dplyr 1.2.0 reverse dependency issues

[DavisVaughan]

Defunct SE functions: filter_(), select_(), mutate_(), summarise_(), group_by_(), arrange_(), rename_(), do_(), distinct_(), group_indices_()

• AQuadtree Switch to non underscored verbs DavisVaughan/AQuadtree#1
• auctestr Don't use underscored versions DavisVaughan/auctestr#1
• benthos Remove underscored functions DavisVaughan/benthos#1
• carpenter Remove underscored and outdated functions lwjohnst86/carpenter#27
• CB2 Switch off underscored functions DavisVaughan/CB2#1
• cofeatureR Remove underscored functions tinyheero/cofeatureR#7
• cogmapr Switch off underscored functions DavisVaughan/cogmapr#2
• dataCompareR archived on github https://github.com/DavisVaughan/dataCompareR/tree/fix/dplyr
• ddpcr dplyr 1.2.0 revdep failure daattali/ddpcr#28
• dmutate Switch off underscored variants kylebaron/dmutate#6
• eesim Avoid underscored function variants sakoehler7/eesim#33
• eoffice Avoid underscored function variants DavisVaughan/eoffice#1
• ESTER dplyr 1.2.0 revdep failure lnalborczyk/ESTER#5
• funModeling Avoid underscored function variants pablo14/funModeling#27
• ggmuller Avoid underscored function variants DavisVaughan/ggmuller#1
• gunsales Avoid underscored function variants DavisVaughan/gunsales#1
• hurricaneexposure Avoid underscored function variants geanders/hurricaneexposure#65
• IAT Avoid underscored function variants DavisVaughan/IAT#1
• lookupTable Avoid underscored function variants DavisVaughan/lookupTable#1
• ncdump Avoid underscored function variants hypertidy/ncdump#10
• psycho Avoid underscored function variants neuropsychology/psycho.R#122
• sfo Avoid underscored function variants DavisVaughan/sfo#1
• simts Avoid underscored function variants SMAC-Group/simts#37
• tvgeom Avoid underscored function variants DavisVaughan/tvgeom#1
• useful Avoid outdated dplyr functions jaredlander/useful#9
• CollapseLevels Avoid underscored function variants DavisVaughan/CollapseLevels#1
• dat Avoid underscored function variants wahani/dat#9
• EpiSignalDetection Avoid underscored function names EU-ECDC/EpiSignalDetection#21
• ezec Switch off underscored dplyr functions grunwaldlab/ezec#4
• GFE Avoid underscored function variants DavisVaughan/GFE#1
• genogeographer Avoid underscored function variants DavisVaughan/genogeographer#1
• ipft Avoid underscored function variants DavisVaughan/ipft#1
• LAGOSNE Fix underscored function variants cont-limno/LAGOSNE#117
• MetaNet Avoid underscored function variant Asa12138/MetaNet#10
• pkggraph Avoid underscored function variants talegari/pkggraph#5
• quickpsy Avoid underscored function variants DavisVaughan/quickpsy#1
• representr Avoid underscored function variants DavisVaughan/representr#1
• rollmatch Avoid underscored functions RTIInternational/rollmatch#14
• saeSim Avoid underscored functions wahani/saeSim#43
• simPH Avoid underscored functions christophergandrud/simPH#29
• SVMMaj Avoid underscored functions DavisVaughan/SVMMaj#1
• Tendril Avoid underscored or outdated functions AstraZeneca/Tendril#111
• tidygenomics Avoid underscored functions const-ae/tidygenomics#10
• timelineS Avoid underscored functions daheelee/timelineS#6
• traineR Avoid underscored functions PROMiDAT/traineR#2
• vpc Avoid underscored functions ronkeizer/vpc#106
• Momocs dplyr 1.2.0 MomX/Momocs#242
• panelr dplyr 1.2.0 jacob-long/panelr#62
• rprev dplyr 1.2.0 stulacy/rprev-dev#2
• SIBER Email

Missing export: dplyr::id

• adobeanalyticsr Add id global benrwoodard/adobeanalyticsr#191
• agriutilities Add id to global variables AparicioJohan/agriutilities#10
• AHPWR Add id global cran/AHPWR#1
• amanida Add id and friends to global variables mariallr/amanida#51
• AquaticLifeHistory Add id to global variables jonathansmart/AquaticLifeHistory#4
• BaHZING Add id global cran/BaHZING#1
• bayesmove Add id global joshcullen/bayesmove#12
• benchmarkmeData Add id global csgillespie/benchmarkme-data#4
• bootnet Add id global SachaEpskamp/bootnet#145
• bpmnR Add id global variable DavisVaughan/bpmnR#1
• broom Add id global tidymodels/broom#1265
• ccostr Add id binding to avoid NSE note DavisVaughan/ccostr#1
• CIMPLE Add id global DavisVaughan/CIMPLE#1
• cjar Add id to globals DavisVaughan/cjar#1
• clockify Add id global DavisVaughan/clockify#1
• cloudos Add id global lifebit-ai/cloudos#94
• crawl Add .data$id to avoid note DavisVaughan/crawl#1
• demodelr Add .data$id DavisVaughan/demodelr#1
• doublIn Add id global DavisVaughan/doublIn#1
• drawsample Add id global atalay-k/drawsample#1
• dynwrap Add id global dynverse/dynwrap#168
• edeaR Add id global bupaverse/edeaR#55
• eider Add id global alan-turing-institute/eider#98
• eq5dsuite Add .data$id cran/eq5dsuite#1
• estadistica Add id global DavisVaughan/estadistica#1
• ESTER dplyr 1.2.0 revdep failure lnalborczyk/ESTER#5
• expertsurv Add id global DavisVaughan/expertsurv#1
• FairMclus Add id variable and remove import DavisVaughan/FairMclus#1
• fbar Add .data$id for NSE notes maxconway/fbar#18
• FLORAL Add id global vdblab/FLORAL#40
• FRK Add id global andrewzm/FRK#10
• funspotr Add .data$id brshallo/funspotr#20
• gap dplyr 1.2.0 revdep failure jinghuazhao/R#8
• GencoDymo2 Add id to globals monahton/GencoDymo2#4
• ggbrick dplyr 1.2.0 revdep failure doehm/ggbrick#3
• ggFishPlots Add id to globals DeepWaterIMR/ggFishPlots#2
• gglm Add id global graysonwhite/gglm#8
• ghypernet Add id global DavisVaughan/ghypernet#1
• gimap Add id to globals FredHutch/gimap#107
• gitgadget Add id to globals vnijs/gitgadget#4
• gmgm Add .data$id to avoid NSE notes DavisVaughan/gmgm#1
• gMOIP Add id global relund/gMOIP#11
• goat Add id to list of globals ftwkoopmans/goat#17
• googletraffic Add .data$id to avoid note dime-worldbank/googletraffic#20
• GOxploreR Add id to globals, don't import dplyr::id() DavisVaughan/GOxploreR#1
• growthcleanr Add id global carriedaymont/growthcleanr#159
• grPipe Add id global DavisVaughan/grPipe#1
• heuristicsmineR Add id global bupaverse/heuristicsmineR#11
• himach Add id global david6marsh/himach#36
• inti Use = to avoid NSE note Flavjack/inti#16
• istat Add .data$id to avoid NSE note DavisVaughan/istat#1
• IVPP dplyr 1.2.0 revdep failure xinkaidupsy/IVPP#5
• kerntools Avoid dplyr::id() elies-ramon/kerntools#2
• khisr Add id global variable damurka/khisr#31
• kollaR Add .data$ prefix DavisVaughan/kollaR#1
• manifestoR Add id global variable DavisVaughan/manifestoR#1
• markets Add id to globals pi-kappa-devel/markets#1
• mvMAPIT Add id global lcrawlab/mvMAPIT#119
• numbat Add id global kharchenkolab/numbat#247
• pammtools Add id global adibender/pammtools#260
• recforest Add id global DavisVaughan/recforest#1
• tidycensus Add .data$ prefix walkerke/tidycensus#628
• HVT can't seem to clone it?
• mdsr Add id to set of globals mdsr-book/mdsr#81
• NBDCtools Add id global DavisVaughan/NBDCtools#1
• mobr Add id global MoBiodiv/mobr#280
• morse Add id global DavisVaughan/morse#1
• OnboardClient Add id global DavisVaughan/OnboardClient#1
• roads Add id global LandSciTech/roads#35
• wpa Add id global microsoft/wpa#248
• metamicrobiomeR many global variables issues?
• mlVAR Add .data$ prefix DavisVaughan/mlVAR#1
• moodleR Add id global chi2labs/moodleR#33
• nfl4th Add id global variable nflverse/nfl4th#39
• nichetools Add id global benjaminhlina/nichetools#21
• orderanalyzer Add id global DavisVaughan/orderanalyzer#1
• oRus Add id global DavisVaughan/oRus#1
• parSim Add id global DavisVaughan/parSim#1
• pctax Add id global Asa12138/pctax#5
• PEIMAN2 Add id global DavisVaughan/PEIMAN2#1
• petrinetR Add id global bupaverse/petrinetR#16
• processmapR Add id global bupaverse/processmapR#70
• protti Add id global jpquast/protti#287
• refund.shiny Add id global refunders/refund.shiny#12
• registr Add id global DavisVaughan/registr#1
• revulyticsR dplyr 1.2.0 revdep failure chrisumphlett/reveneraR#13
• scistreer Add id global kharchenkolab/scistreer#4
• servosphereR Add id global jake-wittman/servosphereR#1
• shinyloadtest Add id global rstudio/shinyloadtest#182
• SimplyAgree Add id global arcaldwell49/SimplyAgree#70
• soc.ca Add id global Rsoc/soc.ca#107
• stabiliser Add id global DavisVaughan/stabiliser#1
• StratifiedMedicine Add id global thomasjemielita/StratifiedMedicine#1
• sugarbag Add id global srkobakian/sugarbag#24
• survHE Add id global giabaio/survHE#62
• survivoR Add id global doehm/survivoR#35
• tglkmeans Add id global tanaylab/tglkmeans#18
• tidyCDISC Add id global Biogen-Inc/tidyCDISC#251
• tidypopgen Add id global EvolEcolGroup/tidypopgen#164
• treeheatr Add id global trangdata/treeheatr#9
• twfeivdecomp Add id global shomiyaji/twfeiv-decomp#1
• TwoArmSurvSim Add id global DavisVaughan/TwoArmSurvSim#1
• viafr Add id global stefanieschneider/viafr#5
• vivainsights Add id global microsoft/vivainsights#75
• WRTDStidal Add id global fawda123/WRTDStidal#4
• ypssc Add id global DavisVaughan/ypssc#1
• gggenomes dplyr 1.2.0 thackl/gggenomes#234

summarise() returning multiple rows, need to use reframe()

• BiostatsUHNplus Email
• bistablehistory dplyr 1.2.0 alexander-pastukhov/bistablehistory#6
• brisk dplyr 1.2.0 rich-payne/brisk#34
• COMIX Email
• DHSr Email
• dyngen dplyr 1.2.0 dynverse/dyngen#62
• EEAaq dplyr 1.2.0 PaoloMaranzano/EEAaq_R#1
• efdm dplyr 1.2.0 mikkoku/efdm#1
• eHDPrep dplyr 1.2.0 overton-group/eHDPrep#4
• faersquarterlydata Email
• gapclosing dplyr 1.2.0 ilundberg/gapclosing#4
• gratis dplyr 1.2.0 ykang/gratis#36
• halk Email
• iccCounts Email
• ir dplyr 1.2.0 henningte/ir#3
• matsbyname dplyr 1.2.0 MatthewHeun/matsbyname#1
• metrica dplyr 1.2.0 adriancorrendo/metrica#43
• mixtur dplyr 1.2.0 JimGrange/mixtur#11
• MixviR dplyr 1.2.0 mikesovic/MixviR#1
• oblicubes dplyr 1.2.0 trevorld/oblicubes#18
• oncomsm dplyr 1.2.0 Boehringer-Ingelheim/oncomsm#67
• PaRe dplyr 1.2.0 darwin-eu-dev/PaRe#71
• plotBart dplyr 1.2.0 priism-center/plotBart#4
• rsample (talked to Hannah)
• rwicc dplyr 1.2.0 d-morrison/rwicc#26
• ssimparser Email
• treediff Email

Defunct function: tbl_df() / as.tbl()

• crosswalkr Switch to as_tibble() btskinner/crosswalkr#6
• eesim Avoid underscored function variants sakoehler7/eesim#33
• furniture Use as_tibble() DavisVaughan/furniture#1
• fuzzyjoin Use as_tibble() dgrtwo/fuzzyjoin#92
• gaiah Use as_tibble() DavisVaughan/gaiah#1
• hurricaneexposure Avoid underscored function variants geanders/hurricaneexposure#65
• IAT Avoid underscored function variants DavisVaughan/IAT#1
• microhaplot Use as_tibble() ngthomas/microhaplot#28
• MonteCarlo Use as_tibble() FunWithR/MonteCarlo#12
• pccc Remove as.tbl() usage CUD2V/pccc#61
• placer Use as_tibble() DavisVaughan/placer#1
• rpivotTable Use as_tibble() smartinsightsfromdata/rpivotTable#127
• surveydata Use as_tibble() andrie/surveydata#10
• tabr Fix/dplyr leonawicz/tabr#46
• TextForecast Use as_tibble() lucasgodeiro/TextForecast#3
• useful Avoid outdated dplyr functions jaredlander/useful#9
• wakefield Use as_tibble() trinker/wakefield#34

Defunct function: combine()

• survminer dplyr 1.2.0 reverse dependency failure kassambara/survminer#697

Defunct function: add_rownames()

• ZIBR dplyr 1.2.0 revdep failure PennChopMicrobiomeProgram/ZIBR#22

Defunct argument: group_by(.dots = )

• matman email
• simTool dplyr 1.2.0 revdep failures MarselScheer/simTool#11
• strand dplyr 1.2.0 revdep failure strand-tech/strand#6

• psrwe dplyr 1.2.0 olssol/psrwe#32

Defunct argument: group_by(add = )

• arrow Remove old add = tests apache/arrow#48731
• chunked Use .add DavisVaughan/chunked#1
• dbplot Updates edgararuiz/dbplot#2
• dtplyr Remove add test dtplyr#496

Defunct argument: group_indices(...)

• ipft email only, a bit complicated, needs maintainer intervention

Defunct argument: add_count(.drop = )

• tidyseurat Remove .drop argument stemangiola/tidyseurat#91

Defunct summarise_each() / mutate_each(), need to use across()

• Lahman dplyr 1.2.0 cdalzell/Lahman#75
• MSiP Email
• sfc dplyr 1.2.0 ctfysh/sfc#1

Missing export: dplyr::select_vars / dplyr::rename_vars

• amt dplyr 1.2.0 revdep failures jmsigner/amt#139
• ggalluvial Use eval_select() not select_vars() corybrunson/ggalluvial#154
• pems.utils email only

Missing export: dplyr::location

• assertHE Add globals dark-peak-analytics/assertHE#137
• ediblecity Add location global icra/ediblecity#2
• etl Add location global beanumber/etl#64
• ggmulti Add location global DavisVaughan/ggmulti#1
• mapboxapi Add location global walkerke/mapboxapi#62
• RcmdrPlugin.RiskDemo Add location global DavisVaughan/RcmdrPlugin.RiskDemo#1
• ulex Refer to "location" to avoid NSE note DavisVaughan/ulex#1

case_when() deprecated pattern (scalar LHS with vector RHS)

• admiral dplyr 1.2.0 revdep failures pharmaverse/admiral#2947
• mantis Don't use case_when() for simple if/else ropensci/mantis#36

if_else() stricter array validation

• BiVariAn Don't supply if_else() an array AndresFloresG/BiVariAn#1
• STICr Actually extract out column HEAL-KGS/STICr#35

filter() with across() → use if_any() / if_all()

• batchtma dplyr 1.2.0 revdep issue stopsack/batchtma#3
• cohortBuilder dplyr 1.2.0 revdep issues r-world-devs/cohortBuilder#86

Tests expect silent execution but get warnings

• cardx dplyr 1.2.0 insightsengineering/cardx#327
• plotor dplyr 1.2.0 craig-parylo/plotor#95

Tests expecting a very specific attribute ordering

• SomaDataIO dplyr 1.2.0 SomaLogic/SomaDataIO#164
• mapbayr Treat attributes like a map, not a sorted list FelicienLL/mapbayr#228

Deprecated case_match() warnings causing test failures

• mpathr dplyr 1.2.0 revdep issues m-path-io/mpathr#7

Missing purrr export: at_depth

Packages using purrr::at_depth which is not exported. Not a dplyr issue but affects installation.

• amberr
• galvanizer
• kerastuneR
• stoRy
• tidyjson

Missing Rd cross-references to removed functions

Packages with documentation cross-references to removed dplyr functions like src_dbi(), src_postgres(), src_mysql(). There's nothing we can actively do for these packages beyond sending them an FYI.

• dbplyr Don't reference removed src_postgres() dbplyr#1778
• dm chore: Don't refer to removed dplyr::src_dbi() cynkra/dm#2356
• etl sent a different pr
• srcr Don't reference removed dplyr functions baileych/srcr#2

• simpr dplyr 1.2.0 revdep issues statisfactions/simpr#74
• srvyr dplyr 1.2.0 revdep failure gergness/srvyr#199

Missing NEWS entries

Packages that fail because dplyr NEWS entries are missing for the development version.

• btw

ggplot2 dependency issues

Packages failing due to ggplot2/ggtern compatibility issues. Not a dplyr issue.

• ggmosaic
• tricolore

C++ compilation failures (memory exhaustion)

Stan-based packages that fail C++ compilation due to memory exhaustion. Not dplyr-related.

• EcoEnsemble
• multinma

Missing dependencies (non-dplyr)

Packages with missing dependencies unrelated to dplyr.

• bayesdfa
• loon.shiny
• TriDimRegression

Rust/Cargo compilation issues

Packages with Rust compilation errors. Not dplyr-related.

• rshift

Other issues requiring investigation

Packages with various other errors that need further analysis or have unclear error patterns.

• dexter dplyr 1.2.0 revdep failures dexter-psychometrics/dexter#15
• discord Don't supply matrices to case_when() R-Computing-Lab/discord#47
• DrugExposureDiagnostics dplyr 1.2.0 revdep failures darwin-eu/DrugExposureDiagnostics#11
• duckplyr dplyr 1.2.0 revdep failures duckplyr#840
• evanverse dplyr 1.2.0 revdep failures evanbio/evanverse#4
• feisr
• hutils dplyr 1.2.0 compatibility HughParsonage/hutils#42
• iNZightTS Switch to simpler if/else iNZightVIT/iNZightTS#80
• inspectdf can't reproduce any issues locally
• manydata can't reproduce any issues locally
• merTools
• OpenLand Add changes global reginalexavier/OpenLand#13
• origin dplyr 1.2.0 revdep failure mnist91/origin#11
• REDCapTidieR dplyr 1.2.0 revdep failures CHOP-CGTInformatics/REDCapTidieR#239
• rifttable Forcibly retain label attribute stopsack/rifttable#10
• risk.assessr dplyr 1.2.0 revdep failures Sanofi-Public/risk.assessr#11
• scSpatialSIM dplyr 1.2.0 revdep failures FridleyLab/scSpatialSIM#8
• statsExpressions Fight against the natural if_any() behavior IndrajeetPatil/statsExpressions#332
• vctrs
• vital Strip off the array class from $fit and $se.fit robjhyndman/vital#56
• WhatsR seems like a download failure
• xlr Fight against the natural if_any() behavior NHilder/xlr#12

Passed checks or unclear status

Packages that passed checks, had empty error output, or status is unclear.

• CytoML, unable to install, "No such file or directory"
• DSMolgenisArmadillo, dependency ‘panelaggregation’ not available, archived 2025-06-13
• dsTidyverse, dependency ‘panelaggregation’ not available, archived 2025-06-13
• dsTidyverseClient, dependency ‘panelaggregation’ not available, archived 2025-06-13
• flowWorkspace, unable to install, "No such file or directory". Bioconductor.
• NanoMethViz, unable to install, "No such file or directory". Bioconductor. C++20?
• pkgstats, unable to install, "No such file or directory". Archived package.
• quanteda, didn't run new checks at all. not sure why.

• verdata - timing tests and lookup functionality failures (not dplyr-related)