v0.1.0-alpha

This is the first pre-release of EPATADA on GitHub. It is linked to the 6/14/24 deployment of the TADAShiny application in the Posit Connect staging environment (EPA internal access only: https://rstudio-connect.dmap-stage.aws.epa.gov/content/da3ffe2f-b443-4051-a029-3adb491434cb).

What's Changed

• EPA-develop by @cristinamullin in #1
• Created TADA_AutoClean.R by @jakegreif in #2
• Update DESCRIPTION by @mthawley in #4
• Updated AutoClean; added ProfileCheck function by @jakegreif in #3
• Documented functions by @jakegreif in #5
• Setting up test folder. by @mthawley in #6
• Added internal data, functions that use internal data by @jakegreif in #7
• 1st draft of 4 flag page functions by @jakegreif in #13
• Draft MediaNotWater function by @cristinamullin in #14
• Updated .R files; AggregatedContinuousData function by @jakegreif in #23
• Simply moving to independent for now by @cristinamullin in #24
• General function updates by @jakegreif in #25
• QAPP functions by @cristinamullin in #26
• Updated ResultValueSpecialCharacters function by @jakegreif in #27
• Completed WQX threshold functions by @jakegreif in #28
• Updated QAPP functions and created censored data function placeholder by @cristinamullin in #29
• DepthProfileData function by @jakegreif in #35
• Draft InvalidCoordinates function by @cristinamullin in #36
• updated invalid coords by @cristinamullin in #38
• Created WQXTargetUnits; added it to WQX threshold functions by @jakegreif in #39
• Updated Special char and WQX target unit functions by @jakegreif in #43
• minor changes by @cristinamullin in #45
• Completed HarmonizationRefTable by @jakegreif in #65
• Added readWQPWebService function, updated license and description by @cristinamullin in #68
• Completed HarmonizeData function by @jakegreif in #78
• Added vignettes and data retrieval functions by @cristinamullin in #77
• Small updates by @jakegreif in #80
• testing vignette by @cristinamullin in #81
• minor documentation edits by @cristinamullin in #82
• Polished documentation by @jakegreif in #84
• Updating vignette and minor edits to function defaults by @cristinamullin in #87
• A few updates by @jakegreif in #90
• minor tweaks by @cristinamullin in #89
• Small vignette updates by @jakegreif in #91
• Added filter functions by @jakegreif in #92
• Internal data updates by @jakegreif in #93
• updating testing vignette by @cristinamullin in #94
• Cm may23 by @cristinamullin in #96
• Cm may25 by @cristinamullin in #97
• More vignette updates by @cristinamullin in #99
• Cm 7 5 by @cristinamullin in #100
• I recommend using the tidyverse style guide by @zsmith27 in #103
• Cm july13 by @cristinamullin in #104
• Nondetects by @cristinamullin in #106
• cleaning up by @cristinamullin in #107
• Testthat by @mthawley in #108
• Aug3 cm by @cristinamullin in #109
• Aug11cm by @cristinamullin in #110
• Updated contributing.md by @cristinamullin in #111
• Removed duplicate license file by @cristinamullin in #112
• Cm develop by @cristinamullin in #114
• pkgdown updates by @cristinamullin in #115
• Rebuilt GH pages by @cristinamullin in #116
• readme updates by @cristinamullin in #117
• GitHub pages by @cristinamullin in #118
• Deleted dependency section by @zsmith27 in #119
• Censoreddata by @cristinamullin in #120
• ignore_attributes in readWQPdata by @ldecicco-USGS in #121
• Documentation by @cristinamullin in #122
• Cmullin sept21 by @cristinamullin in #123
• Lazy load newest ref tables (fixes #72) by @nx10 in #127
• removed donttest by @cristinamullin in #128
• Cm develop oct4 by @cristinamullin in #133
• Update readme.md by @jbousquin in #135
• Reduced install and load to bare minimum given dependencies in DESCRIPTION. by @jbousquin in #136
• Additional r file types to ignore by @jbousquin in #134
• DepthProfileData Fix issue #137 by @jbousquin in #138
• Cm troubleshooting by @cristinamullin in #139
• Depth profile data by @jbousquin in #141
• Testdata by @cristinamullin in #142
• Cm depth by @cristinamullin in #146
• Check functions by @jbousquin in #154
• Cm nov3 by @cristinamullin in #156
• Flagfunctions by @cristinamullin in #160
• 11142022cm by @cristinamullin in #161
• Cm12012022 by @cristinamullin in #166
• Retrievaledits cm by @cristinamullin in #168
• update staging by @cristinamullin in #169
• Vignettes proofreading kh by @katiehealy in #171
• InvalidFraction example by @cristinamullin in #172
• Added examples to completed functions by @katiehealy in #173
• small changes by @cristinamullin in #174
• Update ResultFlagsDependent.R by @katiehealy in #175
• option to change sign of lat/long outside USA by @katiehealy in #178
• update staging by @cristinamullin in #180
• Update develop by @cristinamullin in #181
• Invalidcoordinatesvignette kh by @katiehealy in #184
• Retrieval updates by @cristinamullin in #185
• Update DataDiscoveryRetrieval.R by @ehinman in #187
• TADAbigdataRet chunking by site by @ehinman in #193
• Vignette and map animation updates by @cristinamullin in #195
• Troubleshooting cm by @cristinamullin in #203
• Update flag functions kh by @katiehealy in #201
• automated workflows by @cristinamullin in #207
• formatting by @cristinamullin in #208
• InvalidResultUnit function update by @cristinamullin in #209
• InvalidResultUnit function update by @katiehealy in #206
• Inputs spec chars eh by @ehinman in #205
• Update issue templates by @cristinamullin in #216
• Censored data eh by @ehinman in #217
• Flag names, min-function, minor clean ups to tests, vignette by @ehinman in #219
• small documentation update by @cristinamullin in #220
• Cleanup eh by @ehinman in #223
• Censored data 2 eh by @ehinman in #224
• Flagging prep eh by @ehinman in #228
• Update ResultFlagsIndependent.R by @ehinman in #232
• HarmonizationTemplate.csv updates by @cristinamullin in #231
• Created TADA boxplot function by @katiehealy in #234
• edits to data retrieval by @ehinman in #236
• Misc updates cm by @cristinamullin in #235
• QC Flag Function by @katiehealy in #237
• add hard coded limits by @ehinman in #238
• added char_type to big data query by @ehinman in #243
• updated censored functions, etc by @ehinman in #246
• Vignette review by @cristinamullin in #240
• build gh pages by @cristinamullin in #248
• Update harmonization vignette by @cristinamullin in #251
• new workflow by @cristinamullin in #252
• Map function, big data retrieval updates, etc. by @ehinman in #254
• Nmc review by @cristinamullin in #255
• Updates to censored data messages and small little tweaks. by @ehinman in #256
• Nwqmc updates cm by @cristinamullin in #258
• Flagging funcs by @ehinman in #259
• Histogram function by @katiehealy in #261
• utilities updates by @ehinman in #262
• update convert result units by @ehinman in #264
• Char ranges eh by @ehinman in #267
• Update Utilities.R by @ehinman in #266
• Filter alt eh by @ehinman in #268
• Update DataDiscoveryRetrieval.R by @ehinman in #269
• Newactions by @cristinamullin in #270
• Pseudo develop by @ehinman in #272
• Update TADAModule1.Rmd by @ehinman in #276
• contributing by @cristinamullin in #277
• Training eh by @ehinman in #278
• Small edits by @cristinamullin in #279
• Small edits by @cristinamullin in #280
• Training eh more by @ehinman in #281
• Cm training by @cristinamullin in #282
• Add units autoclean eh by @ehinman in #285
• Update TADATrainingShepherdstown.Rmd by @ehinman in #286
• Fixing minor error in InvalidResultUnit by @katiehealy in #288
• Updates cm by @cristinamullin in #287
• docs by @cristinamullin in #289
• Training feedback eh by @ehinman in #290
• id nearby sites and id potential duplicates by @ehinman in #283
• Vignettes by @cristinamullin in #291
• Desc eh by @ehinman in #294
• Update TADAModule1.Rmd by @ehinman in #295
• Update Figures.R by @ehinman in #296
• Cm updates by @cristinamullin in #300
• Function names eh by @ehinman in #299
• Small change by @cristinamullin in #301
• Deprecated chars eh by @ehinman in #302
• Update CensoredDataSuite.R by @ehinman in #304
• Exports and data names by @cristinamullin in #305
• combined stats and censored data summaries by @ehinman in #306
• Unit speciation eh by @ehinman in #308
• Harmonization template eh by @ehinman in #309
• Within org dups eh by @ehinman in #310
• Updated Activity Type Reference Table by @katiehealy in #312
• update figures by @ehinman in #311
• Small changes eh by @ehinman in #313
• Harmonization updates eh by @ehinman in #314
• Nsummation eh by @ehinman in #315
• 080223 cm by @cristinamullin in #316
• Update CensoredDataSuite.R by @ehinman in #320
• None 2 na by @ehinman in #324
• Small summation tweaks by @ehinman in #327
• Update Measure Qualifier Flag by @cristinamullin in #322
• Smol updates by @ehinman in #328
• 081023 cm by @cristinamullin in #329
• Smol updates by @ehinman in #330
• Smol updates by @ehinman in #335
• Contributing files, depth unit conversion update by @cristinamullin in #337
• Update ref files by @cristinamullin in #340
• Update README.md by @cristinamullin in #341
• correct ref by @cristinamullin in #342
• Cm by @cristinamullin in #343
• Fixes figure bug by @cristinamullin in #347
• Fixes plotting issues by @cristinamullin in #348
• populate scatter2 hoover text by @cristinamullin in #349
• 10302023 cm by @cristinamullin in #352
• change color of circle marker border by @renaemyers in #354
• add button to reset zoom on overview map by @renaemyers in #355
• fixes single org bug by @cristinamullin in #357
• add provider option to DR by @cristinamullin in #359
• Update Utilities.R by @hillarymarler in #365
• 12 7 23 cm by @cristinamullin in #368
• Update USGS_units_speciation.csv by @hillarymarler in #366
• 358 measurequalifiercode definitions by @hillarymarler in #369
• Builds consistency by @cristinamullin in #371
• 323 identifying censored data by @hillarymarler in #370
• Update TADAModule1.Rmd by @jesseboormanpadgett in #374
• Update Filtering.R by @hillarymarler in #373
• Updates by @cristinamullin in #379
• 158 remove empty all na columns by @hillarymarler in #376
• update deprecated chars function by @cristinamullin in #380
• Update Filtering.R by @hillarymarler in #382
• 336 original vs tada columns copies by @hillarymarler in #377
• Update Utilities.R by @hillarymarler in #385
• 378 detection limit unit conversions by @hillarymarler in #381
• 297 dynamic site radii based on dataset by @hillarymarler in #389
• Create required columns list and order by @cristinamullin in #388
• Pair Replicates Function by @katiehealy in #331
• Update vignettes hm by @hillarymarler in #390
• 372 create function to remove groundwater results by @hillarymarler in #391
• Fix TADA_HarmonizeSynonyms issue by @cristinamullin in #395
• fix max and min flags by @cristinamullin in #396
• Update setup instructions hm by @hillarymarler in #400
• TADA Dataretrieval multiple states by @hillarymarler in #406
• Updates from Shiny review by @cristinamullin in #404
• #346 - Add tribal boundaries to overview map by @renaemyers in #405
• 402 tada analysisdatafilter bug by @hillarymarler in #407
• Scatterplot issues by @hillarymarler in #408
• R5 package demo by @hillarymarler in #411
• R5 package demo by @hillarymarler in #412
• Update TADAR5.Rmd by @hillarymarler in #414
• Update TADAR5.Rmd by @hillarymarler in #415
• Update TADAR5.Rmd by @hillarymarler in #416
• 410 whole numbers for characteristic and measurement legends in tada overviewmap by @hillarymarler in #413
• 417 overview map bug by @hillarymarler in #418
• Fix pkgdown action by @cristinamullin in #419
• Maintenance by @cristinamullin in #421
• update export by @cristinamullin in #422
• 344 data retrieval updates by @cristinamullin in #428
• 375 range percent values 26 50 not handled correctly in tada convertspecialchars by @hillarymarler in #420
• Maintenance by @cristinamullin in #432
• tribal layers always load under circle markers by @renaemyers in #430
• 334 flag duplicates for multiple orgs weird behavior to check by @hillarymarler in #431
• Update test-ResultFlagsIndependent.R by @hillarymarler in #433
• merges 3 open PR's by @cristinamullin in #437
• Progress towards linking WQP to ATTAINS data by @kathryn-willi in #434
• 409 tada overviewmap tribal layer bug by @cristinamullin in #435
• 226 special characters function handling of percentages by @hillarymarler in #436
• 440 cant transform a data frame with duplicate names by @hillarymarler in #443
• show maps and figs by @cristinamullin in #444
• Update TADA_FlagContinuousData by @cristinamullin in #445
• Update continuous flag and training rmds by @cristinamullin in #453
• 398 remove unit conversions from tada harmonization template by @hillarymarler in #448
• Documentation updates from R8 review by @cristinamullin in #456
• Markdown demo by @hillarymarler in #455
• shapefile storage by @cristinamullin in #458
• Rmd review by @cristinamullin in #460
• Update TADAAssessmentUnitUseCase.Rmd by @hillarymarler in #461
• Color Palette Set Up by @hillarymarler in #462
• Trainingupdates by @hillarymarler in #468
• Update TADAModule1_BeginnerTraining.Rmd by @cristinamullin in #469
• Trainingupdates by @hillarymarler in #470
• GitHub release updates & review by @cristinamullin in #479
• 476 tada depthprofileplot title overlaps plot by @hillarymarler in #483
• 473 tada twocharacteristicscatterplot legend should not include fraction andor speciation if they are na by @hillarymarler in #480

New Contributors

• @jakegreif made their first contribution in #2
• @mthawley made their first contribution in #4
• @zsmith27 made their first contribution in #103
• @ldecicco-USGS made their first contribution in #121
• @nx10 made their first contribution in #127
• @jbousquin made their first contribution in #135
• @katiehealy made their first contribution in #171
• @ehinman made their first contribution in #187
• @renaemyers made their first contribution in #354
• @hillarymarler made their first contribution in #365
• @jesseboormanpadgett made their first contribution in #374
• @kathryn-willi made their first contribution in #434

Full Changelog: https://github.com/USEPA/EPATADA/commits/v0.1.0-alpha