initial plugin scaffolding script might be useful now while we expand it...#3

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rkboyce wants to merge 300 commits intodomeo:masterfrom rkboyce:master

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Commits on Oct 2, 2013

Merge branch 'master' of https://github.com/rkboyce/DomeoClient
boycer
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Commits on Oct 3, 2013

delete new plugin folders

ningyifan
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ningyifan
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delete irrelevant files

ningyifan
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ningyifan
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delete irrelevant files

ningyifan
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ningyifan
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Commits on Oct 11, 2013

cleclean up layout of form, redesign card and tile

ningyifan
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ningyifan
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Commits on Nov 13, 2013

add class diagram into Design forlder for editing Wiki
ningyifan
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Commits on Nov 14, 2013

refectoring on MSPLsAnnotation by creating a new Interface
ningyifan
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Commits on Nov 15, 2013

Commits on Nov 16, 2013

Merge branch 'master' of https://github.com/rkboyce/DomeoClient
ningyifan
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Commits on Nov 22, 2013

Commits on Dec 23, 2013

add program at annotation.spls.util for load annotation into persistent manager
ningyifan
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Commits on Jan 10, 2014

Revert 1d157ca..23200d3
andher1802
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Revert 1c931cd..e1f5d9f
andher1802
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Revert e1f5d9f..4f5fcaf
andher1802
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Revert 1c931cd..89be62e
andher1802
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Commits on Jan 11, 2014

Revert 23200d3..6386cbe
andher1802
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Commits on Jan 16, 2014

ce
andher1802
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Commits on Jan 23, 2014

Commits on Jan 24, 2014

add radio buton by value none, fix bug on form persistence
ningyifan
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Commits on Jan 28, 2014

add rest of none value of radio button, add drug of interest, modifies statements
ningyifan
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Commits on Jan 29, 2014

minor cleanup on the SPL pharmgx UI
rkboyce
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Commits on Jan 31, 2014

Commits on Feb 2, 2014

fix bug on TILE and delete unnecessary package spls/util
ningyifan
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delete unnecessary package plugins/annotation/spls/util
ningyifan
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Commits on Feb 8, 2014

Commits on Feb 10, 2014

abbreviate label of tile, identifies creator for card
Ning
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Commits on Feb 13, 2014

Commits on Feb 14, 2014

first working complete retrieval of a custom body element from the data model
rkboyce
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Commits on Feb 15, 2014

Commits on Feb 18, 2014

added drug selection recommendation to the marshall and unmarshaller
rkboyce
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Commits on Feb 19, 2014

test loading annotation by import for all of labels
Ning
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Commits on Feb 20, 2014

completed showing all of labels by test of import existing annotation
Ning
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Commits on Feb 21, 2014

modifies textarea other variant and other test in FORM and CARD
Ning
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Commits on Feb 27, 2014

add a activity diagram for domeo wiki
Ning
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Commits on Mar 2, 2014

preselect no mention in form, shutdown useless plugin, changes for correct logic in tile
Ning
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Commits on Mar 3, 2014

add dia project in design, add rest of spls in SPL-annotation, modified dailymed parsing program
Ning
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Commits on Mar 4, 2014

add product label selection, rest style of dropdown listbox and make changes in card and tile for add new label
YIFAN NING
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Merge branch 'master' of https://github.com/rkboyce/DomeoClient
YIFAN NING
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persistence product label selection
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Commits on Mar 5, 2014

test code for the new labeling dropdown and data element
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Commits on Mar 7, 2014

change uri for drug and biomarker
YIFAN NING
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extract prefix to interface, move uri mapping list to model, fix bug in annotation creation
YIFAN NING
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Commits on Mar 12, 2014

fix the bug trigger by wrong-spelling drug name abacavir
YIFAN NING
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Commits on Apr 8, 2014

Commits on Apr 10, 2014

add HGNCGene field in form tile and card, besides, test marshalling and unmarshalling that works well
YIFAN NING
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test function for new json string with new field HGNCGene
YIFAN NING
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add new plugin PDDI, redesign form
YIFAN NING
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reorganized gorm, change fields name, add required fields validation
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Commits on Apr 11, 2014

revised PDDI plugin ui
YIFAN NING
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reorganize SPLs form
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enabling the qualifers plugin
rkboyce
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plugin name changes for ddi and fields name changes for spl
YIFAN NING
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Commits on Apr 14, 2014

Commits on Apr 15, 2014

revised PGx model in design folder
Ning
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Commits on Apr 18, 2014

widening drop down list box and fix index bug of HGNCGeneSymbol bug
YIFAN NING
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Merge branch 'master' of https://github.com/rkboyce/DomeoClient
YIFAN NING
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Commits on Apr 23, 2014

create model for DDI, coding in DDI form
YIFAN NING
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Commits on Apr 25, 2014

build PDDI plugin, almostly finish marshaling and unmarshaling
YIFAN NING
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Commits on Apr 29, 2014

add search function for spl to search by all value of fields, also done with some refactoring
YIFAN NING
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coding to marshals ddi annotation
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Commits on May 1, 2014

revised json serializer in DDI plugin
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Commits on May 6, 2014

finished DDI marshalling
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finished plugin DDI unmarshalling, tested in facade
YIFAN NING
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clean the code, remove useless <import> statements
YIFAN NING
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Commits on May 7, 2014

finished unmarshalling for ddi plugin, tested in complied mode yet
YIFAN NING
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Commits on May 19, 2014

add clinical trial, reformat drug label section, extends timeout period
YIFAN NING
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Commits on May 28, 2014

Commits on May 29, 2014

test DDI plugin, change the code that add highlighted drug name into list box
YIFAN NING
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Commits on Jun 9, 2014

set profile for spl and ddi plugin user, highlight current drug mentions in form of ddi plugin
YIFAN NING
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highlight two drug mentions in form
YIFAN NING
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Commits on Jun 10, 2014

for spls plugin, update LOINC code selections in product lable section
YIFAN NING
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Commits on Jun 12, 2014

for DDI plugin, validate required fields, fix bug triggers in serailizer
YIFAN NING
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for DDI plugin, fix bug triggered by sets conflicts
YIFAN NING
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Commits on Jun 13, 2014

For DDI, add validations for statement and modality
YIFAN NING
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Commits on Jun 16, 2014

For DDI plugin, preselect drug type
YIFAN NING
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Commits on Jun 20, 2014

Commits on Jun 24, 2014

merging changes with Yifan
rkboyce
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fix search component for spl plugin
YIFAN NING
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Merge branch 'master' of https://github.com/rkboyce/DomeoClient
YIFAN NING
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Commits on Jun 25, 2014

Commits on Jun 26, 2014

Commits on Jul 3, 2014

Commits on Jul 4, 2014

Commits on Jul 8, 2014

remove comment from DDI form
YIFAN NING
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for ddi plugin, fixed bug that triggers by single character highlight
YIFAN NING
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Commits on Jul 9, 2014

add sparql query for pharmgx plugin
YIFAN NING
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add parameter elastico-collection for two convert scripts
YIFAN NING
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Commits on Jul 11, 2014

revise script to allow to get rdf only for last version of annotation sets
YIFAN NING
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add pharmgx data from icode-01, update queries in txt
YIFAN NING
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Commits on Jul 15, 2014

add sparql query for pharmacogenomics data, trivial changes for SPL form
YIFAN NING
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Commits on Jul 21, 2014

add DDI study data
YIFAN NING
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add new product labels in folder SPL-Annotations-2
YIFAN NING
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Commits on Jul 22, 2014

revise query for pharmgx data to add url that can jump back to sets in domeo
YIFAN NING
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Commits on Aug 12, 2014

add csv format of DDI sets - nonexpert1
YIFAN NING
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Commits on Aug 22, 2014

optimize pharmgx query
ningyifan
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Commits on Sep 1, 2014

add DDI sets for nonexpert3 at 08282014
ningyifan
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Commits on Sep 3, 2014

add DDI study sets for all annotators at 09022014
ningyifan
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Commits on Sep 12, 2014

update pharmgx data from 5 annotators
ningyifan
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Commits on Sep 22, 2014

edit query to get timestamp for DDI sets
ningyifan
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Commits on Sep 29, 2014

add query to get ddi sets in order of last saved time
ningyifan
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Commits on Oct 6, 2014

add new queries used for the reformatted pgx data graph
ningyifan
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revise reformatted pgx consensus data to OA standard
ningyifan
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Commits on Oct 7, 2014

revised sparql queries to work with latest version of rebuilded consensus data set
ningyifan
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Commits on Nov 18, 2014

revise parse script to pull annotations from all pharmacists
ningyifan
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add csv format spls annotations from all pharmacists
ningyifan
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Commits on Nov 24, 2014

add section labels for plugin DDI
Richard Boyce
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Commits on Dec 4, 2014

add new field 'is drug indication' for test recommendation
Richard Boyce
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Commits on Dec 9, 2014

add query for creating csv that feeds IAA script
ningyifan
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Commits on Feb 5, 2015

remove old datasets
Richard Boyce
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clean DDIs example queries
Richard Boyce
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Commits on Mar 4, 2015

add post processed pgx annotations that comes from domeo dump out
Richard Boyce
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rename graph name for pgx queries
Richard Boyce
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Commits on Mar 11, 2015

clean old DDIs sets
ningyifan
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Commits on Mar 12, 2015

revise ddis query to filter out preload NLPs
ningyifan
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Commits on Mar 19, 2015

add query that pulls all annotations from specified label and annotator
ningyifan
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Commits on Apr 15, 2015

add ddi new plugin mockup
ningyifan
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Commits on Apr 16, 2015

add mockup for pk ddi plugin
ningyifan
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Commits on Apr 21, 2015

update domeo new plugin mockups
ningyifan
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Commits on Apr 30, 2015

finished UI design on DDI plugin (add increase Auc)
ningyifan
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Commits on May 5, 2015

refactors pddi plugin, increase Auc usecase
ningyifan
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Commits on May 7, 2015

add script parse ddi annotation from elastico
Richard Boyce
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Commits on May 13, 2015

fix annotation persistence bug on ddi plugin (drug-drug-interaction assertion)
ningyifan
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Merge branch 'master' of https://github.com/rkboyce/DomeoClient
ningyifan
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Commits on May 15, 2015

add confirmation box for switch assertion type, ui changes
ningyifan
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trivial changes
ningyifan
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Commits on May 21, 2015

ui changes on DDI form
ningyifan
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Commits on May 22, 2015

add new query and annotation parse program for new ddi plugin
Richard Boyce
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Merge branch 'master' of https://github.com/rkboyce/DomeoClient
Richard Boyce
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Commits on May 27, 2015

add drug group to type, rename plugin
ningyifan
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Commits on Jun 2, 2015

extend annotation retrieve timeout limit from 20 secs to 40 secs, handle highlight unmarshalling exception
ningyifan
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Commits on Jun 3, 2015

clean eclipse hidden files
ningyifan
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Commits on Jun 12, 2015

add comment textarea to pk_ddi
ningyifan
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Commits on Jun 15, 2015

clean folder
ningyifan
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Commits on Jun 30, 2015

add PK DDI sets, revise sparql query
ningyifan
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Commits on Jul 1, 2015

put domeo.html back
ningyifan
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add new types of assertion, rename increase auc, add dosing regimens
ningyifan
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add cleaned dataset
ningyifan
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revert war folder to recovery htmls
Richard Boyce
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Merge branch 'master' of https://github.com/rkboyce/DomeoClient
Richard Boyce
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Commits on Jul 2, 2015

add gitignore
ningyifan
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untrack eclipse hidden files
ningyifan
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redesign pk ddi form for dose
ningyifan
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Commits on Jul 6, 2015

add pgx consensus annotation set for pgx prototype query purpose
Richard Boyce
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Commits on Jul 7, 2015

add pgx annotation in csv
ningyifan
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Commits on Jul 20, 2015

fix hidden file classpath to libs
Yifan Ning
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Commits on Jul 23, 2015

change DDI model, finish marshalling & unmarshalling of PK_DDI plugin
Yifan Ning
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Commits on Aug 11, 2015

redesign DDI form to add dosing duration, auc direction, and cl fields
Yifan Ning
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Commits on Aug 12, 2015

add pk-ddi cmap model to design, finish marshalling and unmarshalling of pk-ddi plugin
Yifan Ning
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Commits on Aug 17, 2015

fix new line character escapse for wins ex.\r \t - testing
Yifan Ning
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handle win new line character \r\n - testing
Yifan Ning
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fix win new line character \r\n - testing
Yifan Ning
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replace \r \n \t to whitespace to handle win's newline character
Yifan Ning
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Commits on Aug 19, 2015

revise cmax and t12 in DDI form, add formulation for dose
Yifan Ning
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remove replace <> when annotate text
Yifan Ning
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Commits on Aug 27, 2015

add duration days in pk_ddi form
Yifan Ning
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replace tablet to Oral
Yifan Ning
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Commits on Sep 16, 2015

add pkddi retrieved annotation set for 10 out of 67 labels
yifan
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add katrina's annotation set on 10 of 67 pkddi labels
Yifan Ning
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Commits on Sep 17, 2015

add cleaned pkddi sets for labels 10 out of 67
Yifan Ning
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Commits on Sep 22, 2015

add annotation retrieve info to log to Domeo.log for debug purpose
Yifan Ning
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Commits on Oct 6, 2015

disable delete button on card and tile
Yifan Ning
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fix the bug that dosuage role switched
Yifan Ning
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Commits on Oct 8, 2015

debug clinical trial - drug dosuage
Yifan Ning
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Commits on Oct 14, 2015

add test set
Yifan Ning
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trivial
yifan
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Commits on Oct 19, 2015

add debug message in ddiform-editor
Yifan Ning
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trivial
Yifan Ning
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debug experiment
Yifan Ning
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Commits on Oct 21, 2015

add query to get pkddi sets for preloading purpose
Yifan Ning
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Commits on Oct 26, 2015

add annotation preload program
Yifan Ning
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rename python connector to export tool
Yifan Ning
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clean repository
Yifan Ning
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fix the bug that whitespace append on url
Yifan Ning
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reorganize dailymed label parsing program
Yifan Ning
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ignore .class
Yifan Ning
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edit README, add pkddi sets in csv
Yifan Ning
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add all NER sets
Yifan Ning
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Commits on Oct 27, 2015

trivial
Yifan Ning
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Commits on Oct 29, 2015

add cmin to pkddi plugin
Yifan Ning
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Commits on Nov 19, 2015

move domeo tools out to repostitory domeo-tools
Yifan Ning
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add test label for dev mode
Yifan Ning
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