Redi

* Add feature to translate research subject IDs to REDCap IDs based on queries of the target redcap system
* Add config-examples with sample configuration files
* Update README.md
* Update data specification
* Add export_from_redcap.py, a tool to read data from a REDCap project using the REDCap API
* Update AUTHORS.md file
* Update LICENSE

* Summary: Completed commits required to share repo at UF

* Parameterize and add file tests in README-install.md (Philip Chase)
* Fix PROJECT_ROOT environment variable (Philip Chase)
* Revise 'Manually run REDI' section of README-install.md to reflect change in getEmrData.sh (Philip Chase)
* Added more credits to the AUTHORS file (Philip Chase)
* Update README.md to reflect the current project state (Philip Chase)
* Add README file (Mohan Das Katragadda)
* add manifest file for setup distribution generation (Radha Kandula)
* add setup.py (Radha Kandula)
* Add authors file (Philip Chase)
* Add config directory to gitignore (Philip Chase)

* Summary: Add location independence to tests. Add BSD 3-Clause license

* Add loction independence and config folder creation to TestCreateSummaryReport.py (Philip Chase)
* Add location independence and tearDown to TestSendDatatoRedcap.py (Philip Chase)
* removed config folder dependencies as much as possible (Mohan Das Katragadda)
* removed the code to create temporary files (Radha Kandula)
* added updateFormCompletedFieldName to the TestSuite (Radha Kandula)
* Revise TestUpdateFormDateField.py to be independent of external inputs (Philip Chase)
* cleared dependancy on external files and cleaned up some temp file creations (Radha Kandula)
* Add license file with BSD 3-clause license (Philip Chase)
* made few changes to Test files to enable them run independent of its locations (Mohan Das Katragadda)

* Summary: De-identified sample and test data and removed unneeded filed and references to HCV Target

* Removing the init.sh (Mohan Das Katragadda)
* Collapse features updateRawXml.sh and rawTxt2rawXml.sh into getEmrData.sh (Philip Chase)
* Move result dates in sample data files to be shortly after specimen taken time (Philip Chase)
* Remove old method of data deidentification (Philip Chase)
* Finish date deidentification in sample data (Philip Chase)
* Add date formats to the list of those dithered (Philip Chase)
* Deidentify remaining date info in tests (Philip Chase)
* Add ditherDates.pl to de-identify dates (Philip Chase)
* added the pdf file for redi-run-control-flow (Radha Kandula)
* renamed flow.graffle to redi-run-control-flow.graffle (Radha Kandula)
* made changes to changeYearScript and moved it to the Config folder (Mohan Das Katragadda)
* Remove 'hcv' from comments in redi.py (Philip Chase)
* Update README.md to reflect the current REDI structure (Philip Chase)
* remove unused parameters from setup.json (Philip Chase)
* changed name to just porject (Mohan Das Katragadda)
* remove file no longer needed in ./config (Philip Chase)
* updated the names from rx2ra to redi (Radha Kandula)
* Deleted config/units_found_in_ufshands_clinical_lab_values.csv (Mohan Das Katragadda)
* Remove translationTable.csv becuase it is an old unused format (Philip Chase)
* deleted the unnecessary files in docs (Radha Kandula)
* made changes to getEMR script and updateRawXML script so they can take entire URI as an input argument (Mohan Das Katragadda)
* Fixed the failure in TestReadConfig.py (Mohan Das Katragadda)
* Made changes to the Test files so they can find project root relative to their locations (Mohan Das Katragadda)
* made changes to redi.py so it can get the correct path of the project root all by itself (Mohan Das Katragadda)
* changed path of the subjectMap.csv (Mohan Das Katragadda)
* moved the global variable proj_root to includes section at the top (Radha Kandula)
* Making changes to test files to use the proj root environment varibale (Mohan Das Katragadda)
* added the modifications for env variable PROJ_HCV_ROOT (Radha Kandula)
* Made changes to redi.py to use the environment variable (Mohan Das Katragadda)
* init.sh to set environment variables for the project and made changes to changeYearScript.sh to use the newly created environment variable (Moha
* moved changeyear script to bin/utils (Radha Kandula)
* Parameterize ./bin/utils/getEMRData.sh (Mohan Das Katragadda)
* removed rediJSLog module as redi handles its own logger (Radha Kandula)
* removed the rediJS module (Radha Kandula)
* deleted the personIndex directory for De-identification (Radha Kandula)
* changes the REAME according to new directory layout (Radha Kandula)
* moved subjectMap.csv to doc directory and made changes to the data (Mohan Das Katragadda)
* moved bin/utils/export_records_from_unc.py to config folder (Mohan Das Katragadda)
* removed raw-original.txt (Mohan Das Katragadda)
* Replaced all year values in sample and test data with the year 1905. (Mohan Das Katragadda)

* Summary: Add support for configured date formats and make HCVTarget-specific features optional

* Update README-install.md with a warning to mac users to use GNU Utilities (Philip Chase)
* Fix debugging lines in redi.py (Philip Chase)
* Add support for missing form_imported and field_status fields in generate_redcap_eav (Philip Chase)
* Add support for output_date_format in generate_redcap_eav function (Philip Chase)
* Add configurable date formats for input and output dates (Philip Chase)

2014-02-25 v0.4.1

* Add second component element for INR to accommodate second component ID (Philip Chase)
* Update redeployment procedure in README-install.md and add run procedure to same (Philip Chase)

2014-02-25 v0.4.0

* Summary added CBC and Chemistry form fields, INR form, and email summary report

* Fixed createSummaryReport test issue (Mohan Das Katragadda)
* Fixed issue with new forms (Mohan Das Katragadda)
* Fixed createSummaryReport test issue (Mohan Das Katragadda)
* Fixed issue with new forms (Mohan Das Katragadda)
* Commented out the Import Alerts (Mohan Das Katragadda)
* Add support for missing redcapFieldNameUnits in translationTable.xml (Philip Chase)
* updated generate redcap as per new changes in function parameters (Radha Kandula)
* deleted file mailreport.py (Mohan Das Katragadda)
* updated to remove the temporary xml file (Radha Kandula)
* updated the new schema definition (Radha Kandula)
* added comments for debugging (Radha Kandula)
* updated according to new schema (Radha Kandula)
* added INR component to translationalTable (Radha Kandula)
* all code review changes implemented including code for handling new forms (Mohan Das Katragadda)
* added INR to xml files (Nicholas Rejack)
* create summary report test added (Radha Kandula)
* Formatting date in the XSL (Mohan Das Katragadda)
* Reverting changes (Mohan Das Katragadda)
* made changes to xsl (Mohan Das Katragadda)
* Add documentation for the guessComponents.pl tool that helps identify desired components in lab data (Philip Chase)
* updated installation instructions (Nicholas Rejack)
* changes made during the code review (Mohan Das Katragadda)
* xsd updated as per new structure requirement (Radha Kandula)
* clean up changes (Mohan Das Katragadda)
* changed the sender email to please-do-not-replyufl.edu (Radha Kandula)
* added alert update (Radha Kandula)
* modified send email code (Mohan Das Katragadda)
* Fix the redeployment procedure and embrace adhoc temporary directories (Philip Chase)
* added null check for alerts in xsl (Radha Kandula)
* Renamed installation README to README-install.md (Philip Chase)
* added summary and subject details sections to the xsl (Mohan Das Katragadda)
* updated import alerts section of stylesheet (Radha Kandula)
* xsl file (Mohan Das Katragadda)
* Populating report details is complete (Mohan Das Katragadda)
* Maximum event list and multiple values alerts added (Radha Kandula)
* few more changes (Mohan Das Katragadda)
* Add REDI data flow diagrams with swimlanes (Philip Chase)
* few more changes related to the summary report user story (Mohan Das Katragadda)
* commiting changes (Mohan Das Katragadda)
* setup changes (Mohan Das Katragadda)
* merged develop branch into feature (Mohan Das Katragadda)
* Add componentMapping data for glucose, potassium, and sodium (Philip Chase)
* Add chem form fields Glucose, Potassium, and Sodium to translationTable.xml (Philip Chase)
* Add Lymphocytes % to the translation table and to the test TestGenerateRedcapEAV.py (Philip Chase)
* Add basic config/report.xsd (Philip Chase)

* Correct name of log file in getEmrData.sh (Philip Chase)