Brad
 and others.
-
-#### Staffing Model (Brian's draft suggestions)
-
-Production of a cooperatively maintained high profile web site requires
-different types of Technical and non-technical work.
-
-Operations Team
-
-- Communications and interactions with end users and content owners,
-    from marketing to user support, assessment
-- Manages help desk
--   Support production web application infrastructure, including
-    monitoring, "on call" for first tier response to system monitors
-- batch ingest of new data sources
--   signs up and on-boards new pilot members
-- Proactive content QA and remediation
--   work organized around issue queue / customer relationship management
-    system
-
-Main Artifact: Ticketing Issue tracker that automatically generates a
-ticket for an email to help@example.edu
-
-Development Team
-
-- Create new features that deliver customer value
--   Maintain tests for new features
-- second tier support of deployed features, developers on call for
-    their deployed code
-- deploy code to test, stage, and production environments
--   work organized around sprints
-
-Main Artifact: User story backlog that supports scoring stories by
-points,
-
-Research Team
-
-- Conduct experiments with new algorithms and technologies
-- interoperation (and participation in the development) of relevant
-    domain specific standards and practices
-
-Main Artifact: Research Agenda, schemas and specifications (esp. merge
-spec)
-
-
-
-

plan.md

+# Overall Plan
+
+### Table of Contents
+
+* [Big questions](#big-questions)
+* [Documents we need to create](#documents-we-need-to-create)
+* [Governance and Policies, etc.](#governance-and-policies-etc)
+* [Overview and order of work](#overview-and-order-of-work)
+* [Non-component notes to be worked into requirements](#non-component-notes-to-be-worked-into-requirements)
+* [System Design](#system-design)
+  * [Developed Components](#developed-components)
+  * [Off-the-shelf Components](#off-the-shelf-components)
+  * [Controlled vocabularies and tag system](#controlled-vocabularies-and-tag-system)
+
+### Big questions
+
+
+- (solved) how is gitlab backed up?
+
+  - Shayne backs up the whole gitlab VM.
+
+- We need a complete understanding of our requirements for controlled vocabulary, ontology, and/or tagging as
+  well as how this relates to search facets. This also impacts our future ability to make assertions about the
+  data, and is somewhat related to semantic net. See [Tag system](#controlled-vocabularies-and-tag-system).
+
+### Documents we need to create
+
+- Operations and Procedure Manual
+
+- Formal Requirements Document
+
+- Formal Specification Document
+
+- Research Agenda
+
+- User Story Backlog
+
+- Design Documents (UI/UX/Graphic Design)
+
+      - ideally someone writes a (possibly brief) style guide
+
+      - a set of .psd or other images is not a style guide
+
+### Governance and Policies, etc.
+
+- Data curation, preservation, graceful retirement
+
+- Data expulsion vs. embargo
+
+- Duplicates, backups, restore, related policy and technical issues
+
+- Broad pieces that are missing or underdeveloped [Laura]
+
+- Refresh relationship with OCLC [John, Daniel]
+
+
+### Overview and order of work
+
+1. List requirements of the overall application. (done)
+
+2. Organize requirements by component, clean up, flesh out, and vet. (requires team meetings)
+
+3. Create formal specifications for each component based on the official, clean, requirements document. Prototypes will help ensure the formal spec is written correctly.
+
+4. Define a timeline for development and prototyping based on the formal specifications document.
+
+5. Create tests for test-driven development based on the formal specification.  This includes creating and mining ground-truth data.
+
+6. Develop software based on formal specification that passes the given tests.
+
+
+
+### Non-component notes to be worked into requirements
+- CPF record edit, edit each field
+
+- CPF record split, split data into separate cpf identities, deprecate old ARK, mint new ARKs
+
+- CPF record merge, combine fields, deprecate old ARKs, mint new ARK
+
+### System Design
+
+#### Developed Components
+
+- Data validation engine
+  - **API:** Custom JSON (needs formal spec)
+
+  - The data validation engine applies a written system of rules to the incoming data.  The rules must be written in a human-readble form, such that non-technical individuals are able to write and understand the rules.  A rule-writing guide must be supplied to give hints and help for writing rules properly.  The engine will be pluggable and written as an MVC application.  The model will read the user-written rules (stored in a postgres database or flat-file system, depending on the model) and apply them to any input given on the view.  The initial view will be a JSON API, which accepts individual fields and returns the input with either validation suggestions or valid flags.
+
+  - rule based system abstracted out of the code
+  - rules are data
+  - change the rules, not the actual application code
+  - rules for broad classes of data type, or granular rules for individual fields
+  - probably used this to untaint data as well (remove things that are potential security problems)
+  - send all data through this API
+  - every rule includes a message describing what when wrong and suggesting fixes
+  - rules potentially editable by non-programmers
+  - rules are based on co-op data policies, which implies a data policy document, or the rules **can** be the
+    policy documentation.
+
+- Identitiy Reconciliation (aka IR) (architect Robbie)
+  - **API:** Custom JSON (needs formal spec)
+
+ - needs docs wrangled
+
+- workflow manager (architect Tom)
+  - **API:** Custom JSON? (needs formal spec)
+
+  - exists, needs tests, needs requirements
+    * **We need to stop now, write requirements, then apply those requirements to the existant system to ensure we meet the requirements**
+
+  - needs to be integrated into an index.php script that also checks authentication
+
+  - can the workflow also support the login.php authentication? (Yes).
+
+- PostgreSQL Storage: schema definition (Robbie, Tom)
+  - **API:** SQL
+
+  - exists, needs tests, needs requirements
+    * **We need to stop now, write requirements, then apply those requirements moving forward to ensure we meet the requirements**
+
+  - should we re-architect tables become normal tables, the views go away, and versioned records are moved to shadow tables.
+
+  - add features for delete-via-mark (as opposed to actual delete)
+
+  - add features to support embargo
+
+  - *maybe, discuss* change vocabulary.sql from insert to copy. It would be smaller and faster, although in reality as soon as
+    it is in the database, the text file will never be touched again.
+
+- discuss; Can/should we create a tag system to deal with ad-hoc requirements later in the project? [Tag system](#controlled-vocabularies-and-tag-system)
+
+- CPF to SQL parser (Robbie)
+  - **API:** EAC-CPF XML input, JSON output? (needs formal spec)
+
+  - exists, needs tests, needs requirements
+    * **We need to stop now, write requirements, then apply those requirements moving forward to ensure we meet the requirements**
+
+- NameEntity serialization tool, selectable pre-configured formats
+
+- NameEntity string parser
+
+  - **API:** subroutine? JSON?
+
+    - Can we find a grammar-based parser for PHP? Should we use a standalone parser?
+
+    - Can we expose this as a JSON API such that it's given a name-string and returns an identity object of that identity's information?  Possibly a score as well as to how well we thought we could parse it?
+- Name parser (only a portion of the NameEntity string)
+  - **API:** subroutine? JSON?
+  - Can this use the same parser engine as the name string parser?
+
+- Date parser
+  - **API:** subroutine? JSON?
+
+  - Can this use the same parser engine as the name string parser?
+  - **This should be distinct, or may be a subroutine of the nameEntry-string parser**
+  - Can we expose this as a JSON API such that given a set of dates, it returns a date object that lists out the individual dates?  Then, it could be called from the name-string parser to parse out dates.
+
+- Editing User interface
+  - **API:** HTML front-end, makes calls to internal JSON API
+  - Must have ajax-backed interaction for displaying and searching large lists, such as cpfRelations for an identity.
+    - We need to have UI edit/chooser widget for search and select of large numbers of options, such as the Joseph
+      Henry cpfRelations that contain some 22K entries. Also need to list all fields which might have large numbers
+      of values. In fact, part of the meta data for every field is "number of possible entries/reapeat values" or
+      whatever that's called. From a software architecture perspective, the answer is 0, 1, infinite.
+
+- History Research Tool (redefined)
+  - **API:** HTML front-end, makes calls to internal JSON API
+  - Needs to be reworked to support the Postgres backend
+
+#### Off-the-shelf Components
+
+- gitlab for developer documentation, code version management, internal issue tracking and milestone keeping
+
+- github public code repository
+
+- test framework, need to choose one
+
+- authentication
+  - session management, especially as applies to authentication tokens, cookies and something which prevents
+    XSS (cross-site scripting) attacks
+
+- JavaScript UI component tools, JQuery; what others?
+  - Suggestions: bootstrap, angular JS, JQueryUI
+
+- reports, probably Jasper
+
+- PHP, Postgres, Linux, Apache httpd, etc.
+
+- language modules ?
+
+
+
+#### Controlled vocabularies and tag system
+
+Tags are simply terms. When inplemented as fixed terms with persistent IDs and some modify/add policy, tags
+become a flat (non-hierarchal) controlled vocabulary.
+
+The difference being a weaker moderation of tags and more readiness to create new tags (types). The tag table
+would consist of tag term and an ID value. Tag systems lack data type, and generally have no policy or less
+restrictive policies about creating new tags
+
+Below are some subject examples. It is unclear if these are each topics, or if "--" is used to join granular
+topics into a topic list. Likewise it is unclear if this list relies on some explicit hierarchy.
+
+```
+American literature--19th century--Periodicals
+American literature--20th century--Periodicals
+Periodicals
+Periodicals--19th century
+World politics--Periodicals
+World politics--Pictorial works
+World politics--Societies, etc.
+World politics--Study and teaching
+```
+
+**RH: I agree, this is super tricky.  We need to distinguish between types of controlled vocab, so that we don't mix Occupation and Subject.  A tagging system might be very nice for at least subjects.**

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tat_requirements/list_of_all_reports.md

-
-#### All reports
-
-- what records have I edited
-
-- how many records has my institution edited
-
-- how many records has my institution contributed
-
-- list of number of records contributed by institution
-
-

tat_requirements/outline.md

-
-plan.md
---------
-
-plan.md Big questions
-
-plan.md Overview and order of work
-
-plan.md Code we write
-
-plan.md Controlled vocabularies and tag system 
-
-plan.md Code we use off the shelf
-
-co-op_background.md
------
-
-Authors
-
-Organization of documenatation
-
-Introduction to SNAC
-
-Evaluation of Existing Technical Architecture
-
-Overview
-
-Current State of the System
-
-Processing Pipeline
-
-Extraction
-
-Match/Merge
-
-Discovery/Dissemination
-
-Prototype research tool
-
-Gap analysis
-
-Data maintenance
-
-Pilot phase architecture
-
-Current State Conclusion
-
-
-introduction.md
---------
-
-TAT Functional Requirements
-
-Introduction to Planned Functionality
-
-Software development, processes, and project management
-
-QA and Related Tests for Test-driven Development
-
-Documentation
-
-Required new features
-
-Web application overview
-
-Web application output via template
-
-Data background
-
-What is "normal form" and what informs the database schema design?
-
-Edit architecture requirements
-
-Expanded CPF schema requirements
-
-Expanded Database Schema
-
-Merge and watch
-
-Brian’s API docs need to be merged in or otherwise referred to:
-
-Not sure where to fit these topics into the requirements. Some of them may not be part of technical requirements:
-
-
-requirements.md
-----
-
-List of requirements
-
-Requirements from Rachael's spreadsheet
-
-List of Application Programmer Interfaces (APIs)
-
-Work flow engine
-
-Maintenance Functionality
-
-Functionality for Discovery
-
-User interface for Discovery
-
-Functionality for Splitting
-
-User interface for Splitting
-
-Functionality for Merging
-
-User interface for Merging
-
-Functionality for Editing
-
-User interface for Editing
-
-Admin Client for Maintenance System
-
-User Management
-
-Web Application Administration
-
-Reports
-
-System Administration
-
-Community Contributions
-
-Ability to Open/Close the Site during Maintenance
-
-Sandbox for Training, perhaps as a clone of the QA system?
-
-ArchiveSpace Feature Planning via Brad
-
-Staffing Model (Brian's draft suggestions)

tat_requirements/plan.md

-
-#### Big questions
-
-
-- (solved) how is gitlab backed up?
-
-  - Shayne backs up the whole gitlab VM.
-
-- We need a complete understanding of our requirements for controlled vocabulary, ontology, and/or tagging as
-  well as how this relates to search facets. This also impacts our future ability to make assertions about the
-  data, and is somewhat related to semantic net. See [Tag system](#controlled-vocabularies-and-tag-system).
-  
-#### Documents we need to create
-
-- Operations and Procedure Manual
-
-- Research Agenda
-
-- User Story Backlog
-
-- Design Documents (UI/UX/Graphic Design)
-  
-      - ideally someone writes a (possibly brief) style guide
-      
-      - a set of .psd or other images is not a style guide
-
-#### Governance and Policies, etc.
-
-- Data curation, preservation, graceful retirement
-
-- Data expulsion vs. embargo
-
-- Duplicates, backups, restore, related policy and technical issues
-
-- Broad pieces that are missing or underdeveloped [Laura]
-
-- Refresh relationship with OCLC [John, Daniel]
-
-
-#### Overview and order of work
-
-1. create tech documents, filling in as much prose as possible
-   - currenly on-going
-
-1. create prototype software to test tech requirements, iterate updating requirements and prototype
-   - Work flow engine is working and has both a command-line and web interface
-   - We have a SQL database schema
-
-1. create tests for test driven development, and validate prototype
-
-1. refactor or rewrite prototype to match requirements
-
-1. create version 1 of software
-
-
-#### Code we write
-
-- Data validation API
-
-  - rule based system abstracted out of the code
-  - rules are data
-  - change the rules, not the actual application code 
-  - rules for broad classes of data type, or granular rules for individual fields
-  - probably used this to untaint data as well (remove things that are potential security problems)
-  - send all data through this API
-  - every rule includes a message describing what when wrong and suggesting fixes
-  - rules potentially editable by non-programmers
-  - rules are based on co-op data policies, which implies a data policy document, or the rules **can** be the
-    policy documentation.
-
-- Identitiy Reconciliation (aka IR) (architect Robbie)
-
- - needs docs wrangled
-
-- workflow manager (architect Tom)
-
-  - exists, needs tests, needs requirements
-  
-  - needs to be integrated into an index.php script that also checks authentication
-  
-  - can the workflow also support the login.php authentication? (Yes).
-  
-- SQL schema (Robbie, Tom)
-
-  - exists, needs tests, needs requirements
-  
-  - should we re-architect tables become normal tables, the views go away, and versioned records are moved to shadow tables.
-  
-  - add features for delete-via-mark (as opposed to actual delete)
-  
-  - add features to support embargo
-  
-  - *maybe, discuss* change vocabulary.sql from insert to copy. It would be smaller and faster, although in reality as soon as
-    it is in the database, the text file will never be touched again.
-    
-- discuss; Can/should we create a tag system to deal with ad-hoc requirements later in the project? [Tag system](#controlled-vocabularies-and-tag-system)
-
-- CPF to SQL parser (Robbie)
-
-  - exists, needs tests, needs requirements
-  
-- Name serialization tool, selectable pre-configured formats
-
-- Name string parser
-
-    - Can we find a grammar-based parser for PHP? Should we use a standalone parser?
-
-- Date parser
-
-  - Can this use the same parser engine as the name string parser?
-
-- CPF record edit, edit each field
-
-- CPF record split, split data into separate cpf identities, deprecate old ARK, mint new ARKs
-
-- CPF record merge, combine fields, deprecate old ARKs, mint new ARK
-
-- coding style, class template (architect Robbie)
-
-- We need to have UI edit/chooser widget for search and select of large numbers of options, such as the Joseph
-  Henry cpfRelations that contain some 22K entries. Also need to list all fields which might have large numbers
-  of values. In fact, part of the meta data for every field is "number of possible entries/reapeat values" or
-  whatever that's called. From a software architecture perspective, the answer is 0, 1, infinite.
-
-
-#### Controlled vocabularies and tag system 
-
-Tags are simply terms. When inplemented as fixed terms with persistent IDs and some modify/add policy, tags
-become a flat (non-hierarchal) controlled vocabulary.
-
-The difference being a weaker moderation of tags and more readiness to create new tags (types). The tag table
-would consist of tag term and an ID value. Tag systems lack data type, and generally have no policy or less
-restrictive policies about creating new tags
-
-Below are some subject examples. It is unclear if these are each topics, or if "--" is used to join granular
-topics into a topic list. Likewise it is unclear if this list relies on some explicit hierarchy. 
-  
-```
-American literature--19th century--Periodicals
-American literature--20th century--Periodicals
-Periodicals
-Periodicals--19th century
-World politics--Periodicals
-World politics--Pictorial works
-World politics--Societies, etc.
-World politics--Study and teaching
-```
-
-
-#### Code we use off the shelf
-
-- gitlab for docs, code version management, issue tracking(?)
-
-- github public code repository?
-
-- test framework, need to choose one
-
-- authentication
-  - session management, especially as applies to authentication tokens, cookies and something which prevents
-    XSS (cross-site scripting) attacks
-    
-- JavaScript UI component tools, JQuery; what others?
-
-- reports, probably Jasper
-
-- PHP, Postgres, Linux, Apache httpd, etc.
-
-- language modules

tat_requirements/readme.md

-
-These documents are organized in the following order:
-
-[plan.md](plan.md) Big overview.
-
-[outline.md](outline.md) An outline of sections in the documents
-
-[co-op_background.md](co-op_background.md) Broad expectations for the co-op software.
-
-[introduction.md](introduction.md) Requirements part one
-
-[requirements.md](requirements.md) Requirements part two, includes tech requirements from Rachael's spreadsheets
-
-
-

tat_requirements/snac-web-app-wrapper.md

-
-
-
-![SNAC web app API data flow](images/image02.png)
-
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