diff --git a/revdep/README.md b/revdep/README.md index 761c5e46e..08c41c9f6 100644 --- a/revdep/README.md +++ b/revdep/README.md @@ -3,888 +3,942 @@ |field |value | |:--------|:----------------------------| |version |R version 4.0.0 (2020-04-24) | -|os |macOS Catalina 10.15.4 | +|os |macOS Catalina 10.15.5 | |system |x86_64, darwin17.0 | |ui |X11 | |language |(EN) | |collate |en_US.UTF-8 | |ctype |en_US.UTF-8 | |tz |America/New_York | -|date |2020-05-11 | +|date |2020-06-19 | # Dependencies -|package |old |new |Δ | -|:---------|:-------|:----------|:--| -|shiny |1.4.0.2 |1.4.0.9003 |* | -|htmltools |NA |0.4.0.9003 |* | +|package |old |new |Δ | +|:-------|:-------|:-----|:--| +|shiny |1.4.0.2 |1.5.0 |* | # Revdeps +## Failed to check (3) + +|package |version |error |warning |note | +|:--------------------------------------|:-------|:-----|:-------|:----| +|[frailtypack](failures.md#frailtypack) |3.3.0 |1 | | | +|[Rariant](failures.md#rariant) |1.24.0 |1 | | | +|[skeleSim](failures.md#skelesim) |0.9.8 |1 | | | + ## New problems (2) -|package |version |error |warning |note | -|:----------------------------------|:-------|:------|:-------|:----| -|[bsplus](problems.md#bsplus) |0.1.1 |__+1__ | |1 | -|[periscope](problems.md#periscope) |0.4.9-1 |__+1__ | | | +|package |version |error |warning |note | +|:--------------------------------------------|:-------|:------|:-------|:--------| +|[bsplus](problems.md#bsplus) |0.1.1 |__+1__ | |1 | +|[RforProteomics](problems.md#rforproteomics) |1.26.0 | |1 |2 __+1__ | -## All (855) +## All (902) -|package |version |error |warning |note | -|:------------------------------------------------------------------------|:----------|:------|:-------|:----| -|[aaSEA](problems.md#aasea) |1.1.0 | | |1 | -|ABACUS |1.0.0 | | | | -|abstractr |0.1.0 | | | | -|[ADAMgui](problems.md#adamgui) |1.4.0 | | |2 | -|[adapr](problems.md#adapr) |2.0.0 | | |1 | -|AdaptGauss |1.5.6 | | | | -|adaptiveGPCA |0.1.2 | | | | -|addinslist |0.3 | | | | -|addinsOutline |0.1.6 | | | | -|[adegenet](problems.md#adegenet) |2.1.2 | | |1 | -|[adepro](problems.md#adepro) |3.0.0 | | |1 | -|adespatial |0.3-8 | | | | -|[AdhereR](problems.md#adherer) |0.6.0 |1 | | | -|AFheritability |0.1.0 | | | | -|AFM |1.2.6 | | | | -|ahp |0.2.12 | | | | -|airGRteaching |0.2.8.69 | | | | -|[alevinQC](problems.md#alevinqc) |1.4.0 | | |1 | -|AMModels |0.1.4 | | | | -|[AMPLE](problems.md#ample) |0.0.2 | | |1 | -|AmyloGram |1.1 | | | | -|[analysisPipelines](problems.md#analysispipelines) |1.0.1 | | |1 | -|[animalcules](problems.md#animalcules) |1.4.0 |-1 | |4 | -|[animaltracker](problems.md#animaltracker) |0.1.0 | | |1 | -|aniview |0.1.0 | | | | -|[ANOVAIREVA](problems.md#anovaireva) |0.1.0 | | |1 | -|ANOVAreplication |1.1.4 | | | | -|[ANOVAShiny](problems.md#anovashiny) |0.1.0 | | |1 | -|antaresRead |2.2.5 | | | | -|antaresViz |0.15.1 | | | | -|AnthropMMD |3.0.1 | | | | -|[antitrust](problems.md#antitrust) |0.99.11 | | |1 | -|aos |0.1.0 | | | | -|[apexcharter](problems.md#apexcharter) |0.1.4 | | |1 | -|[appreci8R](problems.md#appreci8r) |1.6.0 |1 | | | -|[ArchaeoPhases](problems.md#archaeophases) |1.4 | | |1 | -|archivist |2.3.4 | | | | -|[arena2r](problems.md#arena2r) |1.0.0 | | |1 | -|argonDash |0.2.0 | | | | -|argonR |0.2.0 | | | | -|ARPobservation |1.2.0 | | | | -|arulesViz |1.3-3 | | | | -|asciiSetupReader |2.3.1 | | | | -|[ASSOCShiny](problems.md#assocshiny) |0.1.0 | | |1 | -|[AUCell](problems.md#aucell) |1.10.0 | | |4 | -|auth0 |0.2.1 | | | | -|AutoDeskR |0.1.3 | | | | -|autoshiny |0.0.2 | | | | -|AzureAuth |1.2.3 | | | | -|azuremlsdk |0.6.85 | | | | -|backpipe |0.2.3 | | | | -|bairt |0.1.2 | | | | -|baRcodeR |0.1.5 | | | | -|[BARIS](problems.md#baris) |1.1.0 | | |1 | -|basictabler |0.3.1 | | | | -|[BatchQC](problems.md#batchqc) |1.16.0 |1 | |1 | -|BayesianFROC |0.2.3 | | | | -|[BayesianNetwork](problems.md#bayesiannetwork) |0.1.5 | | |1 | -|[BayesNetBP](problems.md#bayesnetbp) |1.5.2 | | |1 | -|BBEST |0.1-6 | | | | -|[BCEA](problems.md#bcea) |2.3-1.1 | | |1 | -|[bdchecks](problems.md#bdchecks) |0.1.7 | | |1 | -|[bdclean](problems.md#bdclean) |0.1.15 | | |1 | -|bdDwC |0.1.15 | | | | -|[bde](problems.md#bde) |1.0.1 | | |1 | -|BDEsize |1.2 | | | | -|BDP2 |0.1.3 | | | | -|[bea.R](problems.md#bear) |1.0.6 | | |1 | -|BEACH |1.3.1 | | | | -|[beanz](problems.md#beanz) |2.4 | | |3 | -|beats |0.1.1 | | | | -|[bestSDP](problems.md#bestsdp) |0.1.2 | | |1 | -|[BETS](problems.md#bets) |0.4.9 | |2 |1 | -|BGGM |1.0.0 | | | | -|[bibliometrix](problems.md#bibliometrix) |3.0.0 | | |1 | -|BIGL |1.4.3 | | | | -|[bigPint](problems.md#bigpint) |1.4.0 | | |1 | -|[bigQueryR](problems.md#bigqueryr) |0.5.0 | | |1 | -|[billboarder](problems.md#billboarder) |0.2.8 | | |1 | -|[binovisualfields](problems.md#binovisualfields) |0.1.1 | | |1 | -|[bioCancer](problems.md#biocancer) |1.16.0 |1 | | | -|[BiocOncoTK](problems.md#bioconcotk) |1.8.0 |1 | | | -|[BioInstaller](problems.md#bioinstaller) |0.3.7 | | |1 | -|[BioNetStat](problems.md#bionetstat) |1.8.0 | | |3 | -|[BIRDS](problems.md#birds) |0.1 | | |2 | -|[biva](problems.md#biva) |0.1.0 | | |1 | -|[blkbox](problems.md#blkbox) |1.0 | | |2 | -|[blockCV](problems.md#blockcv) |2.1.1 | | |1 | -|blogdown |0.18 | | | | -|[BLRShiny](problems.md#blrshiny) |0.1.0 | | |1 | -|bookdown |0.18 | | | | -|bpbounds |0.1.4 | | | | -|bridger2 |0.1.0 | | | | -|bs4Dash |0.5.0 | | | | -|bSims |0.2-1 | | | | -|[bsplus](problems.md#bsplus) |0.1.1 |__+1__ | |1 | -|bullwhipgame |0.1.0 | | | | -|bunchr |1.2.0 | | | | -|bupaR |0.4.3 | | | | -|[caffsim](problems.md#caffsim) |0.2.2 | | |1 | -|CamelUp |0.1.1 | | | | -|[canvasXpress](problems.md#canvasxpress) |1.27.6-1 | | |1 | -|[CaPO4Sim](problems.md#capo4sim) |0.1.0 | | |1 | -|[cartools](problems.md#cartools) |0.1.0 | | |1 | -|causaloptim |0.7.1 | | | | -|cbsodataR |0.4.1 | | | | -|[ChAMP](problems.md#champ) |2.18.1 |1 | | | -|cheatR |1.2.1 | | | | -|[CHETAH](problems.md#chetah) |1.4.0 | | |2 | -|[chipPCR](problems.md#chippcr) |0.0.8-10 | | |1 | -|[chromoMap](problems.md#chromomap) |0.2 | | |1 | -|[chromVAR](problems.md#chromvar) |1.10.0 |1 | |2 | -|[cicerone](problems.md#cicerone) |1.0.1 | | |1 | -|Cite |0.1.0 | | | | -|citr |0.3.2 | | | | -|[cjoint](problems.md#cjoint) |2.1.0 | | |2 | -|CLME |2.0-11 | | | | -|[CLUSTShiny](problems.md#clustshiny) |0.1.0 | | |1 | -|cmsaf |2.0.1 | | | | -|[CMShiny](problems.md#cmshiny) |0.1.0 | | |1 | -|cNORM |1.2.2 | | | | -|[CNVPanelizer](problems.md#cnvpanelizer) |1.20.0 |1 | | | -|[cocktailApp](problems.md#cocktailapp) |0.2.1 | | |1 | -|[codebook](problems.md#codebook) |0.8.2 | | |2 | -|[cognitoR](problems.md#cognitor) |1.0.1 | | |1 | -|colorspace |1.4-1 | | | | -|colourpicker |1.0 | | | | -|compareGroups |4.4.1 | | | | -|[COMPASS](problems.md#compass) |1.26.0 | | |4 | -|[competitiontoolbox](problems.md#competitiontoolbox) |0.1.2 | | |1 | -|complexity |1.1.1 | | | | -|[condformat](problems.md#condformat) |0.8.0 | | |1 | -|condir |0.1.2 | | | | -|condvis |0.5-1 | | | | -|condvis2 |0.1.0 | | | | -|[conflr](problems.md#conflr) |0.1.1 | | |1 | -|convertr |0.1 | | | | -|[CoRegNet](problems.md#coregnet) |1.26.0 | |1 |2 | -|[corporaexplorer](problems.md#corporaexplorer) |0.8.2 | | |1 | -|[cosinor](problems.md#cosinor) |1.1 | | |1 | -|countfitteR |1.0 | | | | -|[coveffectsplot](problems.md#coveffectsplot) |0.0.9 | | |1 | -|[CRANsearcher](problems.md#cransearcher) |1.0.0 | | |1 | -|[crawl](problems.md#crawl) |2.2.1 | | |1 | -|credsubs |1.0.1 | | | | -|[crisprseekplus](problems.md#crisprseekplus) |1.14.0 | | |1 | -|cromwellDashboard |0.5.1 | | | | -|cronR |0.4.0 | | | | -|[CrossICC](problems.md#crossicc) |1.2.0 |1 | | | -|[crossmeta](problems.md#crossmeta) |1.14.0 |2 |1 |3 | -|crosstalk |1.1.0.1 | | | | -|crunchy |0.3.1 | | | | -|CSUV |0.1.0 | | | | -|[CTAShiny](problems.md#ctashiny) |0.1.0 | | |1 | -|[ctsem](problems.md#ctsem) |3.2.1 | | |3 | -|ctsGE |1.14.0 | | | | -|[CTShiny](problems.md#ctshiny) |0.1.0 | | |1 | -|CTTinShiny |0.1.0 | | | | -|CTTShiny |0.1 | | | | -|cubeview |0.2.0 | | | | -|cydar |1.12.0 | | | | -|CytobankAPIstats |2.0 | | | | -|d3heatmap |0.6.1.2 | | | | -|[d3Tree](problems.md#d3tree) |0.2.0 | | |1 | -|daqapo |0.3.0 | | | | -|[datacheck](problems.md#datacheck) |1.2.2 | | |2 | -|[datadigest](problems.md#datadigest) |1.0.2 | | |1 | -|[dataesgobr](problems.md#dataesgobr) |1.0.0 | | |1 | -|datamaps |0.0.3 | | | | -|datasets.load |1.4.0 | | | | -|daterangepicker |0.1.0 | | | | -|dccvalidator |0.2.0 | | | | -|ddpcr |1.14 | | | | -|[debrowser](problems.md#debrowser) |1.16.0 |1 | | | -|deepdep |0.2.1 | | | | -|deisotoper |0.0.7 | | | | -|[delayed](problems.md#delayed) |0.3.0 | | |1 | -|demoShiny |0.1 | | | | -|[DEP](problems.md#dep) |1.10.0 | | |1 | -|[detzrcr](problems.md#detzrcr) |0.3.0 | | |1 | -|dextergui |0.2.2 | | | | -|diffr |0.1 | | | | -|dipsaus |0.0.6 | | | | -|[DiscoRhythm](problems.md#discorhythm) |1.4.0 | | |2 | -|discoveR |1.2.4 | | | | -|disk.frame |0.3.5 | | | | -|distcomp |1.1 | | | | -|distill |0.7 | | | | -|distreg.vis |1.7.0 | | | | -|[diveRsity](problems.md#diversity) |1.9.90 | | |1 | -|[DLMtool](problems.md#dlmtool) |5.4.3 | | |1 | -|dmdScheme |1.1.2 | | | | -|[Doscheda](problems.md#doscheda) |1.10.0 | | |1 | -|[dosedesignR](problems.md#dosedesignr) |0.2.4 | | |1 | -|dpcR |0.5 | | | | -|[dplyrAssist](problems.md#dplyrassist) |0.1.0 | | |1 | -|dqshiny |0.0.3 | | | | -|[dragon](problems.md#dragon) |0.2.1 | | |1 | -|dragulaR |0.3.1 | | | | -|DRomics |2.0-1 | | | | -|[dropR](problems.md#dropr) |0.1 | | |1 | -|DSAIDE |0.8.3 | | | | -|DSAIRM |0.8.2 | | | | -|DT |0.13 | | | | -|DTAT |0.3-3 | | | | -|[dtwclust](problems.md#dtwclust) |5.5.6 | | |1 | -|[DVHmetrics](problems.md#dvhmetrics) |0.3.10 | | |1 | -|[dynamichazard](problems.md#dynamichazard) |0.6.6 | | |1 | -|DynNom |5.0.1 | | | | -|Eagle |2.2 | | | | -|eAnalytics |0.1.4 | | | | -|easySdcTable |0.5.0 | | | | -|[EBImage](problems.md#ebimage) |4.30.0 | |1 |1 | -|ECharts2Shiny |0.2.13 | | | | -|echarts4r |0.2.3 | | | | -|edeaR |0.8.4 | | | | -|edgebundleR |0.1.4 | | | | -|editData |0.1.2 | | | | -|eechidna |1.4.0 | | | | -|eemR |1.0.1 | | | | -|EffectLiteR |0.4-4 | | | | -|[effectR](problems.md#effectr) |1.0.2 | | |1 | -|egor |0.20.03 | | | | -|[EHRtemporalVariability](problems.md#ehrtemporalvariability) |1.0.4 | | |2 | -|einet |0.1.0 | | | | -|elaborator |1.0 | | | | -|[elementR](problems.md#elementr) |1.3.6 |1 | | | -|[embryogrowth](problems.md#embryogrowth) |7.6 | | |1 | -|[EML](problems.md#eml) |2.0.2 | | |1 | -|EMMAgeo |0.9.7 | | | | -|EMSaov |2.3 | | | | -|emuR |2.0.4 | | | | -|[ENCODExplorer](problems.md#encodexplorer) |2.14.0 |1 | | | -|[enviPick](problems.md#envipick) |1.5 |1 | | | -|[epicontacts](problems.md#epicontacts) |1.1.0 | | |1 | -|epimdr |0.6-5 | | | | -|EpiModel |1.8.0 | | | | -|[EpiSignalDetection](problems.md#episignaldetection) |0.1.1 | | |1 | -|[epivizrChart](problems.md#epivizrchart) |1.10.0 |1 | |3 | -|eq5d |0.7.0 | | | | -|[erma](problems.md#erma) |1.4.0 |1 | | | -|ERSA |0.1.1 | | | | -|eSDM |0.3.4 | | | | -|eseis |0.5.0 | | | | -|esquisse |0.3.0 | | | | -|EurosarcBayes |1.1 | | | | -|evaluator |0.4.2 | | | | -|EventDetectGUI |0.3.0 | | | | -|[EventStudy](problems.md#eventstudy) |0.36 | | |2 | -|evobiR |1.1 | | | | -|excelR |0.4.0 | | | | -|ExPanDaR |0.5.1 | | | | -|explor |0.3.6 | | | | -|explore |0.5.5 | | | | -|ExploreModelMatrix |1.0.0 | | | | -|ezplot |0.4.1 | | | | -|Factoshiny |2.2 | | | | -|fanplot |3.4.2 | | | | -|[FastqCleaner](problems.md#fastqcleaner) |1.6.0 | | |2 | -|[FELLA](problems.md#fella) |1.8.0 | | |2 | -|findviews |0.1.3 | | | | -|fingertipsR |1.0.3 | | | | -|[firebase](problems.md#firebase) |0.1.0 | | |1 | -|[fitteR](problems.md#fitter) |0.1.0 | | |1 | -|[fitur](problems.md#fitur) |0.6.1 | | |1 | -|flacco |1.8 | | | | -|[flair](problems.md#flair) |0.0.2 | | |1 | -|flexdashboard |0.5.1.1 | | | | -|[flora](problems.md#flora) |0.3.4 | | |1 | -|[flowAI](problems.md#flowai) |1.18.0 | | |1 | -|[flowcatchR](problems.md#flowcatchr) |1.22.0 | | |2 | -|[flowPloidy](problems.md#flowploidy) |1.14.0 |2 | |1 | -|formatR |1.7 | | | | -|formattable |0.2.0.1 | | | | -|[frailtypack](problems.md#frailtypack) |3.2.0 | | |2 | -|FreqProf |0.0.1 | | | | -|frequency |0.4.0 | | | | -|fresh |0.1.0 | | | | -|[FunChIP](problems.md#funchip) |1.14.0 | |2 |2 | -|FuzzyR |2.3 | | | | -|G2Sd |2.1.5 | | | | -|[g3viz](problems.md#g3viz) |1.1.2 | | |1 | -|[GA4GHshiny](problems.md#ga4ghshiny) |1.10.0 |1 | |2 | -|[gamesGA](problems.md#gamesga) |1.1.3.7 | | |1 | -|[gastempt](problems.md#gastempt) |0.5.0 | | |3 | -|gazepath |1.3 | | | | -|[GDCRNATools](problems.md#gdcrnatools) |1.8.0 | | |3 | -|GDINA |2.7.9 | | | | -|[genBart](problems.md#genbart) |1.0.1 | | |1 | -|[GeneNetworkBuilder](problems.md#genenetworkbuilder) |1.30.0 | | |2 | -|GeneralizedUmatrix |1.1.9 | | | | -|[GenEst](problems.md#genest) |1.4.2 | | |1 | -|[GeneTonic](problems.md#genetonic) |1.0.0 |2 | |3 | -|genogeographer |0.1.19 | | | | -|[GenomicScores](problems.md#genomicscores) |2.0.0 |1 | |4 | -|genTS |0.1.3 | | | | -|[GerminaR](problems.md#germinar) |1.4.2 | | |1 | -|gestate |1.4.0 | | | | -|getTBinR |0.7.0 | | | | -|[ggedit](problems.md#ggedit) |0.3.0 | | |1 | -|[ggExtra](problems.md#ggextra) |0.9 | | |1 | -|ggiraph |0.7.0 | | | | -|[ggplotAssist](problems.md#ggplotassist) |0.1.3 | | |1 | -|ggplotgui |1.0.0 | | | | -|[ggquickeda](problems.md#ggquickeda) |0.1.6 | | |1 | -|ggraptR |1.2 | | | | -|ggThemeAssist |0.1.5 | | | | -|ggvis |0.4.5 | | | | -|gimmeTools |0.1 | | | | -|giphyr |0.2.0 | | | | -|gitgadget |0.5.2 | | | | -|gitlabr |1.1.6 | | | | -|gitlink |0.1.3 | | | | -|glmaag |0.0.6 | | | | -|GMCM |1.4 | | | | -|[gmDatabase](problems.md#gmdatabase) |0.5.0 | |2 |1 | -|[GmicR](problems.md#gmicr) |1.2.0 |1 | | | -|GMSE |0.4.0.13 | | | | -|[GOFShiny](problems.md#gofshiny) |0.1.0 | | |1 | -|golem |0.2.1 | | | | -|googleAnalyticsR |0.7.1 | | | | -|googleAuthR |1.2.1 | | | | -|googleCloudRunner |0.2.0 | | | | -|googleLanguageR |0.3.0 | | | | -|googleVis |0.6.4 | | | | -|googleway |2.7.1 | | | | -|[GPA](problems.md#gpa) |1.0.0 | |1 |2 | -|GPoM.FDLyapu |1.0 | | | | -|[gQTLstats](problems.md#gqtlstats) |1.20.0 |1 | | | -|gradientPickerD3 |0.1.0.0 | | | | -|gravitas |0.1.2 | | | | -|[gridsampler](problems.md#gridsampler) |0.6 | | |1 | -|[GSVA](problems.md#gsva) |1.36.0 | |1 |1 | -|[gt](problems.md#gt) |0.2.0.5 | | |2 | -|[gwdegree](problems.md#gwdegree) |0.1.1 | | |1 | -|GWSDAT |3.0.3 | | | | -|[HaDeX](problems.md#hadex) |1.1 | | |1 | -|HARtools |0.0.5 | | | | -|[hchinamap](problems.md#hchinamap) |0.1.0 | | |1 | -|HelpersMG |4.0 | | | | -|HH |3.1-40 | | | | -|[highcharter](problems.md#highcharter) |0.7.0 | | |1 | -|highlightHTML |0.2.5 | | | | -|hpackedbubble |0.1.0 | | | | -|hR |0.2.1 | | | | -|[HumanTranscriptomeCompendium](problems.md#humantranscriptomecompendium) |1.4.0 |2 | | | -|[hwordcloud](problems.md#hwordcloud) |0.1.0 | | |1 | -|iAdapt |0.1.0 | | | | -|iCellR |1.5.0 | | | | -|iCOBRA |1.16.0 | | | | -|ICSShiny |0.5 | | | | -|[ideal](problems.md#ideal) |1.12.0 | | |1 | -|[idefix](problems.md#idefix) |0.4.3 | | |1 | -|[idem](problems.md#idem) |4.0 | | |2 | -|ifaTools |0.21 | | | | -|igraphinshiny |0.1 | | | | -|iheatmapr |0.4.12 | | | | -|imagefluency |0.2.3 | | | | -|Imetagene |1.18.0 | | | | -|IMP |1.1 | | | | -|ImportExport |1.1 | | | | -|[IMWatson](problems.md#imwatson) |0.5.0 | | |1 | -|IncucyteDRC |0.5.4 | | | | -|[INDperform](problems.md#indperform) |0.2.2 |2 | |1 | -|inferr |0.3.0 | | | | -|[inlabru](problems.md#inlabru) |2.1.13 | | |2 | -|[INSPEcT](problems.md#inspect) |1.18.0 | | |2 | -|[interactiveDisplay](problems.md#interactivedisplay) |1.26.0 | |1 |2 | -|[interactiveDisplayBase](problems.md#interactivedisplaybase) |1.26.0 | |1 |1 | -|[interAdapt](problems.md#interadapt) |0.1 | | |2 | -|interimApp |0.0.1 | | | | -|[IOHanalyzer](problems.md#iohanalyzer) |0.1.3 | | |2 | -|ioncopy |2.1.1 | | | | -|ipc |0.1.3 | | | | -|ipumsr |0.4.3 | | | | -|irtDemo |0.1.4 | | | | -|IRTShiny |1.2 | | | | -|[iSEE](problems.md#isee) |2.0.0 |2 | |3 | -|[iSEEu](problems.md#iseeu) |1.0.1 |2 | |1 | -|iSTATS |1.2 | | | | -|[ivygapSE](problems.md#ivygapse) |1.10.0 | | |2 | -|JMbayes |0.8-85 | | | | -|JointNets |2.0.1 | | | | -|[jpmesh](problems.md#jpmesh) |1.2.1 | | |1 | -|[jpndistrict](problems.md#jpndistrict) |0.3.6 |1 | | | -|[jsmodule](problems.md#jsmodule) |1.0.7 | | |1 | -|KappaGUI |2.0.2 | | | | -|KCSKNNShiny |0.1.0 | | | | -|KCSNBShiny |0.1.0 | | | | -|kgc |1.0.0.2 | | | | -|kgschart |1.3.5 | | | | -|[KNNShiny](problems.md#knnshiny) |0.1.0 | | |1 | -|[kokudosuuchi](problems.md#kokudosuuchi) |0.4.2 | | |1 | -|[koRpus](problems.md#korpus) |0.11-5 | | |1 | -|lavaan.shiny |1.2 | | | | -|LBSPR |0.1.5 | | | | -|lcars |0.3.1 | | | | -|LDAvis |0.3.2 | | | | -|leaflet |2.0.3 | | | | -|leaflet.minicharts |0.6.0 | | | | -|learnr |0.10.1 | | | | -|[learnstats](problems.md#learnstats) |0.1.1 | | |1 | -|[levi](problems.md#levi) |1.6.0 | | |2 | -|lifelogr |0.1.0 | | | | -|lightsout |0.3 | | | | -|[likert](problems.md#likert) |1.3.5 | | |1 | -|lime |0.5.1 | | | | -|linguisticsdown |1.2.0 | | | | -|linkspotter |1.2.0 | | | | -|linpk |1.0 | | | | -|listviewer |3.0.0 | | | | -|[live](problems.md#live) |1.5.13 | | |1 | -|[lmviz](problems.md#lmviz) |0.1.2 | | |1 | -|manipulateWidget |0.10.1 | | | | -|[mapdeck](problems.md#mapdeck) |0.3.2 | | |1 | -|[mapedit](problems.md#mapedit) |0.6.0 | | |1 | -|markdownInput |0.1.2 | | | | -|MAVIS |1.1.3 | | | | -|MazamaSpatialUtils |0.6.4 | | | | -|MCPModPack |0.1 | | | | -|[MDSPCAShiny](problems.md#mdspcashiny) |0.1.0 | | |1 | -|meltt |0.4.1 | | | | -|[memapp](problems.md#memapp) |2.13 | | |1 | -|[memery](problems.md#memery) |0.5.2 | | |1 | -|merTools |0.5.0 | | | | -|[meta4diag](problems.md#meta4diag) |2.0.8 | | |1 | -|MetaAnalyser |0.2.1 | | | | -|metamer |0.2.0 | | | | -|metathis |1.0.2 | | | | -|[MetCirc](problems.md#metcirc) |1.18.0 | | |2 | -|[MethylAid](problems.md#methylaid) |1.22.0 |2 | |1 | -|[methylGSA](problems.md#methylgsa) |1.6.1 | | |1 | -|metricsgraphics |0.9.0 | | | | -|[mgcViz](problems.md#mgcviz) |0.1.6 | | |1 | -|[microhaplot](problems.md#microhaplot) |1.0.1 | | |1 | -|microsamplingDesign |1.0.7 | | | | -|midas |1.0.1 | | | | -|[miniMeta](problems.md#minimeta) |0.2 | | |1 | -|miniUI |0.1.1.1 | | | | -|[miRcomp](problems.md#mircomp) |1.18.0 | |1 | | -|mirt |1.32.1 | | | | -|mirtCAT |1.9.3 | | | | -|[MLDAShiny](problems.md#mldashiny) |0.1.0 | | |1 | -|mldr |0.4.3 | | | | -|[MLInterfaces](problems.md#mlinterfaces) |1.68.0 | | |5 | -|[mlr3shiny](problems.md#mlr3shiny) |0.1.1 | | |1 | -|[MLRShiny](problems.md#mlrshiny) |0.1.0 | | |1 | -|[MLRShiny2](problems.md#mlrshiny2) |0.1.0 | | |1 | -|mlxR |4.1.0 | | | | -|[MMDiff2](problems.md#mmdiff2) |1.16.0 | | |4 | -|[MNLR](problems.md#mnlr) |0.1.0 | | |1 | -|modest |0.3-1 | | | | -|[MODIStsp](problems.md#modistsp) |1.3.9 | |4 |4 | -|mplot |1.0.4 | | | | -|mrMLM.GUI |4.0 | | | | -|[MSEtool](problems.md#msetool) |1.6.0 | | |1 | -|[MSnbase](problems.md#msnbase) |2.14.1 |2 | |4 | -|MSstatsQCgui |1.8.0 | | | | -|[mstrio](problems.md#mstrio) |11.2.1 | | |1 | -|MtreeRing |1.4.2 | | | | -|[MuChPoint](problems.md#muchpoint) |0.6.1 | | |1 | -|multichull |1.0.0 | | | | -|mwaved |1.1.7 | | | | -|mwshiny |2.0.0 | | | | -|NACHO |1.0.0 | | | | -|[nbc4va](problems.md#nbc4va) |1.1 |1 | |1 | -|[NBShiny](problems.md#nbshiny) |0.1.0 | | |1 | -|[NBShiny2](problems.md#nbshiny2) |0.1.0 | | |1 | -|[NDP](problems.md#ndp) |0.1.0 | | |1 | -|[neo4r](problems.md#neo4r) |0.1.1 | | |1 | -|netCoin |1.1.24 | | | | -|netrankr |0.2.1 | | | | -|nlgeocoder |0.1.3 | | | | -|NNTbiomarker |0.29.11 | | | | -|normalr |1.0.0 | | | | -|nph |2.0 | | | | -|npregfast |1.5.1 | | | | -|nse2r |0.1.1 | | | | -|objectremover |0.7.0 | | | | -|[oceanis](problems.md#oceanis) |1.0.7 | | |2 | -|[omicplotR](problems.md#omicplotr) |1.8.0 | | |2 | -|[oneSENSE](problems.md#onesense) |1.10.0 | |1 |1 | -|[ontoProc](problems.md#ontoproc) |1.10.0 | | |3 | -|[oolong](problems.md#oolong) |0.3.4 | | |1 | -|OpenImageR |1.1.6 | | | | -|[openmetrics](problems.md#openmetrics) |0.1.1 | | |1 | -|[openPrimeRui](problems.md#openprimerui) |1.10.0 | | |2 | -|[oppr](problems.md#oppr) |1.0.1 | | |1 | -|optimStrat |2.1 | | | | -|OWEA |0.1.1 | | | | -|[pairsD3](problems.md#pairsd3) |0.1.0 | | |1 | -|[PanVizGenerator](problems.md#panvizgenerator) |1.16.0 | | |1 | -|ParallelLogger |1.2.0 | | | | -|paramGUI |2.1.4 | | | | -|parcoords |1.0.0 | | | | -|[PathoStat](problems.md#pathostat) |1.14.0 | | |1 | -|pcadapt |4.3.3 | | | | -|[pcaExplorer](problems.md#pcaexplorer) |2.14.0 | | |2 | -|[pcFactorStan](problems.md#pcfactorstan) |1.5.1 | | |2 | -|[PCRedux](problems.md#pcredux) |1.0-6 | | |1 | -|pdfsearch |0.3.0 | | | | -|PDShiny |0.1.0 | | | | -|PELVIS |2.0.0 | | | | -|[pepStat](problems.md#pepstat) |1.22.0 | | |3 | -|[periscope](problems.md#periscope) |0.4.9-1 |__+1__ | | | -|[phenocamr](problems.md#phenocamr) |1.1.4 | | |1 | -|phenofit |0.2.7 | | | | -|phenology |7.3 | | | | -|phuse |0.2.2 | | | | -|PhyloProfile |1.2.2 | | | | -|[piano](problems.md#piano) |2.4.0 | | |2 | -|pipe.design |0.5.1 | | | | -|pipefittr |0.1.2 | | | | -|[pitchRx](problems.md#pitchrx) |1.8.2 | | |1 | -|PivotalR |0.1.18.3.1 | | | | -|pivottabler |1.3.1 | | | | -|pixels |0.1.0 | | | | -|PKconverter |1.5 | | | | -|pkgsearch |3.0.2 | | | | -|plainview |0.1.0 | | | | -|[plotGrouper](problems.md#plotgrouper) |1.6.0 | | |1 | -|[plotly](problems.md#plotly) |4.9.2.1 | | |1 | -|plotROC |2.2.1 | | | | -|plotSEMM |2.4 | | | | -|plsr |0.0.1 | | | | -|[pmd](problems.md#pmd) |0.1.5 | | |3 | -|[pogos](problems.md#pogos) |1.8.0 | | |1 | -|[polaroid](problems.md#polaroid) |0.0.1 | | |1 | -|[polmineR](problems.md#polminer) |0.8.0 | | |1 | -|[PopED](problems.md#poped) |0.4.0 | | |1 | -|poppr |2.8.5 | | | | -|populationPDXdesign |1.0.3 | | | | -|[powdR](problems.md#powdr) |1.2.1 | | |1 | -|powerlmm |0.4.0 | | | | -|ppcSpatial |0.2.0 | | | | -|pqantimalarials |0.2 | | | | -|[PrecisionTrialDrawer](problems.md#precisiontrialdrawer) |1.4.0 |1 | | | -|[predictoR](problems.md#predictor) |1.1.0 | | |1 | -|[PREPShiny](problems.md#prepshiny) |0.1.0 | | |1 | -|[primirTSS](problems.md#primirtss) |1.6.0 |1 | | | -|[prioritizr](problems.md#prioritizr) |4.1.5 | | |2 | -|ProbBayes |1.1 | | | | -|[PROBShiny](problems.md#probshiny) |0.1.0 | | |1 | -|[processanimateR](problems.md#processanimater) |1.0.3 | | |1 | -|processmapR |0.3.4 | | | | -|processmonitR |0.1.0 | | | | -|processR |0.2.3 | | | | -|profvis |0.3.6 | | | | -|progressr |0.5.0 | | | | -|ProjectionBasedClustering |1.1.1 | | | | -|pRolocGUI |1.22.0 | | | | -|Prostar |1.20.0 | | | | -|PupilPre |0.6.2 | | | | -|pushbar |0.1.0 | | | | -|pwrEWAS |1.2.0 | | | | -|[QCA](problems.md#qca) |3.7 | | |1 | -|qgam |1.3.2 | | | | -|[qlcData](problems.md#qlcdata) |0.2.1 | | |1 | -|[qqplotr](problems.md#qqplotr) |0.0.4 | | |1 | -|qqvases |1.0.0 | | | | -|QRAGadget |0.1.0 | | | | -|qrage |1.0 | | | | -|QTL.gCIMapping.GUI |2.1 | | | | -|[questionr](problems.md#questionr) |0.7.0 | | |1 | -|r2d3 |0.2.3 | | | | -|[R3CPET](problems.md#r3cpet) |1.20.0 | | |4 | -|r4ss |1.36.1 | | | | -|rabi |1.0.2 | | | | -|radarchart |0.3.1 | | | | -|radiant |1.3.2 | | | | -|radiant.basics |1.3.4 | | | | -|radiant.data |1.3.4 | | | | -|radiant.design |1.3.5 | | | | -|radiant.model |1.3.10 | | | | -|radiant.multivariate |1.3.5 | | | | -|radix |0.6 | | | | -|[RagGrid](problems.md#raggrid) |0.2.0 | | |1 | -|rainette |0.1 | | | | -|[rAmCharts](problems.md#ramcharts) |2.1.13 | | |1 | -|rangeMapper |0.3-7 | | | | -|[rangeModelMetadata](problems.md#rangemodelmetadata) |0.1.3 | | |1 | -|RanglaPunjab |2.3.4 | | | | -|[rapbase](problems.md#rapbase) |1.10.0 | | |1 | -|[Rariant](problems.md#rariant) |1.24.0 | |1 |3 | -|rbin |0.1.2 | | | | -|rblt |0.2.4.5 | | | | -|[rcellminer](problems.md#rcellminer) |2.10.0 | |1 |3 | -|[rCGH](problems.md#rcgh) |1.18.0 | | |2 | -|rclipboard |0.1.2 | | | | -|rco |1.0.1 | | | | -|rcrossref |1.0.0 | | | | -|RDML |1.0 | | | | -|reactable |0.1.0.1 | | | | -|reactlog |1.0.0 | | | | -|reactR |0.4.2 | | | | -|[recmap](problems.md#recmap) |1.0.7 | | |1 | -|[ReDaMoR](problems.md#redamor) |0.4.2 | | |1 | -|[RefNet](problems.md#refnet) |1.24.0 | |1 | | -|refund.shiny |0.3.0 | | | | -|regexSelect |1.0.0 | | | | -|[regressoR](problems.md#regressor) |1.1.8 | | |1 | -|Repliscope |1.1.0 | | | | -|repo |2.1.5 | | | | -|[ReportingTools](problems.md#reportingtools) |2.28.0 |1 | |1 | -|reprex |0.3.0 | | | | -|[reverseR](problems.md#reverser) |0.1 | | |1 | -|revtools |0.4.1 | | | | -|[Rfssa](problems.md#rfssa) |1.0.0 | | |1 | -|RGA |0.4.2 | | | | -|[rgl](problems.md#rgl) |0.100.54 | | |2 | -|[rhandsontable](problems.md#rhandsontable) |0.3.7 | | |1 | -|Rilostat |1.0.1 | | | | -|rintrojs |0.2.2 | | | | -|rivr |1.2-2 | | | | -|[RLumShiny](problems.md#rlumshiny) |0.2.2 | | |1 | -|[rmarkdown](problems.md#rmarkdown) |2.1 | | |1 | -|[rmd](problems.md#rmd) |0.1.5 | | |1 | -|[RnBeads](problems.md#rnbeads) |2.6.0 | | |7 | -|rnn |0.9.8 | | | | -|roadoi |0.6 | | | | -|robmed |0.6.0 | | | | -|[RobStatTM](problems.md#robstattm) |1.0.2 | | |1 | -|rPackedBar |0.2.2 | | | | -|[rpostgisLT](problems.md#rpostgislt) |0.6.0 | | |1 | -|rpredictit |0.0.2 | | | | -|[Rqc](problems.md#rqc) |1.22.0 | | |2 | -|[RQuantLib](problems.md#rquantlib) |0.4.12 |2 |1 | | -|rrtable |0.2.1 | | | | -|[rrvgo](problems.md#rrvgo) |1.0.0 | | |3 | -|RSCAT |1.1.0 | | | | -|rsconnect |0.8.16 | | | | -|[rskey](problems.md#rskey) |0.4.1 | | |1 | -|[rtimicropem](problems.md#rtimicropem) |1.4.0 | | |1 | -|rTRMui |1.26.0 | | | | -|[RtutoR](problems.md#rtutor) |1.2 | | |1 | -|rusk |0.1.1 | | | | -|ruv |0.9.7.1 | | | | -|rwalkr |0.5.2 | | | | -|[RxODE](problems.md#rxode) |0.9.2-0 | | |1 | -|sadists |0.2.3 | | | | -|[safetyGraphics](problems.md#safetygraphics) |1.1.0 | | |1 | -|samr |3.0 | | | | -|[sangerseqR](problems.md#sangerseqr) |1.24.0 | | |1 | -|sankeywheel |0.1.0 | | | | -|[santaR](problems.md#santar) |1.0 | | |1 | -|[SC3](problems.md#sc3) |1.16.0 | | |3 | -|scdhlm |0.3.2 | | | | -|[schex](problems.md#schex) |1.2.0 | | |1 | -|[scone](problems.md#scone) |1.12.0 | | |1 | -|sdcHierarchies |0.18.2 | | | | -|sdcMicro |5.5.1 | | | | -|[SDEFSR](problems.md#sdefsr) |0.7.21 | | |1 | -|sdm |1.0-89 | | | | -|[SEA](problems.md#sea) |1.0 | | |1 | -|searchConsoleR |0.4.0 | | | | -|seasonalview |0.3 | | | | -|semantic.dashboard |0.1.5 | | | | -|[semdrw](problems.md#semdrw) |0.1.0 | | |1 | -|[SemNeT](problems.md#semnet) |1.2.0 | | |1 | -|sen2r |1.3.4 | | | | -|[seqplots](problems.md#seqplots) |1.26.0 | | |4 | -|serieslcb |0.4.0 | | | | -|[sglr](problems.md#sglr) |0.7 | | |2 | -|SHELF |1.7.0 | | | | -|shiny.info |0.2.0 | | | | -|[shiny.router](problems.md#shinyrouter) |0.1.1 | | |1 | -|[shiny.semantic](problems.md#shinysemantic) |0.3.0 | | |1 | -|[shinyAce](problems.md#shinyace) |0.4.1 | | |1 | -|[shinyaframe](problems.md#shinyaframe) |1.0.1 | | |1 | -|shinyalert |1.1 | | | | -|shinyanimate |0.3.0 | | | | -|shinybootstrap2 |0.2.1 | | | | -|[shinybrms](problems.md#shinybrms) |1.0.1 | | |1 | -|[shinyBS](problems.md#shinybs) |0.61 | | |1 | -|shinybusy |0.2.0 | | | | -|shinycssloaders |0.3 | | | | -|shinycustomloader |0.9.0 | | | | -|shinydashboard |0.7.1 | | | | -|shinydashboardPlus |0.7.0 | | | | -|shinyDND |0.1.0 | | | | -|[shinyEffects](problems.md#shinyeffects) |0.1.0 | | |1 | -|shinyEventLogger |0.1.1 | | | | -|shinyFeedback |0.2.0 | | | | -|shinyFiles |0.8.0 | | | | -|shinyglide |0.1.2 | | | | -|shinyHeatmaply |0.2.0 | | | | -|[shinyhelper](problems.md#shinyhelper) |0.3.2 | | |1 | -|ShinyImage |0.1.0 | | | | -|[ShinyItemAnalysis](problems.md#shinyitemanalysis) |1.3.3 | | |2 | -|shinyjqui |0.3.3 | | | | -|[shinyjs](problems.md#shinyjs) |1.1 | | |1 | -|[shinyKGode](problems.md#shinykgode) |1.0.5 | | |1 | -|shinyKnobs |0.1.3 | | | | -|shinylogs |0.1.7 | | | | -|shinyLP |1.1.2 | | | | -|shinymanager |1.0.200 | | | | -|shinymaterial |1.0.1 | | | | -|shinyMatrix |0.3.0 | | | | -|[shinyMethyl](problems.md#shinymethyl) |1.24.0 |1 | | | -|shinyML |0.2.0 | | | | -|shinyMobile |0.1.0 | | | | -|shinyMolBio |0.2 | | | | -|shinyNotes |0.0.1 | | | | -|[shinypanels](problems.md#shinypanels) |0.5.0 | | |1 | -|[shinyr](problems.md#shinyr) |0.2.6 | | |1 | -|[shinyrecap](problems.md#shinyrecap) |0.1.0 | | |1 | -|shinyrecipes |0.1.0 | | | | -|shinyRGL |0.1.0 | | | | -|shinySIR |0.1.1 | | | | -|shinystan |2.5.0 | | | | -|[shinyTANDEM](problems.md#shinytandem) |1.26.0 |1 | | | -|shinytest |1.3.1 | | | | -|shinythemes |1.1.2 | | | | -|shinyTime |1.0.1 | | | | -|shinytoastr |2.1.1 | | | | -|shinyTree |0.2.7 | | | | -|shinyWidgets |0.5.1 | | | | -|shinyypr |0.0.2 | | | | -|shotGroups |0.7.5.1 | | | | -|[sigmajs](problems.md#sigmajs) |0.1.3 | | |1 | -|sigmaNet |1.1.0 | | | | -|signalHsmm |1.5 | | | | -|[SimDesign](problems.md#simdesign) |2.0.1 | | |1 | -|simglm |0.7.4 | | | | -|[simplevis](problems.md#simplevis) |1.1.2 | | |1 | -|simrel |2.0.2 | | | | -|sinew |0.3.8 | | | | -|SingleCaseES |0.4.3 | | | | -|[singleCellTK](problems.md#singlecelltk) |1.8.0 | | |4 | -|[skpr](problems.md#skpr) |0.64.2 | | |2 | -|SMITIDvisu |0.0.6 | | | | -|snahelper |1.1.0 | | | | -|[soc.ca](problems.md#socca) |0.7.3 | | |1 | -|Sofi |0.16.4.8 | | | | -|[soilcarbon](problems.md#soilcarbon) |1.2.0 | | |2 | -|[sojourner](problems.md#sojourner) |1.2.0 |1 | | | -|solvebio |2.7.2 | | | | -|SOMbrero |1.2-5 | | | | -|sortable |0.4.2 | | | | -|[soundgen](problems.md#soundgen) |1.6.2 | | |1 | -|[SpaDES.addins](problems.md#spadesaddins) |0.1.2 | | |1 | -|Spaniel |1.2.0 | | | | -|spANOVA |0.99.2 | | | | -|[spant](problems.md#spant) |1.1.0 | | |1 | -|sparkline |2.0 | | | | -|[sparklyr](problems.md#sparklyr) |1.2.0 | | |1 | -|[sparkTable](problems.md#sparktable) |1.3.0 | | |1 | -|SpatialCPie |1.4.0 | | | | -|[SpatialEpiApp](problems.md#spatialepiapp) |0.3 | | |2 | -|SpNetPrep |1.1 | | | | -|spotGUI |0.2.1 | | | | -|SqlRender |1.6.5 | | | | -|squid |0.1.2 | | | | -|[SSDM](problems.md#ssdm) |0.2.8 | | |1 | -|[ssrch](problems.md#ssrch) |1.4.0 | | |2 | -|[sstModel](problems.md#sstmodel) |1.0.0 | | |1 | -|[STAT](problems.md#stat) |0.1.0 | | |1 | -|statnetWeb |0.5.5 | | | | -|statsr |0.2.0 | | | | -|[steemr](problems.md#steemr) |0.1.3 | | |1 | -|StereoMorph |1.6.3 | | | | -|stmgui |0.1.6 | | | | -|[stminsights](problems.md#stminsights) |0.3.0 | | |1 | -|[STMotif](problems.md#stmotif) |2.0.0 | | |1 | -|StratigrapheR |1.0.1 | | | | -|[subscreen](problems.md#subscreen) |2.0.1 | | |1 | -|SubVis |2.0.2 | | | | -|swirlify |0.5.3 | | | | -|synthACS |1.5.7 | | | | -|[tableHTML](problems.md#tablehtml) |2.0.0 | | |2 | -|[tablerDash](problems.md#tablerdash) |0.1.0 | | |1 | -|tabulizer |0.2.2 | | | | -|taipan |0.1.2 | | | | -|target |1.2.0 | | | | -|[TAShiny](problems.md#tashiny) |0.1.0 | | |1 | -|[TBSignatureProfiler](problems.md#tbsignatureprofiler) |1.0.0 | | |1 | -|[TCGAbiolinksGUI](problems.md#tcgabiolinksgui) |1.14.0 | | |3 | -|teachingApps |1.0.4 | | | | -|[tenXplore](problems.md#tenxplore) |1.10.0 | | |1 | -|[TestDesign](problems.md#testdesign) |1.0.2 | | |1 | -|[testextra](problems.md#testextra) |0.1.0.1 | | |1 | -|[texPreview](problems.md#texpreview) |1.4.4 | | |1 | -|[TFutils](problems.md#tfutils) |1.8.0 |1 |1 |4 | -|themetagenomics |1.0.2 | | | | -|threeBrain |0.1.5 | | | | -|tidycells |0.2.2 | | | | -|tidycwl |1.0.4 | | | | -|tidyvpc |1.0.0 | | | | -|tigerstats |0.3 | | | | -|[timeline](problems.md#timeline) |0.9 | | |2 | -|[timeseriesdb](problems.md#timeseriesdb) |0.4.1 | | |1 | -|[timevis](problems.md#timevis) |0.5 | | |1 | -|tippy |0.0.1 | | | | -|tmap |3.0 | | | | -|[tmaptools](problems.md#tmaptools) |3.0 | | |1 | -|TnT |1.10.0 | | | | -|toxEval |1.1.0 | | | | -|trackdem |0.5.2 | | | | -|[trackeRapp](problems.md#trackerapp) |1.1 | | |1 | -|trackr |0.10.6 | | | | -|trade |0.5.4 | | | | -|treemap |2.4-2 | | | | -|TreeSearch |0.4.0 | | | | -|[treespace](problems.md#treespace) |1.1.3.2 | | |1 | -|TreeTools |0.1.4 | | | | -|Trendy |1.10.0 | | | | -|tricolore |1.2.2 | | | | -|[TSCAN](problems.md#tscan) |1.26.0 | | |1 | -|tsviz |0.1.0 | | | | -|[ttestshiny](problems.md#ttestshiny) |0.1.0 | | |1 | -|[TVTB](problems.md#tvtb) |1.14.0 | | |1 | -|[twoddpcr](problems.md#twoddpcr) |1.12.0 | | |1 | -|[TxRegInfra](problems.md#txreginfra) |1.8.0 | | |5 | -|[ubiquity](problems.md#ubiquity) |1.0.1 | | |1 | -|[UCSCXenaShiny](problems.md#ucscxenashiny) |0.4.0 | | |2 | -|UCSCXenaTools |1.3.1 | | | | -|[Ularcirc](problems.md#ularcirc) |1.6.0 |1 | | | -|Umatrix |3.3 | | | | -|[ursa](problems.md#ursa) |3.8.19 | | |1 | -|[VariantFiltering](problems.md#variantfiltering) |1.24.0 |1 | |4 | -|[VarSelLCM](problems.md#varsellcm) |2.1.3 | | |1 | -|[vdiffr](problems.md#vdiffr) |0.3.1 | | |1 | -|vegawidget |0.3.1 | | | | -|vici |0.5.2 | | | | -|VineCopula |2.3.0 | | | | -|[viromeBrowser](problems.md#viromebrowser) |1.0.0 | | |1 | -|[visit](problems.md#visit) |2.1 | | |2 | -|[visNetwork](problems.md#visnetwork) |2.0.9 | | |1 | -|vistributions |0.1.1 | | | | -|visvow |0.8.0 | | | | -|voronoiTreemap |0.2.0 | | | | -|VOSONDash |0.5.1 | | | | -|vov |0.1.0 | | | | -|vtree |4.0.0 | | | | -|[VTShiny](problems.md#vtshiny) |0.1.0 | | |1 | -|VWPre |1.2.3 | | | | -|[waiter](problems.md#waiter) |0.1.0 | | |1 | -|[wallace](problems.md#wallace) |1.0.6.2 | | |1 | -|[webr](problems.md#webr) |0.1.5 | | |1 | -|webshot |0.5.2 | | | | -|weco |1.2 | | | | -|weightr |2.0.2 | | | | -|[wilson](problems.md#wilson) |2.3.1 | | |1 | -|wiqid |0.2.3 | | | | -|[wiseR](problems.md#wiser) |1.0.1 | | |2 | -|workflowr |1.6.2 | | | | -|wppExplorer |2.3-4 | | | | -|[wTO](problems.md#wto) |1.6.3 | | |1 | -|xplorerr |0.1.1 | | | | -|[xROI](problems.md#xroi) |0.9.13 | |1 | | -|[ymlthis](problems.md#ymlthis) |0.1.2 | | |1 | -|yonder |0.2.0 | | | | -|[yuimaGUI](problems.md#yuimagui) |1.3.0 | | |1 | -|zooimage |5.5.2 | | | | -|zscorer |0.3.1 | | | | +|package |version |error |warning |note | +|:------------------------------------------------------------------------|:----------|:------|:-------|:--------| +|[aaSEA](problems.md#aasea) |1.1.0 | | |1 | +|ABACUS |1.0.0 | | | | +|abstractr |0.1.0 | | | | +|[ADAMgui](problems.md#adamgui) |1.4.0 | | |2 | +|[adapr](problems.md#adapr) |2.0.0 | | |1 | +|AdaptGauss |1.5.6 | | | | +|adaptiveGPCA |0.1.2 | | | | +|addinslist |0.3 | | | | +|addinsOutline |0.1.6 | | | | +|[adegenet](problems.md#adegenet) |2.1.3 | | |1 | +|[adepro](problems.md#adepro) |3.0.0 | | |1 | +|adespatial |0.3-8 | | | | +|[AdhereRViz](problems.md#adhererviz) |0.1.0 | | |1 | +|AFheritability |0.1.0 | | | | +|AFM |1.2.6 | | | | +|ahp |0.2.12 | | | | +|airGRteaching |0.2.8.69 | | | | +|[alevinQC](problems.md#alevinqc) |1.4.0 | | |1 | +|AMModels |0.1.4 | | | | +|AmpGram |1.0 | | | | +|[AMPLE](problems.md#ample) |0.0.2 | | |1 | +|AmyloGram |1.1 | | | | +|[analysisPipelines](problems.md#analysispipelines) |1.0.2 | | |1 | +|[animalcules](problems.md#animalcules) |1.4.0 |-1 | |4 | +|[animaltracker](problems.md#animaltracker) |0.1.0 | | |1 | +|[animint2](problems.md#animint2) |2019.7.3 |2 | |2 | +|aniview |0.1.0 | | | | +|[ANOVAIREVA](problems.md#anovaireva) |0.1.0 | | |1 | +|ANOVAreplication |1.1.4 | | | | +|[ANOVAShiny](problems.md#anovashiny) |0.1.0 | | |1 | +|antaresRead |2.2.5 | | | | +|antaresViz |0.15.2 | | | | +|AnthropMMD |3.0.1 | | | | +|[antitrust](problems.md#antitrust) |0.99.11 | | |1 | +|aos |0.1.0 | | | | +|[apexcharter](problems.md#apexcharter) |0.1.4 | | |1 | +|[appreci8R](problems.md#appreci8r) |1.6.0 |1 | | | +|[ArchaeoPhases](problems.md#archaeophases) |1.4.5 | | |1 | +|archivist |2.3.4 | | | | +|[arena2r](problems.md#arena2r) |1.0.0 | | |1 | +|argonDash |0.2.0 | | | | +|argonR |0.2.0 | | | | +|ARPobservation |1.2.0 | | | | +|arulesViz |1.3-3 | | | | +|asciiSetupReader |2.3.1 | | | | +|[ASSOCShiny](problems.md#assocshiny) |0.1.0 | | |1 | +|[AUCell](problems.md#aucell) |1.10.0 | | |4 | +|auth0 |0.2.1 | | | | +|AutoDeskR |0.1.3 | | | | +|autoshiny |0.0.2 | | | | +|[autoTS](problems.md#autots) |0.9.11 | | |1 | +|AzureAuth |1.2.4 | | | | +|azuremlsdk |0.6.85 | | | | +|backpipe |0.2.3 | | | | +|bairt |0.1.2 | | | | +|baRcodeR |0.1.5 | | | | +|[BARIS](problems.md#baris) |1.1.1 | | |1 | +|basictabler |0.3.1 | | | | +|[BatchQC](problems.md#batchqc) |1.16.0 |1 | |1 | +|[BayesBD](problems.md#bayesbd) |1.2 |1 | | | +|BayesianFROC |0.2.3 | | | | +|[BayesianNetwork](problems.md#bayesiannetwork) |0.1.5 | | |1 | +|[BayesNetBP](problems.md#bayesnetbp) |1.5.2 | | |1 | +|[BBEST](problems.md#bbest) |0.1-6 |1 | | | +|[BCEA](problems.md#bcea) |2.3-1.1 | | |1 | +|[bdchecks](problems.md#bdchecks) |0.1.7 | | |1 | +|[bdclean](problems.md#bdclean) |0.1.15 | | |1 | +|bdDwC |0.1.15 | | | | +|[bde](problems.md#bde) |1.0.1 | | |1 | +|BDEsize |1.2 | | | | +|BDP2 |0.1.3 | | | | +|[bea.R](problems.md#bear) |1.0.6 | | |1 | +|BEACH |1.3.1 | | | | +|[beanz](problems.md#beanz) |2.4 | | |3 | +|beats |0.1.1 | | | | +|[bestSDP](problems.md#bestsdp) |0.1.2 | | |1 | +|[BETS](problems.md#bets) |0.4.9 | |2 |1 | +|[bibliometrix](problems.md#bibliometrix) |3.0.2 | | |1 | +|BIGL |1.4.3 | | | | +|[bigPint](problems.md#bigpint) |1.4.0 | | |1 | +|[bigQueryR](problems.md#bigqueryr) |0.5.0 | | |1 | +|[billboarder](problems.md#billboarder) |0.2.8 | | |1 | +|[binovisualfields](problems.md#binovisualfields) |0.1.1 | | |1 | +|[bioCancer](problems.md#biocancer) |1.16.0 | |1 |2 | +|[BiocOncoTK](problems.md#bioconcotk) |1.8.0 |1 | |3 | +|[BioInstaller](problems.md#bioinstaller) |0.3.7 | | |1 | +|[BioNetStat](problems.md#bionetstat) |1.8.4 | | |4 | +|[BIRDS](problems.md#birds) |0.1 | | |2 | +|[biva](problems.md#biva) |0.1.0 | | |1 | +|[blkbox](problems.md#blkbox) |1.0 | | |2 | +|[blockCV](problems.md#blockcv) |2.1.1 | | |1 | +|blogdown |0.19 | | | | +|[BLRShiny](problems.md#blrshiny) |0.1.0 | | |1 | +|bookdown |0.19 | | | | +|bpbounds |0.1.4 | | | | +|bridger2 |0.1.0 | | | | +|bs4Dash |0.5.0 | | | | +|bSims |0.2-1 | | | | +|[bsplus](problems.md#bsplus) |0.1.1 |__+1__ | |1 | +|bullwhipgame |0.1.0 | | | | +|bunchr |1.2.0 | | | | +|bupaR |0.4.4 | | | | +|[caffsim](problems.md#caffsim) |0.2.2 | | |1 | +|CamelUp |0.1.1 | | | | +|[canvasXpress](problems.md#canvasxpress) |1.27.6-1 | | |1 | +|[CaPO4Sim](problems.md#capo4sim) |0.1.0 | | |1 | +|[cartools](problems.md#cartools) |0.1.0 | | |1 | +|causaloptim |0.7.1 | | | | +|cbsodataR |0.4.1 | | | | +|[ChAMP](problems.md#champ) |2.18.2 |1 | | | +|ChannelAttributionApp |1.2 | | | | +|cheatR |1.2.1 | | | | +|[CHETAH](problems.md#chetah) |1.4.0 | | |2 | +|[chipPCR](problems.md#chippcr) |0.0.8-10 | | |1 | +|[chromoMap](problems.md#chromomap) |0.2 | | |1 | +|chromVAR |1.10.0 | | | | +|[cicerone](problems.md#cicerone) |1.0.1 | | |1 | +|Cite |0.1.0 | | | | +|citr |0.3.2 | | | | +|[cjoint](problems.md#cjoint) |2.1.0 | | |2 | +|CLME |2.0-12 | | | | +|[clustDRM](problems.md#clustdrm) |0.1-0 | | |1 | +|[CLUSTShiny](problems.md#clustshiny) |0.1.0 | | |1 | +|cmsaf |2.0.1 |-1 | | | +|[CMShiny](problems.md#cmshiny) |0.1.0 | | |1 | +|cNORM |1.2.3 | | | | +|[CNVPanelizer](problems.md#cnvpanelizer) |1.20.0 | | |1 | +|CNVScope |3.0.9 | | | | +|[cocktailApp](problems.md#cocktailapp) |0.2.1 | | |1 | +|[codebook](problems.md#codebook) |0.9.2 | | |2 | +|[cognitoR](problems.md#cognitor) |1.0.1 | | |1 | +|colocr |0.1.1 | | | | +|colorspace |1.4-1 | | | | +|colourpicker |1.0 | | | | +|compareGroups |4.4.1 | | | | +|[COMPASS](problems.md#compass) |1.26.0 | | |3 | +|[competitiontoolbox](problems.md#competitiontoolbox) |0.1.2 | | |1 | +|complexity |1.1.1 | | | | +|condformat |0.9.0 | | | | +|condir |0.1.2 | | | | +|condvis |0.5-1 | | | | +|condvis2 |0.1.0 | | | | +|[conflr](problems.md#conflr) |0.1.1 | | |1 | +|convertr |0.1 | | | | +|[CoRegNet](problems.md#coregnet) |1.26.0 | |1 |2 | +|[corporaexplorer](problems.md#corporaexplorer) |0.8.2 | | |1 | +|[cosinor](problems.md#cosinor) |1.1 | | |1 | +|countfitteR |1.0 | | | | +|[coveffectsplot](problems.md#coveffectsplot) |0.0.9 | | |1 | +|[CRANsearcher](problems.md#cransearcher) |1.0.0 | | |1 | +|[crawl](problems.md#crawl) |2.2.1 | | |1 | +|credsubs |1.1.0 | | | | +|[crispRdesignR](problems.md#crisprdesignr) |1.1.5 | | |1 | +|[crisprseekplus](problems.md#crisprseekplus) |1.14.0 | | |1 | +|cromwellDashboard |0.5.1 | | | | +|cronR |0.4.0 | | | | +|[CrossICC](problems.md#crossicc) |1.2.0 | | |1 | +|[crossmeta](problems.md#crossmeta) |1.14.0 | |1 |2 | +|crosstalk |1.1.0.1 | | | | +|crunchy |0.3.1 | | | | +|[CSUV](problems.md#csuv) |0.1.0 |1 | | | +|[CTAShiny](problems.md#ctashiny) |0.1.0 | | |1 | +|[ctsem](problems.md#ctsem) |3.2.1 | | |3 | +|ctsGE |1.14.0 | | | | +|[CTShiny](problems.md#ctshiny) |0.1.0 | | |1 | +|CTTinShiny |0.1.0 | | | | +|CTTShiny |0.1 | | | | +|cubeview |0.2.0 | | | | +|[CVE](problems.md#cve) |1.11.2 |1 |1 |2 | +|cydar |1.12.0 | | | | +|CytobankAPIstats |2.0 | | | | +|d3heatmap |0.6.1.2 | | | | +|[d3Tree](problems.md#d3tree) |0.2.0 | | |1 | +|daqapo |0.3.0 | | | | +|[datacheck](problems.md#datacheck) |1.2.2 | | |2 | +|[datadigest](problems.md#datadigest) |1.0.2 | | |1 | +|[dataesgobr](problems.md#dataesgobr) |1.0.0 | | |1 | +|datamaps |0.0.3 | | | | +|datasets.load |1.4.0 | | | | +|daterangepicker |0.1.0 | | | | +|dccvalidator |0.2.0 | | | | +|ddpcr |1.15 | | | | +|[debrowser](problems.md#debrowser) |1.16.1 | | |1 | +|deepdep |0.2.1 | | | | +|deisotoper |0.0.7 | | | | +|[delayed](problems.md#delayed) |0.3.0 | | |1 | +|demoShiny |0.1 | | | | +|[DEP](problems.md#dep) |1.10.0 | | |1 | +|[detzrcr](problems.md#detzrcr) |0.3.0 | | |1 | +|dextergui |0.2.2 | | | | +|diffr |0.1 | | | | +|dipsaus |0.0.7 | | | | +|[DiscoRhythm](problems.md#discorhythm) |1.4.0 | | |2 | +|discoveR |1.2.4 | | | | +|disk.frame |0.3.6 | | | | +|distcomp |1.1 | | | | +|distill |0.8 | | | | +|distreg.vis |1.7.0 | | | | +|Distributacalcul |0.2.2 | | | | +|[diveRsity](problems.md#diversity) |1.9.90 | | |1 | +|DIZutils |0.0.4 | | | | +|[DLMtool](problems.md#dlmtool) |5.4.5 | | |1 | +|dmdScheme |1.2 | | | | +|[Doscheda](problems.md#doscheda) |1.10.0 | | |1 | +|[dosedesignR](problems.md#dosedesignr) |0.2.4 | | |1 | +|dpcR |0.5 | | | | +|[dplyrAssist](problems.md#dplyrassist) |0.1.0 | | |1 | +|dqshiny |0.0.4 | | | | +|[dragon](problems.md#dragon) |0.2.1 | | |1 | +|dragulaR |0.3.1 | | | | +|DRomics |2.0-1 | | | | +|[dropR](problems.md#dropr) |0.1 | | |1 | +|DSAIDE |0.8.3 | | | | +|DSAIRM |0.8.2 | | | | +|DT |0.13 | | | | +|DTAT |0.3-4 | | | | +|[dtwclust](problems.md#dtwclust) |5.5.6 | | |1 | +|[DVHmetrics](problems.md#dvhmetrics) |0.3.10 | | |1 | +|[dynamichazard](problems.md#dynamichazard) |0.6.6 | | |1 | +|DynNom |5.0.1 | | | | +|Eagle |2.2 | | | | +|eAnalytics |0.1.4 | | | | +|easySdcTable |0.5.0 | | | | +|[EBImage](problems.md#ebimage) |4.30.0 | |1 |1 | +|ECharts2Shiny |0.2.13 | | | | +|echarts4r |0.3.2 | | | | +|edeaR |0.8.5 | | | | +|edgebundleR |0.1.4 | | | | +|editData |0.1.2 | | | | +|eechidna |1.4.0 | | | | +|eemR |1.0.1 | | | | +|EffectLiteR |0.4-4 | | | | +|[effectR](problems.md#effectr) |1.0.2 | | |1 | +|egor |0.20.06 | | | | +|einet |0.1.0 | | | | +|elaborator |1.0 | | | | +|[elementR](problems.md#elementr) |1.3.6 |1 | | | +|[embryogrowth](problems.md#embryogrowth) |7.6 | | |1 | +|[EML](problems.md#eml) |2.0.2 | | |1 | +|EMMAgeo |0.9.7 | | | | +|EMSaov |2.3 | | | | +|emuR |2.1.0 | | | | +|[ENCODExplorer](problems.md#encodexplorer) |2.14.0 | | |1 | +|[enviGCMS](problems.md#envigcms) |0.6.6 | | |1 | +|enviPick |1.5 | | | | +|[epicontacts](problems.md#epicontacts) |1.1.0 | | |1 | +|epimdr |0.6-5 | | | | +|EpiModel |1.8.0 | | | | +|[EpiSignalDetection](problems.md#episignaldetection) |0.1.1 | | |1 | +|[epivizrChart](problems.md#epivizrchart) |1.10.0 | | |2 | +|eq5d |0.7.1 | | | | +|[erma](problems.md#erma) |1.4.0 | | |2 | +|ERSA |0.1.1 | | | | +|eSDM |0.3.4 | | | | +|eseis |0.5.0 | | | | +|esquisse |0.3.0 | | | | +|EurosarcBayes |1.1 | | | | +|evaluator |0.4.2 | | | | +|EventDetectGUI |0.3.0 | | | | +|[EventStudy](problems.md#eventstudy) |0.36 | | |2 | +|evobiR |1.1 | | | | +|excelR |0.4.0 | | | | +|ExPanDaR |0.5.1 | | | | +|explor |0.3.6 | | | | +|explore |0.5.5 | | | | +|ExploreModelMatrix |1.0.1 | | | | +|[ezplot](problems.md#ezplot) |0.6.1 | | |1 | +|Factoshiny |2.2 | | | | +|fanplot |3.4.2 | | | | +|[farrell](problems.md#farrell) |0.2.0 | | |1 | +|[FastqCleaner](problems.md#fastqcleaner) |1.6.0 | | |2 | +|[FELLA](problems.md#fella) |1.8.0 |1 | |1 | +|findviews |0.1.3 | | | | +|fingertipsR |1.0.4 | | | | +|[firebase](problems.md#firebase) |0.1.0 | | |1 | +|[fitteR](problems.md#fitter) |0.1.0 | | |1 | +|[fitur](problems.md#fitur) |0.6.1 | | |1 | +|flacco |1.8 | | | | +|[flair](problems.md#flair) |0.0.2 | | |1 | +|flexdashboard |0.5.1.1 | | | | +|[flora](problems.md#flora) |0.3.4 | | |1 | +|[flowAI](problems.md#flowai) |1.18.2 | | |1 | +|[flowcatchR](problems.md#flowcatchr) |1.22.0 | | |2 | +|flowPloidy |1.14.0 | | | | +|formatR |1.7 | | | | +|formattable |0.2.0.1 | | | | +|[frailtypack](failures.md#frailtypack) |3.3.0 |1 | | | +|FreqProf |0.0.1 | | | | +|frequency |0.4.0 | | | | +|fresh |0.2.0 | | | | +|[FSK2R](problems.md#fsk2r) |0.1.1 |1 | | | +|[FunChIP](problems.md#funchip) |1.14.0 |1 | | | +|FuzzyR |2.3 | | | | +|G2Sd |2.1.5 | | | | +|[g3viz](problems.md#g3viz) |1.1.2 | | |1 | +|[GA4GHshiny](problems.md#ga4ghshiny) |1.10.0 |1 | |1 | +|[gamesGA](problems.md#gamesga) |1.1.3.7 | | |1 | +|[gastempt](problems.md#gastempt) |0.5.0 | | |3 | +|gazepath |1.3 | | | | +|[GDCRNATools](problems.md#gdcrnatools) |1.8.0 | | |3 | +|GDINA |2.8.0 | | | | +|genBaRcode |1.2.3 | | | | +|[genBart](problems.md#genbart) |1.0.1 | | |1 | +|[GeneNetworkBuilder](problems.md#genenetworkbuilder) |1.30.0 | | |1 | +|GeneralizedUmatrix |1.1.9 | | | | +|[GenEst](problems.md#genest) |1.4.4 | | |1 | +|[GeneTonic](problems.md#genetonic) |1.0.1 | | |2 | +|genogeographer |0.1.19 | | | | +|[GenomicScores](problems.md#genomicscores) |2.0.0 |1 | |4 | +|genTS |0.1.3 | | | | +|geodrawr |1.0.1 | | | | +|[GerminaR](problems.md#germinar) |1.4.2 | | |1 | +|gestate |1.4.0 | | | | +|getTBinR |0.7.1 | | | | +|gfonts |0.1.1 | | | | +|[ggedit](problems.md#ggedit) |0.3.1 | | |1 | +|[ggExtra](problems.md#ggextra) |0.9 | | |1 | +|ggiraph |0.7.0 | | | | +|[ggplotAssist](problems.md#ggplotassist) |0.1.3 | | |1 | +|ggplotgui |1.0.0 | | | | +|[ggquickeda](problems.md#ggquickeda) |0.1.6 | | |1 | +|ggraptR |1.2 | | | | +|ggThemeAssist |0.1.5 | | | | +|ggvis |0.4.5 | | | | +|gimmeTools |0.1 | | | | +|giphyr |0.2.0 | | | | +|gitgadget |0.5.2 | | | | +|gitlabr |1.1.6 | | | | +|gitlink |0.1.3 | | | | +|glmaag |0.0.6 | | | | +|GMCM |1.4 | | | | +|[gmDatabase](problems.md#gmdatabase) |0.5.0 | |2 |1 | +|[GmicR](problems.md#gmicr) |1.2.0 | | |3 | +|GMSE |0.6.0.4 | | | | +|[GOFShiny](problems.md#gofshiny) |0.1.0 | | |1 | +|golem |0.2.1 | | | | +|googleAnalyticsR |0.7.1 | | | | +|googleAuthR |1.3.0 | | | | +|googleCloudRunner |0.2.0 | | | | +|googleLanguageR |0.3.0 | | | | +|googleVis |0.6.5 | | | | +|googleway |2.7.1 | | | | +|[GPA](problems.md#gpa) |1.0.0 | | |1 | +|GPoM.FDLyapu |1.0 | | | | +|[gQTLstats](problems.md#gqtlstats) |1.20.0 | | |4 | +|gradientPickerD3 |0.1.0.0 | | | | +|[gravitas](problems.md#gravitas) |0.1.2 |2 | | | +|[gridsampler](problems.md#gridsampler) |0.6 | | |1 | +|[GSCA](problems.md#gsca) |2.17.0 | | |3 | +|GSVA |1.36.2 | | | | +|[gt](problems.md#gt) |0.2.1 | | |2 | +|guiplot |0.1.0 | | | | +|[gwdegree](problems.md#gwdegree) |0.1.1 | | |1 | +|GWSDAT |3.0.3 | | | | +|[HaDeX](problems.md#hadex) |1.2.1 | | |2 | +|HARtools |0.0.5 | | | | +|[hchinamap](problems.md#hchinamap) |0.1.0 | | |1 | +|HelpersMG |4.2 | | | | +|HH |3.1-40 | | | | +|[highcharter](problems.md#highcharter) |0.7.0 | | |1 | +|highlightHTML |0.2.5 | | | | +|hpackedbubble |0.1.0 | | | | +|hR |0.2.1 | | | | +|[HumanTranscriptomeCompendium](problems.md#humantranscriptomecompendium) |1.4.0 |2 | | | +|[hwordcloud](problems.md#hwordcloud) |0.1.0 | | |1 | +|iAdapt |0.1.0 | | | | +|iCellR |1.5.1 | | | | +|iCOBRA |1.16.0 | | | | +|ICSShiny |0.5 | | | | +|[ideal](problems.md#ideal) |1.12.1 | | |1 | +|[idefix](problems.md#idefix) |0.4.3 | | |1 | +|[idem](problems.md#idem) |5.0 | | |2 | +|ifaTools |0.21 | | | | +|igraphinshiny |0.1 | | | | +|iheatmapr |0.4.12 | | | | +|imagefluency |0.2.3 | | | | +|Imetagene |1.18.0 | | | | +|[immunarch](problems.md#immunarch) |0.6.5 | | |2 | +|IMP |1.1 | | | | +|ImportExport |1.1 | | | | +|[IMWatson](problems.md#imwatson) |0.5.0 | | |1 | +|[IncucyteDRC](problems.md#incucytedrc) |0.5.4 |1 | | | +|[INDperform](problems.md#indperform) |0.2.2 |2 | |1 | +|inferr |0.3.0 | | | | +|[inlabru](problems.md#inlabru) |2.1.13 | | |2 | +|[INSPEcT](problems.md#inspect) |1.18.0 | | |2 | +|[interactiveDisplay](problems.md#interactivedisplay) |1.26.0 | |1 |2 | +|interactiveDisplayBase |1.26.3 | | | | +|[interAdapt](problems.md#interadapt) |0.1 | | |2 | +|interimApp |0.0.1 | | | | +|[IOHanalyzer](problems.md#iohanalyzer) |0.1.3 | | |2 | +|ioncopy |2.1.1 | | | | +|ipc |0.1.3 | | | | +|ipumsr |0.4.4 | | | | +|irtDemo |0.1.4 | | | | +|IRTShiny |1.2 | | | | +|[iSEE](problems.md#isee) |2.0.0 |2 | |2 | +|[iSEEu](problems.md#iseeu) |1.0.1 |2 | | | +|[iSTATS](problems.md#istats) |1.4 | | |1 | +|[ivygapSE](problems.md#ivygapse) |1.10.0 | | |2 | +|JMbayes |0.8-85 | | | | +|JointNets |2.0.1 | | | | +|[jpmesh](problems.md#jpmesh) |1.2.1 | | |1 | +|[jpndistrict](problems.md#jpndistrict) |0.3.7 | | |1 | +|[jsmodule](problems.md#jsmodule) |1.0.8 | | |1 | +|KappaGUI |2.0.2 | | | | +|KCSKNNShiny |0.1.0 | | | | +|KCSNBShiny |0.1.0 | | | | +|kgc |1.0.0.2 | | | | +|kgschart |1.3.5 | | | | +|[KNNShiny](problems.md#knnshiny) |0.1.0 | | |1 | +|[kokudosuuchi](problems.md#kokudosuuchi) |0.4.2 | | |1 | +|[koRpus](problems.md#korpus) |0.11-5 | | |1 | +|lavaan.shiny |1.2 | | | | +|LBSPR |0.1.5 | | | | +|lcars |0.3.1 | | | | +|lcsm |0.1.1 | | | | +|LDAvis |0.3.2 | | | | +|leaflet |2.0.3 | | | | +|[leaflet.extras2](problems.md#leafletextras2) |1.0.0 | | |1 | +|leaflet.minicharts |0.6.0 | | | | +|learnr |0.10.1 | | | | +|[learnstats](problems.md#learnstats) |0.1.1 | | |1 | +|[levi](problems.md#levi) |1.6.0 | | |2 | +|lifelogr |0.1.0 | | | | +|lightsout |0.3 | | | | +|[likert](problems.md#likert) |1.3.5 | | |1 | +|lime |0.5.1 | | | | +|linguisticsdown |1.2.0 | | | | +|linkspotter |1.2.0 | | | | +|linpk |1.0 | | | | +|listviewer |3.0.0 | | | | +|[live](problems.md#live) |1.5.13 | | |1 | +|[lmviz](problems.md#lmviz) |0.1.2 | | |1 | +|manipulateWidget |0.10.1 | | | | +|[mapdeck](problems.md#mapdeck) |0.3.3 | | |1 | +|[mapedit](problems.md#mapedit) |0.6.0 | | |1 | +|markdownInput |0.1.2 | | | | +|matman |1.1.0 | | | | +|MAVIS |1.1.3 | | | | +|MazamaSpatialUtils |0.6.4 | | | | +|MCPModPack |0.2 |-1 | | | +|mcvis |1.0.4 | | | | +|[MDSPCAShiny](problems.md#mdspcashiny) |0.1.0 | | |1 | +|meltt |0.4.1 | | | | +|[memapp](problems.md#memapp) |2.13 | | |1 | +|[memery](problems.md#memery) |0.5.2 | | |1 | +|merTools |0.5.0 | | | | +|[meta4diag](problems.md#meta4diag) |2.0.8 | | |1 | +|MetaAnalyser |0.2.1 | | | | +|metamer |0.2.0 | | | | +|metathis |1.0.2 | | | | +|[MetCirc](problems.md#metcirc) |1.18.0 | | |2 | +|[MethylAid](problems.md#methylaid) |1.22.0 |2 | |1 | +|[methylGSA](problems.md#methylgsa) |1.6.1 | | |1 | +|metricsgraphics |0.9.0 | | | | +|[mgcViz](problems.md#mgcviz) |0.1.6 | | |1 | +|[microhaplot](problems.md#microhaplot) |1.0.1 | | |1 | +|microsamplingDesign |1.0.7 | | | | +|midas |1.0.1 | | | | +|MIMSunit |0.9.1 | | | | +|[miniMeta](problems.md#minimeta) |0.2 | | |1 | +|miniUI |0.1.1.1 | | | | +|[miRcomp](problems.md#mircomp) |1.18.0 | |1 | | +|mirt |1.32.1 | | | | +|mirtCAT |1.9.3 | | | | +|[MLDAShiny](problems.md#mldashiny) |0.1.0 | | |1 | +|mldr |0.4.3 | | | | +|[MLInterfaces](problems.md#mlinterfaces) |1.68.0 | | |5 | +|[mlr3shiny](problems.md#mlr3shiny) |0.1.1 | | |1 | +|[MLRShiny](problems.md#mlrshiny) |0.1.0 | | |1 | +|[MLRShiny2](problems.md#mlrshiny2) |0.1.0 | | |1 | +|mlxR |4.1.3 | | | | +|[MMDiff2](problems.md#mmdiff2) |1.16.0 | | |4 | +|[MNLR](problems.md#mnlr) |0.1.0 | | |1 | +|modest |0.3-1 | | | | +|MODIStsp |1.4.0 | | | | +|Mondrian |1.1.0 | | | | +|mplot |1.0.4 | | | | +|mrMLM.GUI |4.0 | | | | +|[MSEtool](problems.md#msetool) |1.6.0 | | |1 | +|[MSGFgui](problems.md#msgfgui) |1.22.0 |1 | | | +|[MSnbase](problems.md#msnbase) |2.14.2 | | |3 | +|MSstatsQCgui |1.8.0 | | | | +|[mstrio](problems.md#mstrio) |11.2.1 | | |1 | +|MtreeRing |1.4.2 | | | | +|[MuChPoint](problems.md#muchpoint) |0.6.1 | | |1 | +|multichull |1.0.0 | | | | +|mwaved |1.1.7 | | | | +|mwshiny |2.1.0 | | | | +|NACHO |1.0.1 | | | | +|[nbc4va](problems.md#nbc4va) |1.1 |1 | |1 | +|[NBShiny](problems.md#nbshiny) |0.1.0 | | |1 | +|[NBShiny2](problems.md#nbshiny2) |0.1.0 | | |1 | +|[NDP](problems.md#ndp) |0.1.0 | | |1 | +|[neo4r](problems.md#neo4r) |0.1.1 | | |1 | +|netCoin |1.1.25 | | | | +|netrankr |0.2.1 | | | | +|nlgeocoder |0.1.3 | | | | +|NNTbiomarker |0.29.11 | | | | +|normalr |1.0.0 | | | | +|nph |2.0 | | | | +|[nprcgenekeepr](problems.md#nprcgenekeepr) |1.0.3 | | |1 | +|npregfast |1.5.1 | | | | +|nse2r |0.1.2 | | | | +|objectremover |0.7.0 | | | | +|[oceanis](problems.md#oceanis) |1.7.3 | | |2 | +|[omicplotR](problems.md#omicplotr) |1.8.0 | | |2 | +|[oneSENSE](problems.md#onesense) |1.10.0 | |1 |1 | +|[ontoProc](problems.md#ontoproc) |1.10.0 |1 | |3 | +|[oolong](problems.md#oolong) |0.3.4 | | |1 | +|OpenImageR |1.1.7 | | | | +|[openmetrics](problems.md#openmetrics) |0.1.1 | | |1 | +|[openPrimeRui](problems.md#openprimerui) |1.10.0 | | |2 | +|[oppr](problems.md#oppr) |1.0.2 | | |1 | +|optimStrat |2.1 | | | | +|OWEA |0.1.1 | | | | +|[pairsD3](problems.md#pairsd3) |0.1.0 | | |1 | +|[PanVizGenerator](problems.md#panvizgenerator) |1.16.0 | | |1 | +|ParallelLogger |2.0.0 | | | | +|paramGUI |2.1.4 | | | | +|parcoords |1.0.0 | | | | +|[PathoStat](problems.md#pathostat) |1.14.0 | | |1 | +|pcadapt |4.3.3 | | | | +|[pcaExplorer](problems.md#pcaexplorer) |2.14.2 | | |2 | +|[pcFactorStan](problems.md#pcfactorstan) |1.5.1 | | |2 | +|PCRedux |1.0-6 | | | | +|pdfsearch |0.3.0 | | | | +|PDShiny |0.1.0 | | | | +|PELVIS |2.0.1 | | | | +|[pepStat](problems.md#pepstat) |1.22.0 | | |3 | +|periscope |0.4.10-1 | | | | +|[phenocamr](problems.md#phenocamr) |1.1.4 | | |1 | +|phenofit |0.2.7 | | | | +|phenology |7.3 | | | | +|phuse |0.2.2 | | | | +|PhyloProfile |1.2.5 | | | | +|[piano](problems.md#piano) |2.4.0 | | |2 | +|pipe.design |0.5.1 | | | | +|pipefittr |0.1.2 | | | | +|[pitchRx](problems.md#pitchrx) |1.8.2 | | |1 | +|PivotalR |0.1.18.3.1 | | | | +|[pivottabler](problems.md#pivottabler) |1.5.0 | | |1 | +|pixels |0.1.0 | | | | +|PKconverter |1.5 | | | | +|pkgsearch |3.0.2 | | | | +|plainview |0.1.0 | | | | +|[plethem](problems.md#plethem) |0.1.7 |1 | |1 | +|[plotGrouper](problems.md#plotgrouper) |1.6.0 | | |1 | +|[plotly](problems.md#plotly) |4.9.2.1 | | |1 | +|plotROC |2.2.1 | | | | +|plotSEMM |2.4 | | | | +|plsr |0.0.1 | | | | +|[pmd](problems.md#pmd) |0.1.9 | | |1 | +|[pogos](problems.md#pogos) |1.8.0 | | |1 | +|[polaroid](problems.md#polaroid) |0.0.1 | | |1 | +|[polmineR](problems.md#polminer) |0.8.0 | | |1 | +|PopED |0.5.0 | | | | +|poppr |2.8.6 | | | | +|populationPDXdesign |1.0.3 | | | | +|powdR |1.2.2 | | | | +|powerlmm |0.4.0 | | | | +|ppcSpatial |0.2.0 | | | | +|pqantimalarials |0.2 | | | | +|[precisely](problems.md#precisely) |0.1.0 | | |1 | +|[PrecisionTrialDrawer](problems.md#precisiontrialdrawer) |1.4.0 |1 | | | +|[predictoR](problems.md#predictor) |1.1.0 | | |1 | +|[PREPShiny](problems.md#prepshiny) |0.1.0 | | |1 | +|[primirTSS](problems.md#primirtss) |1.6.1 | |1 |1 | +|[prioritizr](problems.md#prioritizr) |5.0.1 | | |2 | +|ProbBayes |1.1 | | | | +|[PROBShiny](problems.md#probshiny) |0.1.0 | | |1 | +|[processanimateR](problems.md#processanimater) |1.0.3 | | |1 | +|processmapR |0.3.4 | | | | +|processmonitR |0.1.0 | | | | +|processR |0.2.3 | | | | +|profvis |0.3.6 | | | | +|progressr |0.6.0 | | | | +|ProjectionBasedClustering |1.1.1 | | | | +|pRolocGUI |1.22.0 | | | | +|Prostar |1.20.0 | | | | +|[psichomics](problems.md#psichomics) |1.14.1 | | |1 | +|PupilPre |0.6.2 | | | | +|pushbar |0.1.0 | | | | +|[pwrEWAS](problems.md#pwrewas) |1.2.0 |2 | | | +|[QCA](problems.md#qca) |3.8.2 | | |2 | +|qgam |1.3.2 | | | | +|[qlcData](problems.md#qlcdata) |0.2.1 | | |1 | +|[qqplotr](problems.md#qqplotr) |0.0.4 | | |1 | +|qqvases |1.0.0 | | | | +|QRAGadget |0.1.0 | | | | +|qrage |1.0 | | | | +|QTL.gCIMapping.GUI |2.1 | | | | +|[questionr](problems.md#questionr) |0.7.1 | | |2 | +|R.SamBada |0.1.2 | | | | +|r2d3 |0.2.3 | | | | +|[R3CPET](problems.md#r3cpet) |1.20.0 |1 | | | +|r4ss |1.36.1 | | | | +|rabi |1.0.2 | | | | +|radarchart |0.3.1 | | | | +|radiant |1.3.2 | | | | +|radiant.basics |1.3.4 | | | | +|radiant.data |1.3.9 | | | | +|radiant.design |1.3.5 | | | | +|radiant.model |1.3.10 | | | | +|radiant.multivariate |1.3.5 | | | | +|radix |0.6 | | | | +|[RagGrid](problems.md#raggrid) |0.2.0 | | |1 | +|rainette |0.1.1 | | | | +|[rAmCharts](problems.md#ramcharts) |2.1.13 | | |1 | +|rangeMapper |0.3-7 | | | | +|[rangeModelMetadata](problems.md#rangemodelmetadata) |0.1.3 | | |1 | +|RanglaPunjab |2.3.4 | | | | +|[rapbase](problems.md#rapbase) |1.10.0 | | |1 | +|[Rariant](failures.md#rariant) |1.24.0 |1 | | | +|rbin |0.2.0 | | | | +|rblt |0.2.4.5 | | | | +|[rcellminer](problems.md#rcellminer) |2.10.0 | |1 |3 | +|[rCGH](problems.md#rcgh) |1.18.0 | | |2 | +|rclipboard |0.1.2 | | | | +|rco |1.0.1 | | | | +|rcrossref |1.0.0 | | | | +|[Rcwl](problems.md#rcwl) |1.4.2 |1 |4 |5 | +|[rddapp](problems.md#rddapp) |1.2.1 |1 | |2 | +|RDML |1.0 | | | | +|reactable |0.2.0 | | | | +|reactlog |1.0.0 | | | | +|reactR |0.4.2 | | | | +|[recmap](problems.md#recmap) |1.0.7 | | |1 | +|[ReDaMoR](problems.md#redamor) |0.4.2 | | |1 | +|[RefNet](problems.md#refnet) |1.24.0 | |1 | | +|refund.shiny |0.3.0 | | | | +|regexSelect |1.0.0 | | | | +|[regressoR](problems.md#regressor) |1.1.8 | | |1 | +|Repliscope |1.1.0 | | | | +|repo |2.1.5 | | | | +|[ReportingTools](problems.md#reportingtools) |2.28.0 | | |1 | +|reprex |0.3.0 | | | | +|[reverseR](problems.md#reverser) |0.1 | | |1 | +|revtools |0.4.1 | | | | +|[RforProteomics](problems.md#rforproteomics) |1.26.0 | |1 |2 __+1__ | +|[Rfssa](problems.md#rfssa) |1.0.0 | | |1 | +|RGA |0.4.2 | | | | +|[rgl](problems.md#rgl) |0.100.54 | | |2 | +|[rhandsontable](problems.md#rhandsontable) |0.3.7 | | |1 | +|Rilostat |1.1 | | | | +|rintrojs |0.2.2 | | | | +|rivr |1.2-2 | | | | +|[RLumShiny](problems.md#rlumshiny) |0.2.2 | | |1 | +|[rmarkdown](problems.md#rmarkdown) |2.3 | | |1 | +|[rmd](problems.md#rmd) |0.1.5 | | |1 | +|[RnBeads](problems.md#rnbeads) |2.6.0 | | |7 | +|rnn |0.9.8 | | | | +|roadoi |0.6 | | | | +|robmed |0.7.0 | | | | +|[RobStatTM](problems.md#robstattm) |1.0.2 | | |1 | +|[rosr](problems.md#rosr) |0.0.10 | | |1 | +|rPackedBar |0.2.2 | | | | +|[rpostgisLT](problems.md#rpostgislt) |0.6.0 | | |1 | +|rpredictit |0.0.2 | | | | +|[Rqc](problems.md#rqc) |1.22.0 | | |2 | +|[RQuantLib](problems.md#rquantlib) |0.4.12 |2 |1 | | +|rrtable |0.2.1 | | | | +|[rrvgo](problems.md#rrvgo) |1.0.0 | | |3 | +|RSCAT |1.1.0 | | | | +|rsconnect |0.8.16 | | | | +|[rtimicropem](problems.md#rtimicropem) |1.4.0 | | |1 | +|rTRMui |1.26.0 | | | | +|[RtutoR](problems.md#rtutor) |1.2 | | |1 | +|rusk |0.1.1 | | | | +|ruv |0.9.7.1 | | | | +|rwalkr |0.5.2 | | | | +|[RxODE](problems.md#rxode) |0.9.2-0 | | |1 | +|sadists |0.2.3 | | | | +|[safetyGraphics](problems.md#safetygraphics) |1.1.0 | | |1 | +|samr |3.0 | | | | +|[sangerseqR](problems.md#sangerseqr) |1.24.0 | | |1 | +|sankeywheel |0.1.0 | | | | +|[santaR](problems.md#santar) |1.0 | | |1 | +|[SC3](problems.md#sc3) |1.16.0 | | |3 | +|scdhlm |0.3.2 | | | | +|schex |1.2.0 | | | | +|[scone](problems.md#scone) |1.12.0 | | |1 | +|sdcHierarchies |0.18.2 | | | | +|sdcMicro |5.5.1 | | | | +|[SDEFSR](problems.md#sdefsr) |0.7.21 | | |1 | +|sdm |1.0-89 | | | | +|[SEA](problems.md#sea) |1.0 | | |1 | +|searchConsoleR |0.4.0 | | | | +|seasonalview |0.3 | | | | +|semantic.dashboard |0.1.5 | | | | +|[semdrw](problems.md#semdrw) |0.1.0 | | |1 | +|[SemNeT](problems.md#semnet) |1.3.0 | | |2 | +|sen2r |1.3.6 | | | | +|[seqplots](problems.md#seqplots) |1.26.0 | | |4 | +|serieslcb |0.4.0 | | | | +|[sglr](problems.md#sglr) |0.7 | | |2 | +|SHELF |1.7.0 | | | | +|shiny.info |0.2.0 | | | | +|[shiny.router](problems.md#shinyrouter) |0.1.1 | | |1 | +|[shiny.semantic](problems.md#shinysemantic) |0.3.0 | | |1 | +|[shinyAce](problems.md#shinyace) |0.4.1 | | |1 | +|[shinyaframe](problems.md#shinyaframe) |1.0.1 | | |1 | +|shinyalert |1.1 | | | | +|shinyanimate |0.3.0 | | | | +|shinybootstrap2 |0.2.1 | | | | +|[shinybrms](problems.md#shinybrms) |1.1.0 | | |1 | +|[shinyBS](problems.md#shinybs) |0.61 | | |1 | +|shinybusy |0.2.0 | | | | +|shinycssloaders |0.3 | | | | +|shinycustomloader |0.9.0 | | | | +|shinydashboard |0.7.1 | | | | +|shinydashboardPlus |0.7.0 | | | | +|shinyDND |0.1.0 | | | | +|[shinyEffects](problems.md#shinyeffects) |0.1.0 | | |1 | +|shinyEventLogger |0.1.1 | | | | +|shinyFeedback |0.2.0 | | | | +|shinyFiles |0.8.0 | | | | +|shinyglide |0.1.2 | | | | +|shinyHeatmaply |0.2.0 | | | | +|[shinyhelper](problems.md#shinyhelper) |0.3.2 | | |1 | +|ShinyImage |0.1.0 | | | | +|[ShinyItemAnalysis](problems.md#shinyitemanalysis) |1.3.3 | | |2 | +|shinyjqui |0.3.3 | | | | +|[shinyjs](problems.md#shinyjs) |1.1 | | |1 | +|[shinyKGode](problems.md#shinykgode) |1.0.5 | | |1 | +|shinyKnobs |0.1.3 | | | | +|shinylogs |0.1.7 | | | | +|shinyLP |1.1.2 | | | | +|shinymanager |1.0.200 | | | | +|shinymaterial |1.1.0 | | | | +|shinyMatrix |0.3.0 | | | | +|[shinyMethyl](problems.md#shinymethyl) |1.24.0 |1 | | | +|shinyML |0.2.0 | | | | +|shinyMobile |0.7.0 | | | | +|shinyMolBio |0.2 | | | | +|shinyNotes |0.0.1 | | | | +|shinyobjects |0.1.0 | | | | +|[shinypanels](problems.md#shinypanels) |0.5.0 | | |1 | +|[shinyr](problems.md#shinyr) |0.2.6 | | |1 | +|[shinyrecap](problems.md#shinyrecap) |0.1.0 | | |1 | +|shinyrecipes |0.1.0 | | | | +|shinyreforms |0.0.1 | | | | +|shinyRGL |0.1.0 | | | | +|shinySearchbar |1.0.0 | | | | +|shinySIR |0.1.1 | | | | +|shinystan |2.5.0 | | | | +|[shinyTANDEM](problems.md#shinytandem) |1.26.0 |1 | | | +|shinytest |1.4.0 | | | | +|shinythemes |1.1.2 | | | | +|shinyTime |1.0.1 | | | | +|shinytoastr |2.1.1 | | | | +|shinyTree |0.2.7 | | | | +|shinyWidgets |0.5.3 | | | | +|shinyypr |0.0.2 | | | | +|shotGroups |0.7.5.1 | | | | +|[sigmajs](problems.md#sigmajs) |0.1.5 | | |1 | +|sigmaNet |1.1.0 | | | | +|signalHsmm |1.5 | | | | +|[SimDesign](problems.md#simdesign) |2.0.1 | | |1 | +|simglm |0.8.0 | | | | +|simPATHy |0.4 | | | | +|[simplevis](problems.md#simplevis) |1.3.0 | | |1 | +|simrel |2.0.2 | | | | +|sinew |0.3.8 | | | | +|SingleCaseES |0.4.3 | | | | +|[singleCellTK](problems.md#singlecelltk) |1.8.0 | | |3 | +|sistec |0.1.0 | | | | +|[skeleSim](failures.md#skelesim) |0.9.8 |1 | | | +|[skpr](problems.md#skpr) |0.64.2 | | |2 | +|SMITIDvisu |0.0.6 | | | | +|snahelper |1.1.0 | | | | +|snotelr |1.0.4 | | | | +|[soc.ca](problems.md#socca) |0.7.3 | | |1 | +|Sofi |0.16.4.8 | | | | +|[soilcarbon](problems.md#soilcarbon) |1.2.0 | | |2 | +|[sojourner](problems.md#sojourner) |1.2.1 |1 | | | +|solvebio |2.7.2 | | | | +|SOMbrero |1.3 | | | | +|sortable |0.4.2 | | | | +|[soundgen](problems.md#soundgen) |1.7.0 | | |1 | +|[SpaDES.addins](problems.md#spadesaddins) |0.1.2 | | |1 | +|Spaniel |1.2.0 | | | | +|spANOVA |0.99.2 | | | | +|[spant](problems.md#spant) |1.6.0 | | |1 | +|sparkline |2.0 | | | | +|[sparklyr](problems.md#sparklyr) |1.2.0 | | |1 | +|[sparkTable](problems.md#sparktable) |1.3.0 | | |1 | +|SpatialCPie |1.4.0 | | | | +|[SpatialEpiApp](problems.md#spatialepiapp) |0.3 | | |2 | +|[spatialLIBD](problems.md#spatiallibd) |1.0.0 |1 | |1 | +|[spectrolab](problems.md#spectrolab) |0.0.9 | | |1 | +|spinifex |0.2.0 | | | | +|SpNetPrep |1.1 | | | | +|spotGUI |0.2.1 | | | | +|SqlRender |1.6.6 | | | | +|squid |0.1.2 | | | | +|[SSDM](problems.md#ssdm) |0.2.8 | | |1 | +|[ssrch](problems.md#ssrch) |1.4.0 | | |2 | +|[sstModel](problems.md#sstmodel) |1.0.0 | | |1 | +|[STAT](problems.md#stat) |0.1.0 | | |1 | +|statnetWeb |0.5.5 | | | | +|statsr |0.2.0 | | | | +|[steemr](problems.md#steemr) |0.1.3 | | |1 | +|StereoMorph |1.6.3 | | | | +|stmgui |0.1.6 | | | | +|[stminsights](problems.md#stminsights) |0.3.0 | | |1 | +|[STMotif](problems.md#stmotif) |2.0.0 | | |1 | +|[strand](problems.md#strand) |0.1.3 | | |1 | +|StratigrapheR |1.1.0 | | | | +|[subscreen](problems.md#subscreen) |2.0.1 | | |1 | +|SubVis |2.0.2 | | | | +|swirlify |0.5.3 | | | | +|[tableHTML](problems.md#tablehtml) |2.0.0 | | |2 | +|[tablerDash](problems.md#tablerdash) |0.1.0 | | |1 | +|tabulizer |0.2.2 | | | | +|taipan |0.1.2 | | | | +|target |1.2.0 | | | | +|[TAShiny](problems.md#tashiny) |0.1.0 | | |1 | +|[TBSignatureProfiler](problems.md#tbsignatureprofiler) |1.0.0 | | |1 | +|[TCGAbiolinksGUI](problems.md#tcgabiolinksgui) |1.14.0 | | |3 | +|[TeachBayes](problems.md#teachbayes) |1.0 | |1 | | +|teachingApps |1.0.8 | | | | +|[tenXplore](problems.md#tenxplore) |1.10.0 | | |1 | +|[TestDesign](problems.md#testdesign) |1.0.2 | | |1 | +|[testextra](problems.md#testextra) |0.1.0.1 | | |1 | +|[texPreview](problems.md#texpreview) |1.4.4 | | |1 | +|[TFutils](problems.md#tfutils) |1.8.0 |1 |1 |4 | +|themetagenomics |1.0.2 | | | | +|threeBrain |0.1.7 | | | | +|[tidycells](problems.md#tidycells) |0.2.2 |2 | | | +|tidycwl |1.0.4 | | | | +|tidyvpc |1.0.0 | | | | +|tigerstats |0.3.2 | | | | +|[timeline](problems.md#timeline) |0.9 | | |2 | +|[TimerQuant](problems.md#timerquant) |1.18.0 | | |1 | +|[timeseriesdb](problems.md#timeseriesdb) |0.4.1 | | |1 | +|[timevis](problems.md#timevis) |0.5 | | |1 | +|tippy |0.0.1 | | | | +|tmap |3.0 | | | | +|[tmaptools](problems.md#tmaptools) |3.0 | | |1 | +|TnT |1.10.0 | | | | +|toxEval |1.1.0 | | | | +|[TR8](problems.md#tr8) |0.9.21 | | |1 | +|trackdem |0.5.2 | | | | +|[trackeRapp](problems.md#trackerapp) |1.1 | | |1 | +|trackr |0.10.6 | | | | +|trade |0.5.4 | | | | +|treemap |2.4-2 | | | | +|TreeSearch |0.4.1 | | | | +|[treespace](problems.md#treespace) |1.1.3.2 | | |1 | +|TreeTools |1.0.0 | | | | +|Trendy |1.10.0 | | | | +|tricolore |1.2.2 | | | | +|[TSCAN](problems.md#tscan) |1.26.0 | | |1 | +|tsviz |0.1.0 | | | | +|[ttestshiny](problems.md#ttestshiny) |0.1.0 | | |1 | +|[TVTB](problems.md#tvtb) |1.14.0 | | |1 | +|[twoddpcr](problems.md#twoddpcr) |1.12.0 | | |1 | +|[TxRegInfra](problems.md#txreginfra) |1.8.0 | | |5 | +|[ubiquity](problems.md#ubiquity) |1.0.1 | | |1 | +|[UCSCXenaShiny](problems.md#ucscxenashiny) |0.5.0 | | |2 | +|UCSCXenaTools |1.3.1 | | | | +|[Ularcirc](problems.md#ularcirc) |1.6.0 |1 | | | +|Umatrix |3.3 | | | | +|[ursa](problems.md#ursa) |3.8.20 | | |1 | +|[VariantFiltering](problems.md#variantfiltering) |1.24.0 |1 | |3 | +|[VarSelLCM](problems.md#varsellcm) |2.1.3 | | |1 | +|[vdiffr](problems.md#vdiffr) |0.3.2 | | |1 | +|vegawidget |0.3.1 | | | | +|vici |0.5.2 | | | | +|VineCopula |2.3.0 | | | | +|[viromeBrowser](problems.md#viromebrowser) |1.0.0 | | |1 | +|[visit](problems.md#visit) |2.1 | | |2 | +|[visNetwork](problems.md#visnetwork) |2.0.9 | | |1 | +|vistributions |0.1.1 | | | | +|visvow |0.9.0 | | | | +|voronoiTreemap |0.2.0 | | | | +|VOSONDash |0.5.4 | | | | +|vov |0.1.0 | | | | +|vtree |4.0.0 | | | | +|[VTShiny](problems.md#vtshiny) |0.1.0 | | |1 | +|VWPre |1.2.3 | | | | +|[waiter](problems.md#waiter) |0.1.0 | | |1 | +|[wallace](problems.md#wallace) |1.0.6.2 | | |1 | +|[webr](problems.md#webr) |0.1.5 | | |1 | +|webshot |0.5.2 | | | | +|weco |1.2 | | | | +|weightr |2.0.2 | | | | +|wilson |2.4.0 | | | | +|wiqid |0.3.0 | | | | +|[wiseR](problems.md#wiser) |1.0.1 | | |2 | +|workflowr |1.6.2 | | | | +|wppExplorer |2.3-4 | | | | +|[wTO](problems.md#wto) |1.6.3 | | |1 | +|xplorerr |0.1.1 | | | | +|[xROI](problems.md#xroi) |0.9.13 | |1 | | +|[ymlthis](problems.md#ymlthis) |0.1.2 | | |1 | +|yonder |0.2.0 | | | | +|[yuimaGUI](problems.md#yuimagui) |1.3.0 | | |1 | +|zooimage |5.5.2 | | | | +|zscorer |0.3.1 | | | | diff --git a/revdep/problems.md b/revdep/problems.md index db2c9a3d3..696b093fb 100644 --- a/revdep/problems.md +++ b/revdep/problems.md @@ -77,11 +77,11 @@ Run `revdep_details(,"adapr")` for more info
-* Version: 2.1.2 +* Version: 2.1.3 * Source code: https://github.com/cran/adegenet * URL: https://github.com/thibautjombart/adegenet -* Date/Publication: 2020-01-20 19:50:02 UTC -* Number of recursive dependencies: 104 +* Date/Publication: 2020-05-10 22:00:02 UTC +* Number of recursive dependencies: 106 Run `revdep_details(,"adegenet")` for more info @@ -93,7 +93,7 @@ Run `revdep_details(,"adegenet")` for more info ``` installed size is 5.7Mb sub-directories of 1Mb or more: - R 2.1Mb + R 2.0Mb data 1.3Mb files 1.7Mb ``` @@ -119,30 +119,27 @@ Run `revdep_details(,"adepro")` for more info All declared Imports should be used. ``` -# AdhereR +# AdhereRViz
-* Version: 0.6.0 -* Source code: https://github.com/cran/AdhereR +* Version: 0.1.0 +* Source code: https://github.com/cran/AdhereRViz * URL: https://github.com/ddediu/AdhereR -* Date/Publication: 2020-05-07 14:00:02 UTC -* Number of recursive dependencies: 32 +* Date/Publication: 2020-05-16 09:30:14 UTC +* Number of recursive dependencies: 110 -Run `revdep_details(,"AdhereR")` for more info +Run `revdep_details(,"AdhereRViz")` for more info
## In both -* checking package dependencies ... ERROR +* checking dependencies in R code ... NOTE ``` - Package required but not available: ‘webp’ - - Package suggested but not available for checking: ‘AdhereRViz’ - - See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ - manual. + Namespaces in Imports field not imported from: + ‘lubridate’ ‘parallel’ ‘rsvg’ ‘scales’ + All declared Imports should be used. ``` # alevinQC @@ -176,7 +173,7 @@ Run `revdep_details(,"alevinQC")` for more info * Version: 0.0.2 * Source code: https://github.com/cran/AMPLE * Date/Publication: 2019-09-16 04:10:03 UTC -* Number of recursive dependencies: 65 +* Number of recursive dependencies: 66 Run `revdep_details(,"AMPLE")` for more info @@ -194,11 +191,11 @@ Run `revdep_details(,"AMPLE")` for more info
-* Version: 1.0.1 +* Version: 1.0.2 * Source code: https://github.com/cran/analysisPipelines * URL: https://github.com/Mu-Sigma/analysis-pipelines * BugReports: https://github.com/Mu-Sigma/analysis-pipelines/issues -* Date/Publication: 2020-05-05 14:40:07 UTC +* Date/Publication: 2020-06-12 08:00:02 UTC * Number of recursive dependencies: 128 Run `revdep_details(,"analysisPipelines")` for more info @@ -234,15 +231,15 @@ Run `revdep_details(,"animalcules")` for more info Running examples in ‘animalcules-Ex.R’ failed The error most likely occurred in: - > ### Name: find_taxonomy - > ### Title: Find the taxonomy for unlimited tids - > ### Aliases: find_taxonomy + > ### Name: find_taxonomy_300 + > ### Title: Find the taxonomy for maximum 300 tids + > ### Aliases: find_taxonomy_300 > > ### ** Examples > - > taxonLevels <- find_taxonomy(tids=1200) + > taxonLevels <- find_taxonomy_300(tids=1200) Error: HTTP failure: 429 - {"error":"API rate limit exceeded","api-key":"100.36.157.108","count":"4","limit":"3"} + {"error":"API rate limit exceeded","api-key":"100.36.143.38","count":"4","limit":"3"} Execution halted ``` @@ -298,7 +295,7 @@ Run `revdep_details(,"animalcules")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/animaltracker * Date/Publication: 2020-03-25 11:50:02 UTC -* Number of recursive dependencies: 106 +* Number of recursive dependencies: 105 Run `revdep_details(,"animaltracker")` for more info @@ -312,6 +309,73 @@ Run `revdep_details(,"animaltracker")` for more info All declared Imports should be used. ``` +# animint2 + +
+ +* Version: 2019.7.3 +* Source code: https://github.com/cran/animint2 +* URL: https://github.com/tdhock/animint2 +* BugReports: https://github.com/tdhock/animint2/issues +* Date/Publication: 2019-07-18 06:36:12 UTC +* Number of recursive dependencies: 134 + +Run `revdep_details(,"animint2")` for more info + +
+ +## In both + +* checking examples ... ERROR + ``` + Running examples in ‘animint2-Ex.R’ failed + The error most likely occurred in: + + > ### Name: aes + > ### Title: Define aesthetic mappings. + > ### Aliases: aes + > + > ### ** Examples + > + > aes(x = mpg, y = wt) + ``` + +* checking tests ... + ``` + ERROR + Running the tests in ‘tests/testthat.R’ failed. + Last 13 lines of output: + ══ testthat results ═══════════════════════════════════════════════════════════ + [ OK: 732 | SKIPPED: 7 | WARNINGS: 14 | FAILED: 19 ] + 1. Failure: grid: facet order follows default data frame order (@test-compiler-facet-locate.r#118) + 2. Failure: grid: facet order follows default data frame order (@test-compiler-facet-locate.r#119) + 3. Failure: grid: facet order follows default data frame order (@test-compiler-facet-locate.r#126) + 4. Failure: grid: facet order follows default data frame order (@test-compiler-facet-locate.r#127) + 5. Failure: grid: facet order follows default data frame order (@test-compiler-facet-locate.r#134) + 6. Failure: grid: facet order follows default data frame order (@test-compiler-facet-locate.r#135) + 7. Failure: wrap: facet order follows default data frame order (@test-compiler-facet-locate.r#148) + 8. Failure: wrap: facet order follows default data frame order (@test-compiler-facet-locate.r#154) + 9. Failure: wrap: facet order follows default data frame order (@test-compiler-facet-locate.r#160) + 1. ... + + Error: testthat unit tests failed + Execution halted + ``` + +* checking installed package size ... NOTE + ``` + installed size is 5.1Mb + sub-directories of 1Mb or more: + data 3.0Mb + ``` + +* checking dependencies in R code ... NOTE + ``` + Namespaces in Imports field not imported from: + ‘lazyeval’ ‘tibble’ + All declared Imports should be used. + ``` + # ANOVAIREVA
@@ -363,7 +427,7 @@ Run `revdep_details(,"ANOVAShiny")` for more info * Version: 0.99.11 * Source code: https://github.com/cran/antitrust * Date/Publication: 2019-06-21 08:00:15 UTC -* Number of recursive dependencies: 64 +* Number of recursive dependencies: 65 Run `revdep_details(,"antitrust")` for more info @@ -387,7 +451,7 @@ Run `revdep_details(,"antitrust")` for more info * URL: https://github.com/dreamRs/apexcharter, https://dreamrs.github.io/apexcharter * BugReports: https://github.com/dreamRs/apexcharter/issues * Date/Publication: 2020-03-31 09:50:10 UTC -* Number of recursive dependencies: 92 +* Number of recursive dependencies: 91 Run `revdep_details(,"apexcharter")` for more info @@ -407,7 +471,7 @@ Run `revdep_details(,"apexcharter")` for more info * Version: 1.6.0 * Source code: https://github.com/cran/appreci8R * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 131 +* Number of recursive dependencies: 133 Run `revdep_details(,"appreci8R")` for more info @@ -418,15 +482,8 @@ Run `revdep_details(,"appreci8R")` for more info * checking package dependencies ... ERROR ``` Packages required but not available: - 'BSgenome.Hsapiens.UCSC.hg19', 'TxDb.Hsapiens.UCSC.hg19.knownGene', - 'Homo.sapiens', 'SNPlocs.Hsapiens.dbSNP144.GRCh37', - 'XtraSNPlocs.Hsapiens.dbSNP144.GRCh37', - 'MafDb.1Kgenomes.phase3.hs37d5', 'MafDb.ExAC.r1.0.hs37d5', - 'MafDb.gnomADex.r2.1.hs37d5', 'COSMIC.67', 'PolyPhen.Hsapiens.dbSNP131', 'SIFT.Hsapiens.dbSNP137' - Package suggested but not available for checking: ‘org.Hs.eg.db’ - See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. ``` @@ -435,10 +492,10 @@ Run `revdep_details(,"appreci8R")` for more info
-* Version: 1.4 +* Version: 1.4.5 * Source code: https://github.com/cran/ArchaeoPhases -* BugReports: https://github.com/marieannevibet/ArchaeoPhases/issues -* Date/Publication: 2019-01-02 09:10:03 UTC +* BugReports: https://github.com/ArchaeoStat/ArchaeoPhases/issues +* Date/Publication: 2020-05-29 15:10:02 UTC * Number of recursive dependencies: 107 Run `revdep_details(,"ArchaeoPhases")` for more info @@ -507,7 +564,7 @@ Run `revdep_details(,"ASSOCShiny")` for more info * Source code: https://github.com/cran/AUCell * URL: http://scenic.aertslab.org * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 167 +* Number of recursive dependencies: 168 Run `revdep_details(,"AUCell")` for more info @@ -517,8 +574,7 @@ Run `revdep_details(,"AUCell")` for more info * checking package dependencies ... NOTE ``` - Packages which this enhances but not available for checking: - 'doMC', 'doRNG' + Package which this enhances but not available for checking: ‘doMC’ ``` * checking dependencies in R code ... NOTE @@ -546,16 +602,40 @@ Run `revdep_details(,"AUCell")` for more info Package unavailable to check Rd xrefs: ‘SingleCellExperiment’ ``` +# autoTS + +
+ +* Version: 0.9.11 +* Source code: https://github.com/cran/autoTS +* URL: https://github.com/vivienroussez/autoTS +* BugReports: https://github.com/vivienroussez/autots/issues +* Date/Publication: 2020-06-05 12:20:06 UTC +* Number of recursive dependencies: 112 + +Run `revdep_details(,"autoTS")` for more info + +
+ +## In both + +* checking dependencies in R code ... NOTE + ``` + Namespaces in Imports field not imported from: + ‘plotly’ ‘shinycssloaders’ + All declared Imports should be used. + ``` + # BARIS
-* Version: 1.1.0 +* Version: 1.1.1 * Source code: https://github.com/cran/BARIS * URL: https://github.com/feddelegrand7/BARIS * BugReports: https://github.com/feddelegrand7/BARIS/issues -* Date/Publication: 2020-04-20 08:40:03 UTC -* Number of recursive dependencies: 84 +* Date/Publication: 2020-05-25 04:10:02 UTC +* Number of recursive dependencies: 85 Run `revdep_details(,"BARIS")` for more info @@ -578,7 +658,7 @@ Run `revdep_details(,"BARIS")` for more info * URL: https://github.com/mani2012/BatchQC * BugReports: https://github.com/mani2012/BatchQC/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 123 +* Number of recursive dependencies: 124 Run `revdep_details(,"BatchQC")` for more info @@ -623,6 +703,29 @@ Run `revdep_details(,"BatchQC")` for more info to your NAMESPACE file. ``` +# BayesBD + +
+ +* Version: 1.2 +* Source code: https://github.com/cran/BayesBD +* Date/Publication: 2017-08-21 17:32:06 UTC +* Number of recursive dependencies: 40 + +Run `revdep_details(,"BayesBD")` for more info + +
+ +## In both + +* checking package dependencies ... ERROR + ``` + Package required but not available: ‘mritc’ + + See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ + manual. + ``` + # BayesianNetwork
@@ -668,6 +771,29 @@ Run `revdep_details(,"BayesNetBP")` for more info Package suggested but not available for checking: ‘cyjShiny’ ``` +# BBEST + +
+ +* Version: 0.1-6 +* Source code: https://github.com/cran/BBEST +* Date/Publication: 2016-03-09 18:55:20 +* Number of recursive dependencies: 64 + +Run `revdep_details(,"BBEST")` for more info + +
+ +## In both + +* checking package dependencies ... ERROR + ``` + Package required but not available: ‘wmtsa’ + + See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ + manual. + ``` + # BCEA
@@ -698,7 +824,7 @@ Run `revdep_details(,"BCEA")` for more info * URL: https://github.com/bd-R/bdchecks * BugReports: https://github.com/bd-R/bdchecks/issues * Date/Publication: 2019-02-18 15:00:07 UTC -* Number of recursive dependencies: 120 +* Number of recursive dependencies: 119 Run `revdep_details(,"bdchecks")` for more info @@ -720,7 +846,7 @@ Run `revdep_details(,"bdchecks")` for more info * URL: https://github.com/bd-R/bdclean, https://bd-r.github.io/The-bdverse/index.html * BugReports: https://github.com/bd-R/bdclean/issues * Date/Publication: 2019-04-11 14:45:17 UTC -* Number of recursive dependencies: 130 +* Number of recursive dependencies: 129 Run `revdep_details(,"bdclean")` for more info @@ -741,7 +867,7 @@ Run `revdep_details(,"bdclean")` for more info * Version: 1.0.1 * Source code: https://github.com/cran/bde * Date/Publication: 2015-02-16 13:48:05 -* Number of recursive dependencies: 57 +* Number of recursive dependencies: 58 Run `revdep_details(,"bde")` for more info @@ -783,7 +909,7 @@ Run `revdep_details(,"bde")` for more info * Source code: https://github.com/cran/bea.R * URL: https://github.com/us-bea/bea.R * Date/Publication: 2018-02-23 19:30:19 UTC -* Number of recursive dependencies: 74 +* Number of recursive dependencies: 75 Run `revdep_details(,"bea.R")` for more info @@ -807,7 +933,7 @@ Run `revdep_details(,"bea.R")` for more info * Version: 2.4 * Source code: https://github.com/cran/beanz * Date/Publication: 2018-11-05 21:30:03 UTC -* Number of recursive dependencies: 83 +* Number of recursive dependencies: 84 Run `revdep_details(,"beanz")` for more info @@ -817,9 +943,9 @@ Run `revdep_details(,"beanz")` for more info * checking installed package size ... NOTE ``` - installed size is 8.3Mb + installed size is 8.5Mb sub-directories of 1Mb or more: - libs 6.8Mb + libs 7.0Mb ``` * checking dependencies in R code ... NOTE @@ -840,7 +966,7 @@ Run `revdep_details(,"beanz")` for more info * Version: 0.1.2 * Source code: https://github.com/cran/bestSDP * Date/Publication: 2019-12-13 13:10:06 UTC -* Number of recursive dependencies: 82 +* Number of recursive dependencies: 83 Run `revdep_details(,"bestSDP")` for more info @@ -876,22 +1002,22 @@ Run `revdep_details(,"BETS")` for more info * checking whether the package can be unloaded cleanly ... WARNING ``` Error: package or namespace load failed for ‘BETS’ in dyn.load(file, DLLpath = DLLpath, ...): - unable to load shared object '/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex.nosync/BETS/RMySQL/libs/RMySQL.so': - dlopen(/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex.nosync/BETS/RMySQL/libs/RMySQL.so, 6): Symbol not found: _GSS_C_NT_USER_NAME - Referenced from: /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex.nosync/BETS/RMySQL/libs/RMySQL.so + unable to load shared object '/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex/BETS/RMySQL/libs/RMySQL.so': + dlopen(/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex/BETS/RMySQL/libs/RMySQL.so, 6): Symbol not found: _GSS_C_NT_USER_NAME + Referenced from: /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex/BETS/RMySQL/libs/RMySQL.so Expected in: flat namespace - in /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex.nosync/BETS/RMySQL/libs/RMySQL.so + in /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex/BETS/RMySQL/libs/RMySQL.so Execution halted ``` * checking whether the namespace can be loaded with stated dependencies ... WARNING ``` Error in dyn.load(file, DLLpath = DLLpath, ...) : - unable to load shared object '/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex.nosync/BETS/RMySQL/libs/RMySQL.so': - dlopen(/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex.nosync/BETS/RMySQL/libs/RMySQL.so, 6): Symbol not found: _GSS_C_NT_USER_NAME - Referenced from: /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex.nosync/BETS/RMySQL/libs/RMySQL.so + unable to load shared object '/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex/BETS/RMySQL/libs/RMySQL.so': + dlopen(/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex/BETS/RMySQL/libs/RMySQL.so, 6): Symbol not found: _GSS_C_NT_USER_NAME + Referenced from: /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex/BETS/RMySQL/libs/RMySQL.so Expected in: flat namespace - in /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex.nosync/BETS/RMySQL/libs/RMySQL.so + in /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex/BETS/RMySQL/libs/RMySQL.so Calls: ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load Execution halted @@ -905,11 +1031,11 @@ Run `revdep_details(,"BETS")` for more info * checking dependencies in R code ... NOTE ``` Error: package or namespace load failed for ‘BETS’ in dyn.load(file, DLLpath = DLLpath, ...): - unable to load shared object '/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex.nosync/BETS/RMySQL/libs/RMySQL.so': - dlopen(/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex.nosync/BETS/RMySQL/libs/RMySQL.so, 6): Symbol not found: _GSS_C_NT_USER_NAME - Referenced from: /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex.nosync/BETS/RMySQL/libs/RMySQL.so + unable to load shared object '/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex/BETS/RMySQL/libs/RMySQL.so': + dlopen(/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex/BETS/RMySQL/libs/RMySQL.so, 6): Symbol not found: _GSS_C_NT_USER_NAME + Referenced from: /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex/BETS/RMySQL/libs/RMySQL.so Expected in: flat namespace - in /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex.nosync/BETS/RMySQL/libs/RMySQL.so + in /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex/BETS/RMySQL/libs/RMySQL.so Call sequence: 6: stop(msg, call. = FALSE, domain = NA) 5: value[[3L]](cond) @@ -918,7 +1044,8 @@ Run `revdep_details(,"BETS")` for more info 2: tryCatch({ attr(package, "LibPath") <- which.lib.loc ns <- loadNamespace(package, lib.loc) - env <- attachNamespace(ns, pos = pos, deps, + env <- attachNamespace(ns, pos = pos, deps, exclude, include.only) + }, Execution halted ``` @@ -926,12 +1053,12 @@ Run `revdep_details(,"BETS")` for more info
-* Version: 3.0.0 +* Version: 3.0.2 * Source code: https://github.com/cran/bibliometrix * URL: https://www.bibliometrix.org, https://github.com/massimoaria/bibliometrix * BugReports: https://github.com/massimoaria/bibliometrix/issues -* Date/Publication: 2020-04-16 08:40:02 UTC -* Number of recursive dependencies: 151 +* Date/Publication: 2020-06-17 10:00:03 UTC +* Number of recursive dependencies: 150 Run `revdep_details(,"bibliometrix")` for more info @@ -941,10 +1068,10 @@ Run `revdep_details(,"bibliometrix")` for more info * checking installed package size ... NOTE ``` - installed size is 5.1Mb + installed size is 5.8Mb sub-directories of 1Mb or more: data 2.0Mb - doc 1.9Mb + doc 2.7Mb ``` # bigPint @@ -956,7 +1083,7 @@ Run `revdep_details(,"bibliometrix")` for more info * URL: https://github.com/lindsayrutter/bigPint * BugReports: https://github.com/lindsayrutter/bigPint/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 164 +* Number of recursive dependencies: 165 Run `revdep_details(,"bigPint")` for more info @@ -1050,7 +1177,7 @@ Run `revdep_details(,"binovisualfields")` for more info * URL: http://kmezhoud.github.io/bioCancer * BugReports: https://github.com/kmezhoud/bioCancer/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 203 +* Number of recursive dependencies: 204 Run `revdep_details(,"bioCancer")` for more info @@ -1058,12 +1185,25 @@ Run `revdep_details(,"bioCancer")` for more info ## In both -* checking package dependencies ... ERROR +* checking Rd files ... WARNING ``` - Packages required but not available: 'org.Hs.eg.db', 'reactome.db' - - See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ - manual. + checkRd: (5) bioCancer.Rd:0-20: Must have a \description + ``` + +* checking installed package size ... NOTE + ``` + installed size is 8.3Mb + sub-directories of 1Mb or more: + app 3.3Mb + doc 2.8Mb + extdata 1.6Mb + ``` + +* checking dependencies in R code ... NOTE + ``` + Namespaces in Imports field not imported from: + ‘AlgDesign’ ‘import’ ‘methods’ ‘shinythemes’ + All declared Imports should be used. ``` # BiocOncoTK @@ -1081,17 +1221,66 @@ Run `revdep_details(,"BiocOncoTK")` for more info ## In both -* checking package dependencies ... ERROR +* checking tests ... ``` - Package required but not available: ‘curatedTCGAData’ - - Packages suggested but not available for checking: - 'org.Hs.eg.db', 'TxDb.Hsapiens.UCSC.hg19.knownGene', - 'TxDb.Hsapiens.UCSC.hg18.knownGene', 'FDb.InfiniumMethylation.hg19', - 'EnsDb.Hsapiens.v75' - - See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ - manual. + ERROR + Running the tests in ‘tests/testthat.R’ failed. + Last 13 lines of output: + Execution halted + ── 3. Error: rbind utilities work (@test_dockstore_scripts.R#29) ────────────── + cannot open the connection + Backtrace: + 1. base::readRDS("demo.rds") + 2. base::gzfile(file, "rb") + + ══ testthat results ═══════════════════════════════════════════════════════════ + [ OK: 0 | SKIPPED: 0 | WARNINGS: 2 | FAILED: 3 ] + 1. Failure: exprByMSI_csv produces expected CSV (@test_dockstore_scripts.R#10) + 2. Error: exprByMSI_csv produces expected CSV (@test_dockstore_scripts.R#11) + 3. Error: rbind utilities work (@test_dockstore_scripts.R#29) + + Error: testthat unit tests failed + Execution halted + ``` + +* checking installed package size ... NOTE + ``` + installed size is 14.6Mb + sub-directories of 1Mb or more: + data 6.1Mb + doc 3.6Mb + pamphlets 4.5Mb + ``` + +* checking R code for possible problems ... NOTE + ``` + ... + ggscat_av: no visible binding for global variable ‘symbol’ + ggscat_av: no visible binding for global variable ‘msival’ + ggscat_av: no visible binding for global variable ‘tmsi’ + ggscat_av: no visible binding for global variable ‘log2exa’ + mc3toGR : : no visible binding for global variable + ‘Consequence’ + multiviz: no visible binding for global variable ‘acronym’ + multiviz: no visible binding for global variable ‘msival’ + prc: no visible binding for global variable ‘acronym’ + prc: no visible global function definition for ‘right_join’ + rainfall: no visible global function definition for ‘genome’ + tumNorSet : : no visible global function definition for + ‘pancan_SE’ + Undefined global functions or variables: + BiocFileCache Consequence acronym genome log2ex log2exa mapIds + map_tcga_ncit msicode msival new pancan_SE project_short_name + right_join seqlengths symbol tfstart tmsi v1 v2 + Consider adding + importFrom("methods", "new") + to your NAMESPACE file (and ensure that your DESCRIPTION Imports field + contains 'methods'). + ``` + +* checking data for non-ASCII characters ... NOTE + ``` + Note: found 46 marked UTF-8 strings ``` # BioInstaller @@ -1123,12 +1312,12 @@ Run `revdep_details(,"BioInstaller")` for more info
-* Version: 1.8.0 +* Version: 1.8.4 * Source code: https://github.com/cran/BioNetStat * URL: http://github.com/jardimViniciusC/BioNetStat * BugReports: http://github.com/jardimViniciusC/BioNetStat/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 125 +* Date/Publication: 2020-06-01 +* Number of recursive dependencies: 129 Run `revdep_details(,"BioNetStat")` for more info @@ -1138,10 +1327,17 @@ Run `revdep_details(,"BioNetStat")` for more info * checking installed package size ... NOTE ``` - installed size is 5.1Mb + installed size is 5.4Mb sub-directories of 1Mb or more: extdata 1.9Mb - shiny 1.6Mb + shiny 1.9Mb + ``` + +* checking package subdirectories ... NOTE + ``` + Found the following CITATION file in a non-standard place: + CITATION + Most likely ‘inst/CITATION’ should be used instead. ``` * checking dependencies in R code ... NOTE @@ -1151,7 +1347,7 @@ Run `revdep_details(,"BioNetStat")` for more info ‘plyr’ ‘stats’ ‘utils’ ‘whisker’ ‘yaml’ All declared Imports should be used. Packages in Depends field not imported from: - ‘shiny’ ‘shinyBS’ + ‘DT’ ‘shiny’ ‘shinyBS’ These packages need to be imported from (in the NAMESPACE file) for when this namespace is loaded but not attached. ``` @@ -1218,7 +1414,7 @@ Run `revdep_details(,"BIRDS")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/biva * Date/Publication: 2018-10-30 19:20:06 UTC -* Number of recursive dependencies: 80 +* Number of recursive dependencies: 81 Run `revdep_details(,"biva")` for more info @@ -1240,7 +1436,7 @@ Run `revdep_details(,"biva")` for more info * Version: 1.0 * Source code: https://github.com/cran/blkbox * Date/Publication: 2016-08-08 02:37:07 -* Number of recursive dependencies: 154 +* Number of recursive dependencies: 153 Run `revdep_details(,"blkbox")` for more info @@ -1290,7 +1486,7 @@ Run `revdep_details(,"blockCV")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/BLRShiny * Date/Publication: 2019-05-09 15:50:10 UTC -* Number of recursive dependencies: 99 +* Number of recursive dependencies: 98 Run `revdep_details(,"BLRShiny")` for more info @@ -1361,7 +1557,7 @@ Run `revdep_details(,"bsplus")` for more info * URL: https://github.com/asancpt/caffsim * BugReports: https://github.com/asancpt/caffsim/issues * Date/Publication: 2017-08-28 03:36:21 UTC -* Number of recursive dependencies: 65 +* Number of recursive dependencies: 66 Run `revdep_details(,"caffsim")` for more info @@ -1447,9 +1643,9 @@ Run `revdep_details(,"cartools")` for more info
-* Version: 2.18.1 +* Version: 2.18.2 * Source code: https://github.com/cran/ChAMP -* Date/Publication: 2020-04-30 +* Date/Publication: 2020-05-14 * Number of recursive dependencies: 240 Run `revdep_details(,"ChAMP")` for more info @@ -1460,11 +1656,7 @@ Run `revdep_details(,"ChAMP")` for more info * checking package dependencies ... ERROR ``` - Packages required but not available: - 'ChAMPdata', 'FEM', 'Illumina450ProbeVariants.db', - 'IlluminaHumanMethylationEPICmanifest', - 'IlluminaHumanMethylation450kmanifest', - 'IlluminaHumanMethylationEPICanno.ilm10b2.hg19' + Package required but not available: ‘IlluminaHumanMethylation450kmanifest’ Depends: includes the non-default packages: 'minfi', 'ChAMPdata', 'FEM', 'DMRcate', @@ -1573,54 +1765,6 @@ Run `revdep_details(,"chromoMap")` for more info All declared Imports should be used. ``` -# chromVAR - -
- -* Version: 1.10.0 -* Source code: https://github.com/cran/chromVAR -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 148 - -Run `revdep_details(,"chromVAR")` for more info - -
- -## In both - -* checking examples ... ERROR - ``` - Running examples in ‘chromVAR-Ex.R’ failed - The error most likely occurred in: - - > ### Name: addGCBias - > ### Title: addGCBias - > ### Aliases: addGCBias addGCBias,RangedSummarizedExperiment-method - > ### addGCBias,SummarizedExperiment-method - > - > ### ** Examples - > - > - > data(example_counts, package = "chromVAR") - > # show example on small part of data - > subset_counts <- example_counts[1:500,] - > library(BSgenome.Hsapiens.UCSC.hg19) - Error in library(BSgenome.Hsapiens.UCSC.hg19) : - there is no package called ‘BSgenome.Hsapiens.UCSC.hg19’ - Execution halted - ``` - -* checking package dependencies ... NOTE - ``` - Packages suggested but not available for checking: - 'JASPAR2016', 'BSgenome.Hsapiens.UCSC.hg19' - ``` - -* checking Rd cross-references ... NOTE - ``` - Package unavailable to check Rd xrefs: ‘JASPAR2016’ - ``` - # cicerone
@@ -1630,7 +1774,7 @@ Run `revdep_details(,"chromVAR")` for more info * URL: https://cicerone.john-coene.com/ * BugReports: https://github.com/JohnCoene/cicerone/issues * Date/Publication: 2020-02-29 12:40:02 UTC -* Number of recursive dependencies: 18 +* Number of recursive dependencies: 19 Run `revdep_details(,"cicerone")` for more info @@ -1651,7 +1795,7 @@ Run `revdep_details(,"cicerone")` for more info * Version: 2.1.0 * Source code: https://github.com/cran/cjoint * Date/Publication: 2018-10-19 08:20:02 UTC -* Number of recursive dependencies: 73 +* Number of recursive dependencies: 74 Run `revdep_details(,"cjoint")` for more info @@ -1670,6 +1814,27 @@ Run `revdep_details(,"cjoint")` for more info Note: found 29 marked UTF-8 strings ``` +# clustDRM + +
+ +* Version: 0.1-0 +* Source code: https://github.com/cran/clustDRM +* Date/Publication: 2019-03-15 16:53:44 UTC +* Number of recursive dependencies: 118 + +Run `revdep_details(,"clustDRM")` for more info + +
+ +## In both + +* checking dependencies in R code ... NOTE + ``` + Namespace in Imports field not imported from: ‘DT’ + All declared Imports should be used. + ``` + # CLUSTShiny
@@ -1677,7 +1842,7 @@ Run `revdep_details(,"cjoint")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/CLUSTShiny * Date/Publication: 2019-04-28 07:10:06 UTC -* Number of recursive dependencies: 93 +* Number of recursive dependencies: 99 Run `revdep_details(,"CLUSTShiny")` for more info @@ -1699,7 +1864,7 @@ Run `revdep_details(,"CLUSTShiny")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/CMShiny * Date/Publication: 2019-10-24 17:20:05 UTC -* Number of recursive dependencies: 99 +* Number of recursive dependencies: 98 Run `revdep_details(,"CMShiny")` for more info @@ -1721,7 +1886,7 @@ Run `revdep_details(,"CMShiny")` for more info * Version: 1.20.0 * Source code: https://github.com/cran/CNVPanelizer * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 102 +* Number of recursive dependencies: 103 Run `revdep_details(,"CNVPanelizer")` for more info @@ -1729,12 +1894,10 @@ Run `revdep_details(,"CNVPanelizer")` for more info ## In both -* checking package dependencies ... ERROR +* checking dependencies in R code ... NOTE ``` - Package required but not available: ‘NOISeq’ - - See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ - manual. + Unexported object imported by a ':::' call: ‘utils:::format.object_size’ + See the note in ?`:::` about the use of this operator. ``` # cocktailApp @@ -1746,7 +1909,7 @@ Run `revdep_details(,"CNVPanelizer")` for more info * URL: https://github.com/shabbychef/cocktailApp * BugReports: https://github.com/shabbychef/cocktailApp/issues * Date/Publication: 2019-07-02 08:30:10 UTC -* Number of recursive dependencies: 83 +* Number of recursive dependencies: 84 Run `revdep_details(,"cocktailApp")` for more info @@ -1763,11 +1926,11 @@ Run `revdep_details(,"cocktailApp")` for more info
-* Version: 0.8.2 +* Version: 0.9.2 * Source code: https://github.com/cran/codebook * URL: https://github.com/rubenarslan/codebook * BugReports: https://github.com/rubenarslan/codebook/issues -* Date/Publication: 2020-01-09 16:20:07 UTC +* Date/Publication: 2020-06-06 23:40:03 UTC * Number of recursive dependencies: 178 Run `revdep_details(,"codebook")` for more info @@ -1779,7 +1942,7 @@ Run `revdep_details(,"codebook")` for more info * checking dependencies in R code ... NOTE ``` Namespaces in Imports field not imported from: - ‘graphics’ ‘jsonlite’ ‘pander’ + ‘graphics’ ‘jsonlite’ ‘rlang’ ‘tidyselect’ ‘vctrs’ All declared Imports should be used. ``` @@ -1826,11 +1989,6 @@ Run `revdep_details(,"COMPASS")` for more info ## In both -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘flowWorkspaceData’ - ``` - * checking for hidden files and directories ... NOTE ``` Found the following hidden files and directories: @@ -1872,7 +2030,7 @@ Run `revdep_details(,"COMPASS")` for more info * Version: 0.1.2 * Source code: https://github.com/cran/competitiontoolbox * Date/Publication: 2019-09-12 11:30:02 UTC -* Number of recursive dependencies: 66 +* Number of recursive dependencies: 67 Run `revdep_details(,"competitiontoolbox")` for more info @@ -1886,30 +2044,6 @@ Run `revdep_details(,"competitiontoolbox")` for more info All declared Imports should be used. ``` -# condformat - -
- -* Version: 0.8.0 -* Source code: https://github.com/cran/condformat -* URL: http://github.com/zeehio/condformat -* BugReports: http://github.com/zeehio/condformat/issues -* Date/Publication: 2018-10-29 14:10:03 UTC -* Number of recursive dependencies: 72 - -Run `revdep_details(,"condformat")` for more info - -
- -## In both - -* checking dependencies in R code ... NOTE - ``` - Namespace in Imports field not imported from: ‘graphics’ - All declared Imports should be used. - Missing or unexported object: ‘xlsx::CellBlock.default’ - ``` - # conflr
@@ -1996,7 +2130,7 @@ Run `revdep_details(,"CoRegNet")` for more info * URL: https://kgjerde.github.io/corporaexplorer, https://github.com/kgjerde/corporaexplorer * BugReports: https://github.com/kgjerde/corporaexplorer/issues * Date/Publication: 2020-03-07 19:40:02 UTC -* Number of recursive dependencies: 97 +* Number of recursive dependencies: 96 Run `revdep_details(,"corporaexplorer")` for more info @@ -2020,7 +2154,7 @@ Run `revdep_details(,"corporaexplorer")` for more info * Source code: https://github.com/cran/cosinor * URL: http://github.com/sachsmc/cosinor * Date/Publication: 2014-07-28 20:04:18 -* Number of recursive dependencies: 64 +* Number of recursive dependencies: 65 Run `revdep_details(,"cosinor")` for more info @@ -2124,6 +2258,29 @@ Run `revdep_details(,"crawl")` for more info All declared Imports should be used. ``` +# crispRdesignR + +
+ +* Version: 1.1.5 +* Source code: https://github.com/cran/crispRdesignR +* URL: +* Date/Publication: 2020-05-26 10:00:03 UTC +* Number of recursive dependencies: 62 + +Run `revdep_details(,"crispRdesignR")` for more info + +
+ +## In both + +* checking dependencies in R code ... NOTE + ``` + Namespaces in Imports field not imported from: + ‘DT’ ‘gbm’ + All declared Imports should be used. + ``` + # crisprseekplus
@@ -2133,7 +2290,7 @@ Run `revdep_details(,"crawl")` for more info * URL: https://github.com/UMMS-Biocore/crisprseekplus * BugReports: https://github.com/UMMS-Biocore/crisprseekplus/issues/new * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 142 +* Number of recursive dependencies: 139 Run `revdep_details(,"crisprseekplus")` for more info @@ -2167,12 +2324,16 @@ Run `revdep_details(,"CrossICC")` for more info ## In both -* checking package dependencies ... ERROR +* checking R code for possible problems ... NOTE ``` - Package required but not available: ‘MergeMaid’ - - See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ - manual. + .mergemodel: no visible global function definition for ‘coxph’ + CrossICC: no visible global function definition for ‘.’ + FAIME: no visible binding for global variable ‘SampleExp’ + get.max.var.rows: no visible binding for global variable ‘V1’ + predictor: no visible global function definition for ‘assay’ + runFAIME: no visible global function definition for ‘assay’ + Undefined global functions or variables: + . SampleExp V1 assay coxph ``` # crossmeta @@ -2182,7 +2343,7 @@ Run `revdep_details(,"CrossICC")` for more info * Version: 1.14.0 * Source code: https://github.com/cran/crossmeta * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 191 +* Number of recursive dependencies: 193 Run `revdep_details(,"crossmeta")` for more info @@ -2190,44 +2351,6 @@ Run `revdep_details(,"crossmeta")` for more info ## In both -* checking examples ... ERROR - ``` - Running examples in ‘crossmeta-Ex.R’ failed - The error most likely occurred in: - - > ### Name: add_sources - > ### Title: Add sample source information for meta-analysis. - > ### Aliases: add_sources - > - > ### ** Examples - > - > library(lydata) - Error in library(lydata) : there is no package called ‘lydata’ - Execution halted - ``` - -* checking tests ... - ``` - ERROR - Running the tests in ‘tests/testthat.R’ failed. - Last 13 lines of output: - Illumina samples matched by pdata column. - Illumina samples matched by pdata column. - Illumina samples matched by pdata column. - Illumina samples matched by pdata column. - Illumina samples matched by column names. - Illumina samples matched by pdata column. - Illumina samples matched by pdata column. - Illumina samples matched by pdata column. - Illumina samples matched by pdata column. - ══ testthat results ═══════════════════════════════════════════════════════════ - [ OK: 11 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 1 ] - 1. Error: (unknown) (@test-all.R#4) - - Error: testthat unit tests failed - Execution halted - ``` - * checking dependencies in R code ... WARNING ``` '::' or ':::' import not declared from: ‘shinyBS’ @@ -2238,12 +2361,6 @@ Run `revdep_details(,"crossmeta")` for more info ‘getDirListing’ ‘getGEO’ ‘getGEOSuppFiles’ ``` -* checking package dependencies ... NOTE - ``` - Packages suggested but not available for checking: - 'lydata', 'org.Hs.eg.db', 'ccdata' - ``` - * checking R code for possible problems ... NOTE ``` ... @@ -2272,7 +2389,31 @@ Run `revdep_details(,"crossmeta")` for more info * checking Rd cross-references ... NOTE ``` - Packages unavailable to check Rd xrefs: ‘PADOG’, ‘GeneMeta’, ‘ccdata’ + Packages unavailable to check Rd xrefs: ‘PADOG’, ‘GeneMeta’ + ``` + +# CSUV + +
+ +* Version: 0.1.0 +* Source code: https://github.com/cran/CSUV +* BugReports: https://github.com/christineyuen/CSUV/issues +* Date/Publication: 2020-05-04 14:10:02 UTC +* Number of recursive dependencies: 108 + +Run `revdep_details(,"CSUV")` for more info + +
+ +## In both + +* checking package dependencies ... ERROR + ``` + Package required but not available: ‘parcor’ + + See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ + manual. ``` # CTAShiny @@ -2282,7 +2423,7 @@ Run `revdep_details(,"crossmeta")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/CTAShiny * Date/Publication: 2019-04-13 08:22:55 UTC -* Number of recursive dependencies: 22 +* Number of recursive dependencies: 23 Run `revdep_details(,"CTAShiny")` for more info @@ -2305,7 +2446,7 @@ Run `revdep_details(,"CTAShiny")` for more info * Source code: https://github.com/cran/ctsem * URL: https://github.com/cdriveraus/ctsem * Date/Publication: 2020-04-26 01:00:07 UTC -* Number of recursive dependencies: 127 +* Number of recursive dependencies: 129 Run `revdep_details(,"ctsem")` for more info @@ -2315,10 +2456,10 @@ Run `revdep_details(,"ctsem")` for more info * checking installed package size ... NOTE ``` - installed size is 9.4Mb + installed size is 9.6Mb sub-directories of 1Mb or more: R 2.0Mb - libs 6.1Mb + libs 6.3Mb ``` * checking dependencies in R code ... NOTE @@ -2340,7 +2481,7 @@ Run `revdep_details(,"ctsem")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/CTShiny * Date/Publication: 2019-05-03 12:51:01 UTC -* Number of recursive dependencies: 111 +* Number of recursive dependencies: 110 Run `revdep_details(,"CTShiny")` for more info @@ -2356,6 +2497,71 @@ Run `revdep_details(,"CTShiny")` for more info All declared Imports should be used. ``` +# CVE + +
+ +* Version: 1.11.2 +* Source code: https://github.com/cran/CVE +* Date/Publication: 2019-06-07 +* Number of recursive dependencies: 183 + +Run `revdep_details(,"CVE")` for more info + +
+ +## In both + +* checking examples ... ERROR + ``` + Running examples in ‘CVE-Ex.R’ failed + The error most likely occurred in: + + > ### Name: get.oncotator.anno + > ### Title: Open Cancer Variant Explorer (CVE) Shiny app + > ### Aliases: get.oncotator.anno + > + > ### ** Examples + > + > exCase <- data.frame(chr = rep(10, 3), + + start = c("100894110", "100985376", "101137905"), + + end = c("100894110", "100985376", "101137905"), + + ref_allele = c("T", "C", "G"), + + obs_allele = c("G", "A", "A")) + > get.oncotator.anno(exCase) + Error in open.connection(con, "rb") : HTTP error 502. + Calls: get.oncotator.anno ... parse_and_simplify -> parseJSON -> parse_con -> open -> open.connection + Execution halted + ``` + +* checking data for ASCII and uncompressed saves ... WARNING + ``` + + Note: significantly better compression could be obtained + by using R CMD build --resave-data + old_size new_size compress + WGCNAmelanoma_extension.RData 2.4Mb 2.1Mb xz + crcCase.RData 1.1Mb 678Kb xz + melanomaCase.RData 654Kb 473Kb xz + ``` + +* checking installed package size ... NOTE + ``` + installed size is 6.1Mb + sub-directories of 1Mb or more: + data 4.4Mb + doc 1.5Mb + ``` + +* checking dependencies in R code ... NOTE + ``` + Namespace in Imports field not imported from: ‘RTCGAToolbox’ + All declared Imports should be used. + Package in Depends field not imported from: ‘tidyverse’ + These packages need to be imported from (in the NAMESPACE file) + for when this namespace is loaded but not attached. + ``` + # d3Tree
@@ -2457,7 +2663,7 @@ Run `revdep_details(,"datadigest")` for more info * Version: 1.0.0 * Source code: https://github.com/cran/dataesgobr * Date/Publication: 2019-06-18 14:50:03 UTC -* Number of recursive dependencies: 72 +* Number of recursive dependencies: 73 Run `revdep_details(,"dataesgobr")` for more info @@ -2476,12 +2682,12 @@ Run `revdep_details(,"dataesgobr")` for more info
-* Version: 1.16.0 +* Version: 1.16.1 * Source code: https://github.com/cran/debrowser * URL: https://github.com/UMMS-Biocore/debrowser * BugReports: https://github.com/UMMS-Biocore/debrowser/issues/new -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 197 +* Date/Publication: 2020-05-14 +* Number of recursive dependencies: 198 Run `revdep_details(,"debrowser")` for more info @@ -2489,12 +2695,25 @@ Run `revdep_details(,"debrowser")` for more info ## In both -* checking package dependencies ... ERROR +* checking R code for possible problems ... NOTE ``` - Packages required but not available: 'org.Hs.eg.db', 'org.Mm.eg.db' - - See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ - manual. + checkCountData : : no visible binding for global variable + ‘err’ + debrowserdataload: no visible binding for global variable ‘demodata’ + debrowserhistogram: no visible global function definition for ‘config’ + getBarMainPlot: no visible global function definition for ‘config’ + getBoxMainPlot: no visible global function definition for ‘config’ + getDensityPlot: no visible binding for global variable ‘samples’ + getDensityPlot: no visible global function definition for ‘config’ + getIQRPlot: no visible global function definition for ‘config’ + mainScatterNew: no visible global function definition for ‘config’ + plot_pca: no visible binding for global variable ‘x’ + plot_pca: no visible binding for global variable ‘y’ + plot_pca: no visible binding for global variable ‘samples’ + plot_pca: no visible global function definition for ‘config’ + runHeatmap: no visible global function definition for ‘config’ + Undefined global functions or variables: + config demodata err samples x y ``` # delayed @@ -2575,7 +2794,7 @@ Run `revdep_details(,"detzrcr")` for more info * URL: https://github.com/matthewcarlucci/DiscoRhythm * BugReports: https://github.com/matthewcarlucci/DiscoRhythm/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 153 +* Number of recursive dependencies: 152 Run `revdep_details(,"DiscoRhythm")` for more info @@ -2605,7 +2824,7 @@ Run `revdep_details(,"DiscoRhythm")` for more info * Source code: https://github.com/cran/diveRsity * URL: http://diversityinlife.weebly.com/ * Date/Publication: 2017-04-04 10:59:38 UTC -* Number of recursive dependencies: 124 +* Number of recursive dependencies: 125 Run `revdep_details(,"diveRsity")` for more info @@ -2622,12 +2841,12 @@ Run `revdep_details(,"diveRsity")` for more info
-* Version: 5.4.3 +* Version: 5.4.5 * Source code: https://github.com/cran/DLMtool * URL: http://www.datalimitedtoolkit.org/ * BugReports: https://github.com/DLMtool/DLMtool/issues -* Date/Publication: 2020-04-16 21:20:10 UTC -* Number of recursive dependencies: 128 +* Date/Publication: 2020-06-16 14:10:28 UTC +* Number of recursive dependencies: 127 Run `revdep_details(,"DLMtool")` for more info @@ -2637,10 +2856,10 @@ Run `revdep_details(,"DLMtool")` for more info * checking installed package size ... NOTE ``` - installed size is 6.4Mb + installed size is 7.6Mb sub-directories of 1Mb or more: R 2.0Mb - data 2.1Mb + data 3.3Mb libs 1.1Mb ``` @@ -2747,7 +2966,7 @@ Run `revdep_details(,"dragon")` for more info * Version: 0.1 * Source code: https://github.com/cran/dropR * Date/Publication: 2015-01-02 06:52:56 -* Number of recursive dependencies: 18 +* Number of recursive dependencies: 19 Run `revdep_details(,"dropR")` for more info @@ -2795,7 +3014,7 @@ Run `revdep_details(,"dtwclust")` for more info * Source code: https://github.com/cran/DVHmetrics * URL: https://github.com/dwoll/DVHmetrics/ * Date/Publication: 2020-03-19 22:10:03 UTC -* Number of recursive dependencies: 71 +* Number of recursive dependencies: 72 Run `revdep_details(,"DVHmetrics")` for more info @@ -2832,7 +3051,7 @@ Run `revdep_details(,"dynamichazard")` for more info sub-directories of 1Mb or more: data 5.1Mb doc 1.7Mb - libs 2.6Mb + libs 2.7Mb ``` # EBImage @@ -2861,12 +3080,12 @@ Run `revdep_details(,"EBImage")` for more info morphology.cpp:196:14: warning: expression result unused [-Wunused-value] morphology.cpp:199:14: warning: expression result unused [-Wunused-value] morphology.cpp:203:14: warning: expression result unused [-Wunused-value] - See ‘/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex.nosync/EBImage/new/EBImage.Rcheck/00install.out’ for details. + See ‘/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex/EBImage/new/EBImage.Rcheck/00install.out’ for details. ``` * checking installed package size ... NOTE ``` - installed size is 7.7Mb + installed size is 7.6Mb sub-directories of 1Mb or more: doc 5.1Mb images 1.7Mb @@ -2893,36 +3112,6 @@ Run `revdep_details(,"effectR")` for more info All declared Imports should be used. ``` -# EHRtemporalVariability - -
- -* Version: 1.0.4 -* Source code: https://github.com/cran/EHRtemporalVariability -* URL: http://github.com/hms-dbmi/EHRtemporalVariability -* Date/Publication: 2020-03-28 08:20:31 UTC -* Number of recursive dependencies: 114 - -Run `revdep_details(,"EHRtemporalVariability")` for more info - -
- -## In both - -* checking installed package size ... NOTE - ``` - installed size is 9.7Mb - sub-directories of 1Mb or more: - doc 4.4Mb - extdata 5.1Mb - ``` - -* checking dependencies in R code ... NOTE - ``` - Namespace in Imports field not imported from: ‘shiny’ - All declared Imports should be used. - ``` - # elementR
@@ -2932,7 +3121,7 @@ Run `revdep_details(,"EHRtemporalVariability")` for more info * URL: https://github.com/charlottesirot/elementR * BugReports: https://github.com/charlottesirot/elementR/issues * Date/Publication: 2018-05-03 14:08:24 UTC -* Number of recursive dependencies: 120 +* Number of recursive dependencies: 121 Run `revdep_details(,"elementR")` for more info @@ -2970,7 +3159,7 @@ Run `revdep_details(,"elementR")` for more info * Version: 7.6 * Source code: https://github.com/cran/embryogrowth * Date/Publication: 2019-08-30 07:10:02 UTC -* Number of recursive dependencies: 80 +* Number of recursive dependencies: 81 Run `revdep_details(,"embryogrowth")` for more info @@ -2992,7 +3181,7 @@ Run `revdep_details(,"embryogrowth")` for more info * URL: https://docs.ropensci.org/EML, https://github.com/ropensci/EML * BugReports: https://github.com/ropensci/EML/issues * Date/Publication: 2020-02-08 06:10:15 UTC -* Number of recursive dependencies: 90 +* Number of recursive dependencies: 91 Run `revdep_details(,"EML")` for more info @@ -3013,7 +3202,7 @@ Run `revdep_details(,"EML")` for more info * Source code: https://github.com/cran/ENCODExplorer * BugReports: https://github.com/CharlesJB/ENCODExplorer/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 96 +* Number of recursive dependencies: 98 Run `revdep_details(,"ENCODExplorer")` for more info @@ -3021,35 +3210,49 @@ Run `revdep_details(,"ENCODExplorer")` for more info ## In both -* checking package dependencies ... ERROR +* checking R code for possible problems ... NOTE ``` - Package required but not available: ‘ENCODExplorerData’ - - See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ - manual. + createDesign: no visible binding for global variable ‘file_format’ + createDesign: no visible binding for global variable ‘status’ + createDesign: no visible binding for global variable ‘accession’ + createDesign: no visible binding for global variable ‘controls’ + createDesign : get_ctrl_design: no visible binding for global variable + ‘accession’ + createDesign : get_ctrl_design: no visible binding for global variable + ‘href’ + createDesign: no visible global function definition for ‘.’ + createDesign: no visible binding for global variable ‘href’ + createDesign: no visible binding for global variable ‘Experiment’ + createDesign: no visible binding for global variable ‘Value’ + downloadEncode: no visible binding for global variable ‘file_accession’ + downloadEncode: no visible binding for global variable ‘file_format’ + downloadEncode: no visible binding for global variable ‘accession’ + shinyEncode: no visible binding for global variable ‘ui’ + shinyEncode: no visible binding for global variable ‘server’ + Undefined global functions or variables: + . Experiment Value accession controls file_accession file_format href + server status ui ``` -# enviPick +# enviGCMS
-* Version: 1.5 -* Source code: https://github.com/cran/enviPick -* Date/Publication: 2016-06-06 17:56:38 -* Number of recursive dependencies: 20 +* Version: 0.6.6 +* Source code: https://github.com/cran/enviGCMS +* URL: https://github.com/yufree/enviGCMS +* Date/Publication: 2020-06-04 15:20:06 UTC +* Number of recursive dependencies: 138 -Run `revdep_details(,"enviPick")` for more info +Run `revdep_details(,"enviGCMS")` for more info
## In both -* checking package dependencies ... ERROR +* checking package dependencies ... NOTE ``` - Package required but not available: ‘readMzXmlData’ - - See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ - manual. + Package suggested but not available for checking: ‘xcms’ ``` # epicontacts @@ -3105,7 +3308,7 @@ Run `revdep_details(,"EpiSignalDetection")` for more info * Version: 1.10.0 * Source code: https://github.com/cran/epivizrChart * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 168 +* Number of recursive dependencies: 172 Run `revdep_details(,"epivizrChart")` for more info @@ -3113,34 +3316,6 @@ Run `revdep_details(,"epivizrChart")` for more info ## In both -* checking tests ... - ``` - ERROR - Running the tests in ‘tests/testthat.R’ failed. - Last 13 lines of output: - 3. utils::head(keys(hgu133plus2.db, keytype = "PROBEID"), nprobeids) revdep/checks.noindex.nosync/epivizrChart/new/epivizrChart.Rcheck/tests/testthat/helper-makeData.R:20:2 - - ══ testthat results ═══════════════════════════════════════════════════════════ - [ OK: 0 | SKIPPED: 0 | WARNINGS: 8 | FAILED: 8 ] - 1. Error: initializing charts works with data objects (@test-chart.R#5) - 2. Error: initializing charts works with measurements (@test-chart.R#63) - 3. Error: revisualizing charts as a different chart type works (@test-chart.R#80) - 4. Error: navigating chart to different region works (@test-chart.R#91) - 5. Error: initializing charts within an environment works (@test-env.R#5) - 6. Error: removing charts from an environment works (@test-env.R#32) - 7. Error: initializing charts within a navigation works (@test-nav.R#5) - 8. Error: navigating charts within a navigation works (@test-nav.R#31) - - Error: testthat unit tests failed - Execution halted - ``` - -* checking package dependencies ... NOTE - ``` - Packages suggested but not available for checking: - 'antiProfilesData', 'hgu133plus2.db', 'Mus.musculus', 'Homo.sapiens' - ``` - * checking installed package size ... NOTE ``` installed size is 25.1Mb @@ -3163,7 +3338,7 @@ Run `revdep_details(,"epivizrChart")` for more info * Version: 1.4.0 * Source code: https://github.com/cran/erma * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 138 +* Number of recursive dependencies: 139 Run `revdep_details(,"erma")` for more info @@ -3171,12 +3346,31 @@ Run `revdep_details(,"erma")` for more info ## In both -* checking package dependencies ... ERROR +* checking installed package size ... NOTE ``` - Package required but not available: ‘Homo.sapiens’ - - See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ - manual. + installed size is 218.3Mb + sub-directories of 1Mb or more: + bed_tabix 178.2Mb + data 37.1Mb + doc 2.1Mb + ``` + +* checking R code for possible problems ... NOTE + ``` + geneTxRange: no visible global function definition for ‘select’ + genemodelOLD: no visible binding for global variable ‘exonsBy’ + stateProfile: no visible binding for global variable ‘states_25’ + stateProfile: no visible binding for global variable ‘short_celltype’ + stateProfile: no visible binding for global variable ‘name’ + statesByRange: no visible binding for global variable ‘mod’ + statesByRange: no visible binding for global variable ‘upstream’ + statesByRange: no visible binding for global variable ‘downstream’ + statesByRange : : no visible binding for global variable + ‘tss’ + statesByRange: no visible binding for global variable ‘states_25’ + Undefined global functions or variables: + downstream exonsBy mod name select short_celltype states_25 tss + upstream ``` # EventStudy @@ -3188,7 +3382,7 @@ Run `revdep_details(,"erma")` for more info * URL: http://eventstudytools.com * BugReports: https://github.com/EventStudyTools/api-wrapper.r/issues * Date/Publication: 2019-03-14 12:13:31 UTC -* Number of recursive dependencies: 135 +* Number of recursive dependencies: 132 Run `revdep_details(,"EventStudy")` for more info @@ -3210,6 +3404,50 @@ Run `revdep_details(,"EventStudy")` for more info All declared Imports should be used. ``` +# ezplot + +
+ +* Version: 0.6.1 +* Source code: https://github.com/cran/ezplot +* Date/Publication: 2020-06-13 14:30:02 UTC +* Number of recursive dependencies: 98 + +Run `revdep_details(,"ezplot")` for more info + +
+ +## In both + +* checking dependencies in R code ... NOTE + ``` + Namespace in Imports field not imported from: ‘tsibble’ + All declared Imports should be used. + ``` + +# farrell + +
+ +* Version: 0.2.0 +* Source code: https://github.com/cran/farrell +* URL: https://github.com/feddelegrand7/farrell +* BugReports: https://github.com/feddelegrand7/farrell/issues +* Date/Publication: 2020-06-03 05:20:14 UTC +* Number of recursive dependencies: 57 + +Run `revdep_details(,"farrell")` for more info + +
+ +## In both + +* checking dependencies in R code ... NOTE + ``` + Namespace in Imports field not imported from: ‘rlang’ + All declared Imports should be used. + ``` + # FastqCleaner
@@ -3256,7 +3494,7 @@ Run `revdep_details(,"FastqCleaner")` for more info * Version: 1.8.0 * Source code: https://github.com/cran/FELLA * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 100 +* Number of recursive dependencies: 101 Run `revdep_details(,"FELLA")` for more info @@ -3264,10 +3502,26 @@ Run `revdep_details(,"FELLA")` for more info ## In both -* checking package dependencies ... NOTE +* checking running R code from vignettes ... ``` - Packages suggested but not available for checking: - 'org.Hs.eg.db', 'org.Mm.eg.db' + ‘musmusculus.Rmd’ using ‘UTF-8’... OK + ‘quickstart.Rmd’ using ‘UTF-8’... OK + ‘zebrafish.Rmd’ using ‘UTF-8’... OK + ‘FELLA.Rnw’ using ‘UTF-8’... failed + ERROR + Errors in running code in vignettes: + when running code in ‘FELLA.Rnw’ + ... + + > g.go <- addGOToGraph(graph = g, GOterm = "GO:0005739", + + godata.options = list(OrgDb = "org.Hs.eg.db", ont = "CC"), + + mart.options = list( .... [TRUNCATED] + Ensembl site unresponsive, trying useast mirror + Ensembl site unresponsive, trying uswest mirror + + When sourcing ‘FELLA.R’: + Error: Multiple cache results found + Execution halted ``` * checking R code for possible problems ... NOTE @@ -3290,7 +3544,7 @@ Run `revdep_details(,"FELLA")` for more info * URL: https://firebase.john-coene.com/, https://github.com/JohnCoene/firebase * BugReports: https://github.com/JohnCoene/firebase/issues * Date/Publication: 2020-03-30 15:50:05 UTC -* Number of recursive dependencies: 21 +* Number of recursive dependencies: 22 Run `revdep_details(,"firebase")` for more info @@ -3333,7 +3587,7 @@ Run `revdep_details(,"fitteR")` for more info * URL: https://github.com/tomroh/fitur * BugReports: https://github.com/tomroh/fitur/issues * Date/Publication: 2018-09-01 19:20:03 UTC -* Number of recursive dependencies: 81 +* Number of recursive dependencies: 79 Run `revdep_details(,"fitur")` for more info @@ -3380,7 +3634,7 @@ Run `revdep_details(,"flair")` for more info * URL: http://www.github.com/gustavobio/flora * BugReports: http://www.github.com/gustavobio/flora/issues * Date/Publication: 2020-04-28 05:00:03 UTC -* Number of recursive dependencies: 52 +* Number of recursive dependencies: 53 Run `revdep_details(,"flora")` for more info @@ -3399,9 +3653,9 @@ Run `revdep_details(,"flora")` for more info
-* Version: 1.18.0 +* Version: 1.18.2 * Source code: https://github.com/cran/flowAI -* Date/Publication: 2020-04-27 +* Date/Publication: 2020-06-16 * Number of recursive dependencies: 80 Run `revdep_details(,"flowAI")` for more info @@ -3448,75 +3702,14 @@ Run `revdep_details(,"flowcatchR")` for more info Please remove these calls from your code. ``` -# flowPloidy - -
- -* Version: 1.14.0 -* Source code: https://github.com/cran/flowPloidy -* URL: https://github.com/plantarum/flowPloidy -* BugReports: https://github.com/plantarum/flowPloidy/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 103 - -Run `revdep_details(,"flowPloidy")` for more info - -
- -## In both - -* checking examples ... ERROR - ``` - Running examples in ‘flowPloidy-Ex.R’ failed - The error most likely occurred in: - - > ### Name: FlowHist - > ### Title: FlowHist - > ### Aliases: FlowHist batchFlowHist - > - > ### ** Examples - > - > library(flowPloidyData) - Error in library(flowPloidyData) : - there is no package called ‘flowPloidyData’ - Execution halted - ``` - -* checking tests ... - ``` - ERROR - Running the tests in ‘tests/testthat.R’ failed. - Last 13 lines of output: - Backtrace: - 1. base::library(flowPloidyData) - - ── 2. Error: (unknown) (@testmodels.R#2) ────────────────────────────────────── - there is no package called 'flowPloidyData' - Backtrace: - 1. base::library(flowPloidyData) - - ══ testthat results ═══════════════════════════════════════════════════════════ - [ OK: 0 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 2 ] - 1. Error: (unknown) (@testcore.R#2) - 2. Error: (unknown) (@testmodels.R#2) - - Error: testthat unit tests failed - Execution halted - ``` - -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘flowPloidyData’ - ``` - # frailtypack
-* Version: 3.2.0 +* Version: 3.3.0 * Source code: https://github.com/cran/frailtypack * URL: https://virginie1rondeau.wixsite.com/virginierondeau/software-frailtypack https://frailtypack-pkg.shinyapps.io/shiny_frailtypack -* Date/Publication: 2020-04-12 14:50:03 UTC +* Date/Publication: 2020-06-15 06:00:12 UTC * Number of recursive dependencies: 82 Run `revdep_details(,"frailtypack")` for more info @@ -3525,21 +3718,133 @@ Run `revdep_details(,"frailtypack")` for more info ## In both -* checking installed package size ... NOTE +* checking whether package ‘frailtypack’ can be installed ... ERROR ``` - installed size is 7.9Mb - sub-directories of 1Mb or more: - R 2.0Mb - help 1.8Mb - libs 2.5Mb + Installation failed. + See ‘/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex.nosync/frailtypack/new/frailtypack.Rcheck/00install.out’ for details. ``` -* checking dependencies in R code ... NOTE +## Installation + +### Devel + +``` +* installing *source* package ‘frailtypack’ ... +** package ‘frailtypack’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c Adonnees.f90 -o Adonnees.o +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c AparamMultive.f90 -o AparamMultive.o +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c Aparameters.f90 -o Aparameters.o +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c aGhermite.f90 -o aGhermite.o +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c ahrmsym.f90 -o ahrmsym.o +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c funcpajsplinesIndiv.f90 -o funcpajsplinesIndiv.o +clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -c init.c -o init.o +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c risque.f90 -o risque.o +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c somme.f90 -o somme.o +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c test.f90 -o test.o +funcpajsplinesIndiv.f90:6:8: + + use comon,only:mm,mm3,mm2,mm1,& !m3m3,m2m2,m1m1,mmm,m3m2,m3m1,m3m,m2m1,m2m,m1m + 1 +Fatal Error: Can't open module file ‘comon.mod’ for reading at (1): No such file or directory +compilation terminated. +make: *** [funcpajsplinesIndiv.o] Error 1 +make: *** Waiting for unfinished jobs.... +somme.f90:7:47: + + integer:: i,num_thread,num_proc,nb_thread,d + 1 +Warning: Unused variable ‘d’ declared at (1) [-Wunused-variable] +somme.f90:7:45: + + integer:: i,num_thread,num_proc,nb_thread,d + 1 +Warning: Unused variable ‘nb_thread’ declared at (1) [-Wunused-variable] +somme.f90:1:31: + + subroutine somme(ab,s,nboot,nbr,vOut) + 1 +Warning: Unused dummy argument ‘nbr’ at (1) [-Wunused-dummy-argument] +somme.f90:7:35: + + integer:: i,num_thread,num_proc,nb_thread,d + 1 +Warning: Unused variable ‘num_proc’ declared at (1) [-Wunused-variable] +ERROR: compilation failed for package ‘frailtypack’ +* removing ‘/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex.nosync/frailtypack/new/frailtypack.Rcheck/frailtypack’ + +``` +### CRAN + +``` +* installing *source* package ‘frailtypack’ ... +** package ‘frailtypack’ successfully unpacked and MD5 sums checked +** using staged installation +** libs +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c Adonnees.f90 -o Adonnees.o +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c AparamMultive.f90 -o AparamMultive.o +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c Aparameters.f90 -o Aparameters.o +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c aGhermite.f90 -o aGhermite.o +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c ahrmsym.f90 -o ahrmsym.o +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c funcpajsplinesIndiv.f90 -o funcpajsplinesIndiv.o +clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fPIC -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -c init.c -o init.o +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c risque.f90 -o risque.o +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c somme.f90 -o somme.o +gfortran -mmacosx-version-min=10.13 -fno-optimize-sibling-calls -fPIC -Wall -g -O2 -c test.f90 -o test.o +funcpajsplinesIndiv.f90:4:8: + + use tailles + 1 +Fatal Error: Can't open module file ‘tailles.mod’ for reading at (1): No such file or directory +compilation terminated. +somme.f90:7:47: + + integer:: i,num_thread,num_proc,nb_thread,d + 1 +Warning: Unused variable ‘d’ declared at (1) [-Wunused-variable] +somme.f90:7:45: + + integer:: i,num_thread,num_proc,nb_thread,d + 1 +Warning: Unused variable ‘nb_thread’ declared at (1) [-Wunused-variable] +somme.f90:1:31: + + subroutine somme(ab,s,nboot,nbr,vOut) + 1 +Warning: Unused dummy argument ‘nbr’ at (1) [-Wunused-dummy-argument] +somme.f90:7:35: + + integer:: i,num_thread,num_proc,nb_thread,d + 1 +Warning: Unused variable ‘num_proc’ declared at (1) [-Wunused-variable] +make: *** [funcpajsplinesIndiv.o] Error 1 +make: *** Waiting for unfinished jobs.... +ERROR: compilation failed for package ‘frailtypack’ +* removing ‘/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex.nosync/frailtypack/old/frailtypack.Rcheck/frailtypack’ + +``` +# FSK2R + +
+ +* Version: 0.1.1 +* Source code: https://github.com/cran/FSK2R +* Date/Publication: 2020-05-13 15:00:02 UTC +* Number of recursive dependencies: 88 + +Run `revdep_details(,"FSK2R")` for more info + +
+ +## In both + +* checking package dependencies ... ERROR ``` - Namespaces in Imports field not imported from: - ‘jsonlite’ ‘rhandsontable’ ‘shinyBS’ ‘shinydashboard’ ‘shinyjs’ - ‘shinythemes’ - All declared Imports should be used. + Packages required but not available: 'googlesheets', 'readtext' + + See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ + manual. ``` # FunChIP @@ -3549,7 +3854,7 @@ Run `revdep_details(,"frailtypack")` for more info * Version: 1.14.0 * Source code: https://github.com/cran/FunChIP * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 49 +* Number of recursive dependencies: 50 Run `revdep_details(,"FunChIP")` for more info @@ -3557,41 +3862,12 @@ Run `revdep_details(,"FunChIP")` for more info ## In both -* checking data for ASCII and uncompressed saves ... WARNING +* checking package dependencies ... ERROR ``` - - Note: significantly better compression could be obtained - by using R CMD build --resave-data - old_size new_size compress - peaks.rda 638Kb 112Kb xz - ``` - -* checking running R code from vignettes ... - ``` - ‘FunChIP.Rnw’... failed - WARNING - Errors in running code in vignettes: - when running code in ‘FunChIP.Rnw’ - ... + Package required but not available: ‘fda’ - > BiocStyle::latex() - - When sourcing ‘FunChIP.R’: - Error: there is no package called ‘BiocStyle’ - Execution halted - ``` - -* checking installed package size ... NOTE - ``` - installed size is 24.0Mb - sub-directories of 1Mb or more: - doc 1.5Mb - extdata 21.5Mb - ``` - -* checking for unstated dependencies in vignettes ... NOTE - ``` - '::' or ':::' import not declared from: ‘BiocStyle’ + See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ + manual. ``` # g3viz @@ -3627,7 +3903,7 @@ Run `revdep_details(,"g3viz")` for more info * URL: https://github.com/labbcb/GA4GHshiny * BugReports: https://github.com/labbcb/GA4GHshiny/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 120 +* Number of recursive dependencies: 121 Run `revdep_details(,"GA4GHshiny")` for more info @@ -3640,28 +3916,23 @@ Run `revdep_details(,"GA4GHshiny")` for more info ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output: - Backtrace: - 1. base::library(TxDb.Hsapiens.UCSC.hg19.knownGene) - ══ testthat results ═══════════════════════════════════════════════════════════ - [ OK: 3 | SKIPPED: 0 | WARNINGS: 1 | FAILED: 7 ] + [ OK: 4 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 12 ] 1. Error: app works (@test-app.R#5) - 2. Error: getGene works (@test-getGene.R#5) - 3. Error: initializeReferences works (@test-initializeReferences.R#6) - 4. Error: initializeVariantSet works (@test-initializeVariantSet.R#6) - 5. Error: (unknown) (@test-searchVariantsByGeneSymbol.R#4) - 6. Error: tidyVariants works with searchVariants output (@test-tidyVariants.R#6) - 7. Error: tidyVariants works with searchVariantsByGeneSymbol output (@test-tidyVariants.R#17) + 2. Error: initializeReferences works (@test-initializeReferences.R#6) + 3. Error: initializeVariantSet works (@test-initializeVariantSet.R#6) + 4. Error: searchVariantsByGeneSymbol works (@test-searchVariantsByGeneSymbol.R#9) + 5. Error: searchVariantsByGeneSymbol feature=transcripts works (@test-searchVariantsByGeneSymbol.R#22) + 6. Error: searchVariantsByGeneSymbol feature=exons works (@test-searchVariantsByGeneSymbol.R#35) + 7. Error: searchVariantsByGeneSymbol feature=cds works (@test-searchVariantsByGeneSymbol.R#48) + 8. Error: searchVariantsByGeneSymbol feature=promoters works (@test-searchVariantsByGeneSymbol.R#60) + 9. Error: searchVariantsByGeneSymbol multiple genes works (@test-searchVariantsByGeneSymbol.R#72) + 1. ... Error: testthat unit tests failed Execution halted ``` -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘TxDb.Hsapiens.UCSC.hg19.knownGene’ - ``` - * checking for hidden files and directories ... NOTE ``` Found the following hidden files and directories: @@ -3679,7 +3950,7 @@ Run `revdep_details(,"GA4GHshiny")` for more info * URL: https://bradduthie.github.io/gamesGA/ * BugReports: https://github.com/bradduthie/gamesGA/issues * Date/Publication: 2020-03-01 21:00:02 UTC -* Number of recursive dependencies: 36 +* Number of recursive dependencies: 37 Run `revdep_details(,"gamesGA")` for more info @@ -3702,7 +3973,7 @@ Run `revdep_details(,"gamesGA")` for more info * URL: http://github.com/dmenne/gastempt * BugReports: http://github.com/dmenne/gastempt/issues * Date/Publication: 2020-05-01 10:10:02 UTC -* Number of recursive dependencies: 87 +* Number of recursive dependencies: 88 Run `revdep_details(,"gastempt")` for more info @@ -3712,9 +3983,9 @@ Run `revdep_details(,"gastempt")` for more info * checking installed package size ... NOTE ``` - installed size is 5.2Mb + installed size is 5.4Mb sub-directories of 1Mb or more: - libs 4.7Mb + libs 4.9Mb ``` * checking dependencies in R code ... NOTE @@ -3735,7 +4006,7 @@ Run `revdep_details(,"gastempt")` for more info * Version: 1.8.0 * Source code: https://github.com/cran/GDCRNATools * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 213 +* Number of recursive dependencies: 214 Run `revdep_details(,"GDCRNATools")` for more info @@ -3792,7 +4063,7 @@ Run `revdep_details(,"GDCRNATools")` for more info * Version: 1.0.1 * Source code: https://github.com/cran/genBart * Date/Publication: 2018-03-13 22:13:14 UTC -* Number of recursive dependencies: 145 +* Number of recursive dependencies: 146 Run `revdep_details(,"genBart")` for more info @@ -3824,11 +4095,6 @@ Run `revdep_details(,"GeneNetworkBuilder")` for more info ## In both -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘simpIntLists’ - ``` - * checking installed package size ... NOTE ``` installed size is 11.6Mb @@ -3842,9 +4108,9 @@ Run `revdep_details(,"GeneNetworkBuilder")` for more info
-* Version: 1.4.2 +* Version: 1.4.4 * Source code: https://github.com/cran/GenEst -* Date/Publication: 2020-03-14 15:20:09 UTC +* Date/Publication: 2020-06-08 18:20:03 UTC * Number of recursive dependencies: 83 Run `revdep_details(,"GenEst")` for more info @@ -3863,12 +4129,12 @@ Run `revdep_details(,"GenEst")` for more info
-* Version: 1.0.0 +* Version: 1.0.1 * Source code: https://github.com/cran/GeneTonic * URL: https://github.com/federicomarini/GeneTonic * BugReports: https://github.com/federicomarini/GeneTonic/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 175 +* Date/Publication: 2020-05-28 +* Number of recursive dependencies: 176 Run `revdep_details(,"GeneTonic")` for more info @@ -3876,43 +4142,6 @@ Run `revdep_details(,"GeneTonic")` for more info ## In both -* checking examples ... ERROR - ``` - Running examples in ‘GeneTonic-Ex.R’ failed - The error most likely occurred in: - - > ### Name: GeneTonic - > ### Title: GeneTonic - > ### Aliases: GeneTonic - > - > ### ** Examples - > - > library("macrophage") - Error in library("macrophage") : there is no package called ‘macrophage’ - Execution halted - ``` - -* checking tests ... - ``` - ERROR - Running the tests in ‘tests/testthat.R’ failed. - Complete output: - > library(testthat) - > library(GeneTonic) - - > - > test_check("GeneTonic") - --- Loading packages... - Error in library("macrophage") : there is no package called 'macrophage' - Calls: test_check ... suppressPackageStartupMessages -> withCallingHandlers -> library - Execution halted - ``` - -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘macrophage’ - ``` - * checking installed package size ... NOTE ``` installed size is 13.9Mb @@ -3934,7 +4163,7 @@ Run `revdep_details(,"GeneTonic")` for more info * URL: https://github.com/rcastelo/GenomicScores * BugReports: https://github.com/rcastelo/GenomicScores/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 141 +* Number of recursive dependencies: 142 Run `revdep_details(,"GenomicScores")` for more info @@ -3971,9 +4200,7 @@ Run `revdep_details(,"GenomicScores")` for more info * checking package dependencies ... NOTE ``` Packages suggested but not available for checking: - 'BSgenome.Hsapiens.UCSC.hg19', 'phastCons100way.UCSC.hg19', - 'MafDb.1Kgenomes.phase1.hs37d5', 'SNPlocs.Hsapiens.dbSNP144.GRCh37', - 'TxDb.Hsapiens.UCSC.hg19.knownGene' + 'phastCons100way.UCSC.hg19', 'MafDb.1Kgenomes.phase1.hs37d5' ``` * checking for hidden files and directories ... NOTE @@ -4006,7 +4233,7 @@ Run `revdep_details(,"GenomicScores")` for more info * URL: https://flavjack.github.io/germinaquant/ * BugReports: https://github.com/flavjack/germinar/issues * Date/Publication: 2020-03-28 11:30:05 UTC -* Number of recursive dependencies: 105 +* Number of recursive dependencies: 111 Run `revdep_details(,"GerminaR")` for more info @@ -4025,12 +4252,12 @@ Run `revdep_details(,"GerminaR")` for more info
-* Version: 0.3.0 +* Version: 0.3.1 * Source code: https://github.com/cran/ggedit -* URL: https://github.com/metrumresearchgroup/ggedit -* BugReports: https://github.com/metrumresearchgroup/ggedit/issues -* Date/Publication: 2018-07-03 21:50:02 UTC -* Number of recursive dependencies: 79 +* URL: https://github.com/yonicd/ggedit +* BugReports: https://github.com/yonicd/ggedit/issues +* Date/Publication: 2020-06-02 11:50:06 UTC +* Number of recursive dependencies: 80 Run `revdep_details(,"ggedit")` for more info @@ -4101,7 +4328,7 @@ Run `revdep_details(,"ggplotAssist")` for more info * URL: https://github.com/smouksassi/ggquickeda * BugReports: https://github.com/smouksassi/ggquickeda/issues * Date/Publication: 2020-04-17 14:00:03 UTC -* Number of recursive dependencies: 158 +* Number of recursive dependencies: 157 Run `revdep_details(,"ggquickeda")` for more info @@ -4127,7 +4354,7 @@ Run `revdep_details(,"ggquickeda")` for more info * Source code: https://github.com/cran/gmDatabase * URL: http://www.r-project.org, http://www.stat.boogaart.de * Date/Publication: 2016-06-16 12:32:05 -* Number of recursive dependencies: 23 +* Number of recursive dependencies: 24 Run `revdep_details(,"gmDatabase")` for more info @@ -4144,11 +4371,11 @@ Run `revdep_details(,"gmDatabase")` for more info * checking whether the namespace can be loaded with stated dependencies ... WARNING ``` Error in dyn.load(file, DLLpath = DLLpath, ...) : - unable to load shared object '/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex.nosync/gmDatabase/RMySQL/libs/RMySQL.so': - dlopen(/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex.nosync/gmDatabase/RMySQL/libs/RMySQL.so, 6): Symbol not found: _GSS_C_NT_USER_NAME - Referenced from: /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex.nosync/gmDatabase/RMySQL/libs/RMySQL.so + unable to load shared object '/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex/gmDatabase/RMySQL/libs/RMySQL.so': + dlopen(/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex/gmDatabase/RMySQL/libs/RMySQL.so, 6): Symbol not found: _GSS_C_NT_USER_NAME + Referenced from: /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex/gmDatabase/RMySQL/libs/RMySQL.so Expected in: flat namespace - in /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex.nosync/gmDatabase/RMySQL/libs/RMySQL.so + in /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/library.noindex/gmDatabase/RMySQL/libs/RMySQL.so Calls: ... namespaceImport -> loadNamespace -> library.dynam -> dyn.load Execution halted @@ -4185,12 +4412,23 @@ Run `revdep_details(,"GmicR")` for more info ## In both -* checking package dependencies ... ERROR +* checking DESCRIPTION meta-information ... NOTE ``` - Package required but not available: ‘org.Mm.eg.db’ - - See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ - manual. + License components with restrictions not permitted: + GPL-2 + file LICENSE + ``` + +* checking dependencies in R code ... NOTE + ``` + Namespace in Imports field not imported from: ‘data.table’ + All declared Imports should be used. + ``` + +* checking R code for possible problems ... NOTE + ``` + GSEAGO_Builder: no visible binding for global variable ‘ex’ + Undefined global functions or variables: + ex ``` # GOFShiny @@ -4224,7 +4462,7 @@ Run `revdep_details(,"GOFShiny")` for more info * URL: http://dongjunchung.github.io/GPA/ * BugReports: https://github.com/dongjunchung/GPA/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 69 +* Number of recursive dependencies: 70 Run `revdep_details(,"GPA")` for more info @@ -4232,30 +4470,6 @@ Run `revdep_details(,"GPA")` for more info ## In both -* checking running R code from vignettes ... - ``` - ‘GPA-example.Rnw’... failed - WARNING - Errors in running code in vignettes: - when running code in ‘GPA-example.Rnw’ - ... - The following object is masked from ‘package:stats’: - - cov - - - > library(gpaExample) - - When sourcing ‘GPA-example.R’: - Error: there is no package called ‘gpaExample’ - Execution halted - ``` - -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘gpaExample’ - ``` - * checking for GNU extensions in Makefiles ... NOTE ``` GNU make is a SystemRequirements. @@ -4276,15 +4490,130 @@ Run `revdep_details(,"gQTLstats")` for more info ## In both -* checking package dependencies ... ERROR +* checking installed package size ... NOTE ``` - Package required but not available: ‘Homo.sapiens’ + installed size is 65.7Mb + sub-directories of 1Mb or more: + data 11.0Mb + doc 1.1Mb + registries 18.8Mb + vcf 33.8Mb + ``` + +* checking R code for possible problems ... NOTE + ``` + ... + ‘permScore_3’ + storeToMaxAssocBySNP: no visible global function definition for ‘nth’ + storeToMaxAssocBySNP: no visible binding for global variable ‘MAF’ + storeToMaxAssocBySNP: no visible binding for global variable ‘probeid’ + storeToMaxAssocBySNP: no visible binding for global variable ‘mindist’ + tqbrowser: no visible global function definition for ‘experiments’ + tqbrowser : server: no visible global function definition for + ‘experiments’ + tqbrowser : server: no visible global function definition for + ‘TabixFile’ + tqbrowser : server: no visible binding for global variable ‘assoc’ + tqbrowser : server: no visible binding for global variable ‘stateid’ + tqbrowser : server: no visible binding for global variable ‘state’ + transTable: no visible binding for global variable ‘i’ + tsByRank_sing: no visible binding for global variable ‘i’ + tsByRank_sing : : no visible binding for global variable ‘i’ + boxswarm,SnpToGeneQTL: no visible binding for global variable ‘g1’ + Undefined global functions or variables: + DNAStringSetList MAF TabixFile TxDb assoc calls ch chisq criterion ex + exonsBy experiments g1 geom_boxplot gt i id maf mindist ml10fdr nth + permScore_1 permScore_2 permScore_3 probeid snp state stateid value x + ``` + +* checking contents of ‘data’ directory ... NOTE + ``` + Output for data("bigfiltFDR", package = "gQTLstats"): + + + Output for data("bigrawFDR", package = "gQTLstats"): + + + Output for data("filtFDR", package = "gQTLstats"): + + + Output for data("rawFDR", package = "gQTLstats"): + + + Output for data("sensByProbe", package = "gQTLstats"): + + + ``` + +* checking data for non-ASCII characters ... NOTE + ``` + Note: found 8 marked Latin-1 strings + Note: found 12 marked UTF-8 strings + ``` + +# gravitas + +
+ +* Version: 0.1.2 +* Source code: https://github.com/cran/gravitas +* URL: https://github.com/Sayani07/gravitas/ +* BugReports: https://github.com/Sayani07/gravitas/issues +* Date/Publication: 2020-02-17 09:20:02 UTC +* Number of recursive dependencies: 93 + +Run `revdep_details(,"gravitas")` for more info + +
+ +## In both + +* checking examples ... ERROR + ``` + ... + > + > library(dplyr) - Packages suggested but not available for checking: - 'geuvPack', 'geuvStore2', 'TxDb.Hsapiens.UCSC.hg19.knownGene' + Attaching package: ‘dplyr’ - See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ - manual. + The following objects are masked from ‘package:stats’: + + filter, lag + + The following objects are masked from ‘package:base’: + + intersect, setdiff, setequal, union + + > library(ggplot2) + > library(lvplot) + > # Search for granularities + > smart_meter10 %>% + + search_gran(highest_unit = "week") + Error in if (tsibble::is_regular(.data)) { : argument is of length zero + Calls: %>% ... freduce -> withVisible -> -> search_gran + Execution halted + ``` + +* checking tests ... + ``` + ERROR + Running the tests in ‘tests/testthat.R’ failed. + Last 13 lines of output: + > + > test_check("gravitas") + ── 1. Error: norun check runs in create_gran (@test-harmony.R#48) ───────────── + argument is of length zero + Backtrace: + 1. testthat::expect_equal(...) + 10. gravitas::harmony(., ugran = "day", filter_in = "wknd_wday") + 13. gravitas::search_gran(...) + + ══ testthat results ═══════════════════════════════════════════════════════════ + [ OK: 126 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 1 ] + 1. Error: norun check runs in create_gran (@test-harmony.R#48) + + Error: testthat unit tests failed + Execution halted ``` # gridsampler @@ -4310,57 +4639,75 @@ Run `revdep_details(,"gridsampler")` for more info All declared Imports should be used. ``` -# GSVA +# GSCA
-* Version: 1.36.0 -* Source code: https://github.com/cran/GSVA -* URL: https://github.com/rcastelo/GSVA -* BugReports: https://github.com/rcastelo/GSVA/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 67 +* Version: 2.17.0 +* Source code: https://github.com/cran/GSCA +* Date/Publication: 2019-10-29 +* Number of recursive dependencies: 75 -Run `revdep_details(,"GSVA")` for more info +Run `revdep_details(,"GSCA")` for more info
## In both -* checking running R code from vignettes ... - ``` - ‘GSVA.Rnw’ using ‘latin1’... failed - WARNING - Errors in running code in vignettes: - when running code in ‘GSVA.Rnw’ - ... - The following object is masked from ‘package:XML’: - - addNode - - - > library(GSVAdata) - - When sourcing ‘GSVA.R’: - Error: there is no package called ‘GSVAdata’ - Execution halted - ``` - * checking package dependencies ... NOTE ``` - Package suggested but not available for checking: ‘GSVAdata’ + Depends: includes the non-default packages: + 'shiny', 'sp', 'gplots', 'ggplot2', 'reshape2', 'RColorBrewer', + 'rhdf5' + Adding so many packages to the search path is excessive and importing + selectively is preferable. + ``` + +* checking dependencies in R code ... NOTE + ``` + 'library' or 'require' calls in package code: + ‘Affyhgu133A2Expr’ ‘Affyhgu133Plus2Expr’ ‘Affyhgu133aExpr’ + ‘Affymoe4302Expr’ + Please use :: or requireNamespace() instead. + See section 'Suggested packages' in the 'Writing R Extensions' manual. + ``` + +* checking R code for possible problems ... NOTE + ``` + ... + GSCAplot: no visible global function definition for ‘title’ + GSCAplot: no visible global function definition for ‘dev.off’ + annotatePeaks: no visible binding for global variable ‘allreffile’ + tabSearch: no visible global function definition for ‘data’ + tabSearch: no visible binding for global variable ‘Affyhgu133aExprtab’ + tabSearch: no visible binding for global variable ‘Affymoe4302Exprtab’ + tabSearch: no visible binding for global variable ‘Affyhgu133A2Exprtab’ + tabSearch: no visible binding for global variable + ‘Affyhgu133Plus2Exprtab’ + Undefined global functions or variables: + Affyhgu133A2Exprtab Affyhgu133Plus2Exprtab Affyhgu133aExprtab + Affymoe4302Exprtab P.value SampleType Var1 Var2 allreffile + colorRampPalette data dev.off fisher.test geneid hist par pdf qnorm + quantile sd str t.stat t.test title value variable write.csv + write.table + Consider adding + importFrom("grDevices", "colorRampPalette", "dev.off", "pdf") + importFrom("graphics", "hist", "par", "title") + importFrom("stats", "fisher.test", "qnorm", "quantile", "sd", "t.test") + importFrom("utils", "data", "str", "write.csv", "write.table") + to your NAMESPACE file. ``` # gt
-* Version: 0.2.0.5 +* Version: 0.2.1 * Source code: https://github.com/cran/gt * URL: https://github.com/rstudio/gt * BugReports: https://github.com/rstudio/gt/issues -* Date/Publication: 2020-03-31 10:10:02 UTC -* Number of recursive dependencies: 101 +* Date/Publication: 2020-05-23 07:00:02 UTC +* Number of recursive dependencies: 91 Run `revdep_details(,"gt")` for more info @@ -4370,9 +4717,9 @@ Run `revdep_details(,"gt")` for more info * checking installed package size ... NOTE ``` - installed size is 6.5Mb + installed size is 6.9Mb sub-directories of 1Mb or more: - help 5.1Mb + help 5.5Mb ``` * checking data for non-ASCII characters ... NOTE @@ -4389,7 +4736,7 @@ Run `revdep_details(,"gt")` for more info * URL: https://github.com/michaellevy/gwdegree, https://michaellevy.shinyapps.io/gwdegree/ * BugReports: https://github.com/michaellevy/gwdegree/issues * Date/Publication: 2016-07-09 10:46:45 -* Number of recursive dependencies: 74 +* Number of recursive dependencies: 75 Run `revdep_details(,"gwdegree")` for more info @@ -4409,10 +4756,10 @@ Run `revdep_details(,"gwdegree")` for more info
-* Version: 1.1 +* Version: 1.2.1 * Source code: https://github.com/cran/HaDeX -* Date/Publication: 2020-02-06 13:50:02 UTC -* Number of recursive dependencies: 127 +* Date/Publication: 2020-06-09 11:20:06 UTC +* Number of recursive dependencies: 129 Run `revdep_details(,"HaDeX")` for more info @@ -4420,6 +4767,13 @@ Run `revdep_details(,"HaDeX")` for more info ## In both +* checking installed package size ... NOTE + ``` + installed size is 5.0Mb + sub-directories of 1Mb or more: + HaDeX 4.0Mb + ``` + * checking dependencies in R code ... NOTE ``` Namespaces in Imports field not imported from: @@ -4461,7 +4815,7 @@ Run `revdep_details(,"hchinamap")` for more info * URL: http://jkunst.com/highcharter * BugReports: https://github.com/jbkunst/highcharter/issues * Date/Publication: 2019-01-15 16:50:03 UTC -* Number of recursive dependencies: 96 +* Number of recursive dependencies: 95 Run `revdep_details(,"highcharter")` for more info @@ -4484,7 +4838,7 @@ Run `revdep_details(,"highcharter")` for more info * Version: 1.4.0 * Source code: https://github.com/cran/HumanTranscriptomeCompendium * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 97 +* Number of recursive dependencies: 98 Run `revdep_details(,"HumanTranscriptomeCompendium")` for more info @@ -4568,12 +4922,12 @@ Run `revdep_details(,"hwordcloud")` for more info
-* Version: 1.12.0 +* Version: 1.12.1 * Source code: https://github.com/cran/ideal * URL: https://github.com/federicomarini/ideal, https://federicomarini.github.io/ideal/ * BugReports: https://github.com/federicomarini/ideal/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 190 +* Date/Publication: 2020-05-26 +* Number of recursive dependencies: 198 Run `revdep_details(,"ideal")` for more info @@ -4600,7 +4954,7 @@ Run `revdep_details(,"ideal")` for more info * Source code: https://github.com/cran/idefix * URL: https://github.com/traets/idefix * Date/Publication: 2020-04-07 14:40:05 UTC -* Number of recursive dependencies: 71 +* Number of recursive dependencies: 73 Run `revdep_details(,"idefix")` for more info @@ -4610,17 +4964,17 @@ Run `revdep_details(,"idefix")` for more info * checking Rd cross-references ... NOTE ``` - Packages unavailable to check Rd xrefs: ‘bayesm’, ‘ChoiceModelR’, ‘RSGHB’ + Packages unavailable to check Rd xrefs: ‘ChoiceModelR’, ‘RSGHB’ ``` # idem
-* Version: 4.0 +* Version: 5.0 * Source code: https://github.com/cran/idem -* Date/Publication: 2018-11-09 14:30:22 UTC -* Number of recursive dependencies: 94 +* Date/Publication: 2020-05-23 23:50:02 UTC +* Number of recursive dependencies: 104 Run `revdep_details(,"idem")` for more info @@ -4639,6 +4993,37 @@ Run `revdep_details(,"idem")` for more info GNU make is a SystemRequirements. ``` +# immunarch + +
+ +* Version: 0.6.5 +* Source code: https://github.com/cran/immunarch +* URL: https://immunarch.com/, https://github.com/immunomind/immunarch +* BugReports: https://github.com/immunomind/immunarch/issues +* Date/Publication: 2020-06-14 17:40:06 UTC +* Number of recursive dependencies: 164 + +Run `revdep_details(,"immunarch")` for more info + +
+ +## In both + +* checking installed package size ... NOTE + ``` + installed size is 8.3Mb + sub-directories of 1Mb or more: + data 5.0Mb + doc 1.6Mb + ``` + +* checking dependencies in R code ... NOTE + ``` + Namespace in Imports field not imported from: ‘dbplyr’ + All declared Imports should be used. + ``` + # IMWatson
@@ -4646,7 +5031,7 @@ Run `revdep_details(,"idem")` for more info * Version: 0.5.0 * Source code: https://github.com/cran/IMWatson * Date/Publication: 2019-03-29 16:40:03 UTC -* Number of recursive dependencies: 51 +* Number of recursive dependencies: 52 Run `revdep_details(,"IMWatson")` for more info @@ -4661,6 +5046,49 @@ Run `revdep_details(,"IMWatson")` for more info All declared Imports should be used. ``` +# IncucyteDRC + +
+ +* Version: 0.5.4 +* Source code: https://github.com/cran/IncucyteDRC +* URL: https://github.com/chapmandu2/IncucyteDRC +* BugReports: https://github.com/chapmandu2/IncucyteDRC/issues +* Date/Publication: 2016-04-23 14:21:03 +* Number of recursive dependencies: 119 + +Run `revdep_details(,"IncucyteDRC")` for more info + +
+ +## In both + +* checking examples ... ERROR + ``` + ... + ✖ could not find function "row_number" + ℹ Input `idx` is `row_number()`. + ℹ The error occured in group 1: sampleid = "PDD00017273", conc = 0.3703704. + Backtrace: + █ + 1. └─IncucyteDRC::fitDoseResponseCurve(test_idrc_set) + 2. └─IncucyteDRC::exportDRCDataToDataFrame(idrc_set, include_control) + 3. └─`%>%`(...) + 4. ├─base::withVisible(eval(quote(`_fseq`(`_lhs`)), env, env)) + 5. └─base::eval(quote(`_fseq`(`_lhs`)), env, env) + 6. └─base::eval(quote(`_fseq`(`_lhs`)), env, env) + 7. └─IncucyteDRC:::`_fseq`(`_lhs`) + 8. └─magrittr::freduce(value, `_function_list`) + 9. └─function_list[[i]](value) + 10. ├─dplyr::mutate(., idx = row_number()) + 11. └─dplyr:::mutate.data.frame(., idx = row_number()) + 12. └─dplyr:::mutate_cols(.data, ...) + + Backtrace: + █ + Execution halted + ``` + # INDperform
@@ -4670,7 +5098,7 @@ Run `revdep_details(,"IMWatson")` for more info * URL: https://github.com/saskiaotto/INDperform * BugReports: https://github.com/SaskiaAOtto/INDperform/issues * Date/Publication: 2020-01-09 12:30:14 UTC -* Number of recursive dependencies: 83 +* Number of recursive dependencies: 84 Run `revdep_details(,"INDperform")` for more info @@ -4704,8 +5132,6 @@ Run `revdep_details(,"INDperform")` for more info ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output: - 2. tibble:::`[<-.tbl_df`(`*tmp*`, 4, "condition", value = "x < 0.3") - 3. tibble:::tbl_subassign(x, i, j, value, i_arg, j_arg, substitute(value)) 4. tibble:::tbl_subassign_row(xj, i, value, value_arg) 5. base::tryCatch(...) 6. base:::tryCatchList(expr, classes, parentenv, handlers) @@ -4713,9 +5139,11 @@ Run `revdep_details(,"INDperform")` for more info 8. value[[3L]](cond) ══ testthat results ═══════════════════════════════════════════════════════════ - [ OK: 544 | SKIPPED: 0 | WARNINGS: 8 | FAILED: 2 ] - 1. Error: (unknown) (@test_model_gamm.R#4) - 2. Error: (unknown) (@test_scoring.R#15) + [ OK: 475 | SKIPPED: 0 | WARNINGS: 10 | FAILED: 4 ] + 1. Error: (unknown) (@test_calc_deriv.R#6) + 2. Error: (unknown) (@test_cond_boot.R#112) + 3. Error: (unknown) (@test_model_gamm.R#4) + 4. Error: (unknown) (@test_scoring.R#15) Error: testthat unit tests failed Execution halted @@ -4723,7 +5151,7 @@ Run `revdep_details(,"INDperform")` for more info * checking installed package size ... NOTE ``` - installed size is 5.5Mb + installed size is 5.6Mb sub-directories of 1Mb or more: data 3.6Mb help 1.6Mb @@ -4763,7 +5191,7 @@ Run `revdep_details(,"inlabru")` for more info * Version: 1.18.0 * Source code: https://github.com/cran/INSPEcT * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 135 +* Number of recursive dependencies: 136 Run `revdep_details(,"INSPEcT")` for more info @@ -4773,9 +5201,9 @@ Run `revdep_details(,"INSPEcT")` for more info * checking installed package size ... NOTE ``` - installed size is 10.8Mb + installed size is 10.9Mb sub-directories of 1Mb or more: - R 2.0Mb + R 2.1Mb data 2.8Mb doc 3.5Mb ``` @@ -4797,7 +5225,7 @@ Run `revdep_details(,"INSPEcT")` for more info * Version: 1.26.0 * Source code: https://github.com/cran/interactiveDisplay * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 178 +* Number of recursive dependencies: 181 Run `revdep_details(,"interactiveDisplay")` for more info @@ -4841,39 +5269,6 @@ Run `revdep_details(,"interactiveDisplay")` for more info to your NAMESPACE file. ``` -# interactiveDisplayBase - -
- -* Version: 1.26.0 -* Source code: https://github.com/cran/interactiveDisplayBase -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 27 - -Run `revdep_details(,"interactiveDisplayBase")` for more info - -
- -## In both - -* checking dependencies in R code ... WARNING - ``` - 'loadNamespace' or 'requireNamespace' call not declared from: ‘BiocManager’ - ``` - -* checking R code for possible problems ... NOTE - ``` - .usePackage: no visible global function definition for - ‘install.packages’ - .usePackage: no visible global function definition for - ‘installed.packages’ - Undefined global functions or variables: - install.packages installed.packages - Consider adding - importFrom("utils", "install.packages", "installed.packages") - to your NAMESPACE file. - ``` - # interAdapt
@@ -4881,7 +5276,7 @@ Run `revdep_details(,"interactiveDisplayBase")` for more info * Version: 0.1 * Source code: https://github.com/cran/interAdapt * Date/Publication: 2014-08-03 08:03:00 -* Number of recursive dependencies: 41 +* Number of recursive dependencies: 42 Run `revdep_details(,"interAdapt")` for more info @@ -4929,7 +5324,7 @@ Run `revdep_details(,"interAdapt")` for more info * URL: http://iohprofiler.liacs.nl, https://github.com/IOHprofiler/IOHAnalyzer * BugReports: https://github.com/IOHprofiler/IOHAnalyzer/issues * Date/Publication: 2020-01-10 15:30:03 UTC -* Number of recursive dependencies: 104 +* Number of recursive dependencies: 103 Run `revdep_details(,"IOHanalyzer")` for more info @@ -4959,7 +5354,7 @@ Run `revdep_details(,"IOHanalyzer")` for more info * URL: https://github.com/iSEE/iSEE * BugReports: https://github.com/iSEE/iSEE/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 153 +* Number of recursive dependencies: 154 Run `revdep_details(,"iSEE")` for more info @@ -4970,10 +5365,6 @@ Run `revdep_details(,"iSEE")` for more info * checking examples ... ERROR ``` ... - > - > qc_color_fun <- function(n){ - + qc_colors <- c("forestgreen", "firebrick1") - + names(qc_colors) <- c("Y", "N") + return(qc_colors) + } > @@ -4989,7 +5380,11 @@ Run `revdep_details(,"iSEE")` for more info > # Example SingleCellExperiment ---- > > library(scRNAseq) - Error in library(scRNAseq) : there is no package called ‘scRNAseq’ + > sce <- ReprocessedAllenData(assays="tophat_counts") + Error: Corrupt Cache: sqlite file + See vignette section on corrupt cache + cache: /Users/barret/Library/Caches/ExperimentHub + filename: experimenthub.sqlite3 Execution halted ``` @@ -4998,7 +5393,6 @@ Run `revdep_details(,"iSEE")` for more info ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output: - The following objects are masked from 'package:base': aperm, apply, rowsum @@ -5007,19 +5401,15 @@ Run `revdep_details(,"iSEE")` for more info > > test_check("iSEE") Loading required package: scRNAseq - Error in eval(exprs, env) : require(scRNAseq) is not TRUE - Calls: test_check ... source_dir -> lapply -> FUN -> eval -> eval -> stopifnot - In addition: Warning message: - In library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE, : - there is no package called 'scRNAseq' + Loading required package: scater + Loading required package: ggplot2 + Error: Corrupt Cache: sqlite file + See vignette section on corrupt cache + cache: /Users/barret/Library/Caches/ExperimentHub + filename: experimenthub.sqlite3 Execution halted ``` -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘scRNAseq’ - ``` - * checking installed package size ... NOTE ``` installed size is 26.3Mb @@ -5042,7 +5432,7 @@ Run `revdep_details(,"iSEE")` for more info * URL: https://github.com/iSEE/iSEEu * BugReports: https://github.com/iSEE/iSEEu/issues * Date/Publication: 2020-05-06 -* Number of recursive dependencies: 170 +* Number of recursive dependencies: 171 Run `revdep_details(,"iSEEu")` for more info @@ -5053,13 +5443,6 @@ Run `revdep_details(,"iSEEu")` for more info * checking examples ... ERROR ``` ... - The error most likely occurred in: - - > ### Name: DifferentialStatisticsTable-class - > ### Title: Differential statistics table - > ### Aliases: DifferentialStatisticsTable-class DifferentialStatisticsTable - > ### initialize,DifferentialStatisticsTable-method - > ### .fullName,DifferentialStatisticsTable-method > ### .panelColor,DifferentialStatisticsTable-method > ### .defineDataInterface,DifferentialStatisticsTable-method > ### .hideInterface,DifferentialStatisticsTable-method @@ -5072,7 +5455,14 @@ Run `revdep_details(,"iSEEu")` for more info > ### ** Examples > > library(scRNAseq) - Error in library(scRNAseq) : there is no package called ‘scRNAseq’ + > library(scater) + Loading required package: ggplot2 + > + > sce <- ReprocessedAllenData(assays="tophat_counts") + Error: Corrupt Cache: sqlite file + See vignette section on corrupt cache + cache: /Users/barret/Library/Caches/ExperimentHub + filename: experimenthub.sqlite3 Execution halted ``` @@ -5082,8 +5472,6 @@ Run `revdep_details(,"iSEEu")` for more info Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output: - The following objects are masked from 'package:matrixStats': - colMaxs, colMins, colRanges, rowMaxs, rowMins, rowRanges The following objects are masked from 'package:base': @@ -5093,14 +5481,34 @@ Run `revdep_details(,"iSEEu")` for more info Loading required package: SingleCellExperiment > > test_check("iSEEu") - Error in library(scRNAseq) : there is no package called 'scRNAseq' - Calls: test_check ... source_dir -> lapply -> FUN -> eval -> eval -> library + Error: Corrupt Cache: sqlite file + See vignette section on corrupt cache + cache: /Users/barret/Library/Caches/ExperimentHub + filename: experimenthub.sqlite3 Execution halted ``` -* checking package dependencies ... NOTE +# iSTATS + +
+ +* Version: 1.4 +* Source code: https://github.com/cran/iSTATS +* Date/Publication: 2020-06-04 15:50:03 UTC +* Number of recursive dependencies: 80 + +Run `revdep_details(,"iSTATS")` for more info + +
+ +## In both + +* checking installed package size ... NOTE ``` - Package suggested but not available for checking: ‘scRNAseq’ + installed size is 5.9Mb + sub-directories of 1Mb or more: + app 4.3Mb + data 1.6Mb ``` # ivygapSE @@ -5110,7 +5518,7 @@ Run `revdep_details(,"iSEEu")` for more info * Version: 1.10.0 * Source code: https://github.com/cran/ivygapSE * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 152 +* Number of recursive dependencies: 151 Run `revdep_details(,"ivygapSE")` for more info @@ -5161,11 +5569,11 @@ Run `revdep_details(,"jpmesh")` for more info
-* Version: 0.3.6 +* Version: 0.3.7 * Source code: https://github.com/cran/jpndistrict * URL: https://uribo.github.io/jpndistrict * BugReports: https://github.com/uribo/jpndistrict/issues -* Date/Publication: 2020-04-20 07:50:07 UTC +* Date/Publication: 2020-06-12 07:30:03 UTC * Number of recursive dependencies: 101 Run `revdep_details(,"jpndistrict")` for more info @@ -5174,24 +5582,21 @@ Run `revdep_details(,"jpndistrict")` for more info ## In both -* checking package dependencies ... ERROR +* checking data for non-ASCII characters ... NOTE ``` - Package required but not available: ‘jpmesh’ - - See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ - manual. + Note: found 188 marked UTF-8 strings ``` # jsmodule
-* Version: 1.0.7 +* Version: 1.0.8 * Source code: https://github.com/cran/jsmodule * URL: https://github.com/jinseob2kim/jsmodule * BugReports: https://github.com/jinseob2kim/jsmodule/issues -* Date/Publication: 2020-04-29 17:20:09 UTC -* Number of recursive dependencies: 189 +* Date/Publication: 2020-06-04 17:00:02 UTC +* Number of recursive dependencies: 188 Run `revdep_details(,"jsmodule")` for more info @@ -5213,7 +5618,7 @@ Run `revdep_details(,"jsmodule")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/KNNShiny * Date/Publication: 2019-05-09 16:00:07 UTC -* Number of recursive dependencies: 106 +* Number of recursive dependencies: 105 Run `revdep_details(,"KNNShiny")` for more info @@ -5238,7 +5643,7 @@ Run `revdep_details(,"KNNShiny")` for more info * URL: https://github.com/yutannihilation/kokudosuuchi * BugReports: https://github.com/yutannihilation/kokudosuuchi/issues * Date/Publication: 2018-01-26 04:21:18 UTC -* Number of recursive dependencies: 65 +* Number of recursive dependencies: 66 Run `revdep_details(,"kokudosuuchi")` for more info @@ -5277,6 +5682,29 @@ Run `revdep_details(,"koRpus")` for more info Package which this enhances but not available for checking: ‘rkward’ ``` +# leaflet.extras2 + +
+ +* Version: 1.0.0 +* Source code: https://github.com/cran/leaflet.extras2 +* URL: https://trafficonese.github.io/leaflet.extras2, https://github.com/trafficonese/leaflet.extras2 +* BugReports: https://github.com/trafficonese/leaflet.extras2/issues +* Date/Publication: 2020-05-18 15:10:06 UTC +* Number of recursive dependencies: 89 + +Run `revdep_details(,"leaflet.extras2")` for more info + +
+ +## In both + +* checking dependencies in R code ... NOTE + ``` + Namespace in Imports field not imported from: ‘htmlwidgets’ + All declared Imports should be used. + ``` + # learnstats
@@ -5325,7 +5753,7 @@ Run `revdep_details(,"learnstats")` for more info * Version: 1.6.0 * Source code: https://github.com/cran/levi * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 83 +* Number of recursive dependencies: 84 Run `revdep_details(,"levi")` for more info @@ -5360,7 +5788,7 @@ Run `revdep_details(,"levi")` for more info * URL: http://jason.bryer.org/likert, http://github.com/jbryer/likert * BugReports: https://github.com/jbryer/likert/issues * Date/Publication: 2016-12-31 01:37:00 -* Number of recursive dependencies: 100 +* Number of recursive dependencies: 102 Run `revdep_details(,"likert")` for more info @@ -5382,7 +5810,7 @@ Run `revdep_details(,"likert")` for more info * URL: https://github.com/ModelOriented/live * BugReports: https://github.com/ModelOriented/live/issues * Date/Publication: 2020-01-15 06:30:17 UTC -* Number of recursive dependencies: 112 +* Number of recursive dependencies: 111 Run `revdep_details(,"live")` for more info @@ -5403,7 +5831,7 @@ Run `revdep_details(,"live")` for more info * Version: 0.1.2 * Source code: https://github.com/cran/lmviz * Date/Publication: 2019-05-15 14:30:03 UTC -* Number of recursive dependencies: 24 +* Number of recursive dependencies: 25 Run `revdep_details(,"lmviz")` for more info @@ -5421,11 +5849,11 @@ Run `revdep_details(,"lmviz")` for more info
-* Version: 0.3.2 +* Version: 0.3.3 * Source code: https://github.com/cran/mapdeck * URL: https://symbolixau.github.io/mapdeck/articles/mapdeck.html * BugReports: https://github.com/SymbolixAU/mapdeck/issues -* Date/Publication: 2020-04-05 11:10:02 UTC +* Date/Publication: 2020-05-14 19:30:08 UTC * Number of recursive dependencies: 73 Run `revdep_details(,"mapdeck")` for more info @@ -5436,10 +5864,10 @@ Run `revdep_details(,"mapdeck")` for more info * checking installed package size ... NOTE ``` - installed size is 7.7Mb + installed size is 8.1Mb sub-directories of 1Mb or more: data 1.3Mb - doc 1.2Mb + doc 1.6Mb htmlwidgets 1.9Mb libs 2.9Mb ``` @@ -5473,7 +5901,7 @@ Run `revdep_details(,"mapedit")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/MDSPCAShiny * Date/Publication: 2019-05-24 08:20:20 UTC -* Number of recursive dependencies: 48 +* Number of recursive dependencies: 49 Run `revdep_details(,"MDSPCAShiny")` for more info @@ -5545,7 +5973,7 @@ Run `revdep_details(,"memery")` for more info * Version: 2.0.8 * Source code: https://github.com/cran/meta4diag * Date/Publication: 2018-07-23 12:00:02 UTC -* Number of recursive dependencies: 23 +* Number of recursive dependencies: 24 Run `revdep_details(,"meta4diag")` for more info @@ -5565,7 +5993,7 @@ Run `revdep_details(,"meta4diag")` for more info * Version: 1.18.0 * Source code: https://github.com/cran/MetCirc * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 101 +* Number of recursive dependencies: 102 Run `revdep_details(,"MetCirc")` for more info @@ -5599,7 +6027,7 @@ Run `revdep_details(,"MetCirc")` for more info * Version: 1.22.0 * Source code: https://github.com/cran/MethylAid * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 163 +* Number of recursive dependencies: 164 Run `revdep_details(,"MethylAid")` for more info @@ -5660,7 +6088,7 @@ Run `revdep_details(,"MethylAid")` for more info * URL: https://github.com/reese3928/methylGSA * BugReports: https://github.com/reese3928/methylGSA/issues * Date/Publication: 2020-05-06 -* Number of recursive dependencies: 197 +* Number of recursive dependencies: 198 Run `revdep_details(,"methylGSA")` for more info @@ -5787,7 +6215,7 @@ Run `revdep_details(,"miRcomp")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/MLDAShiny * Date/Publication: 2019-04-25 12:20:02 UTC -* Number of recursive dependencies: 111 +* Number of recursive dependencies: 116 Run `revdep_details(,"MLDAShiny")` for more info @@ -5810,7 +6238,7 @@ Run `revdep_details(,"MLDAShiny")` for more info * Version: 1.68.0 * Source code: https://github.com/cran/MLInterfaces * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 172 +* Number of recursive dependencies: 179 Run `revdep_details(,"MLInterfaces")` for more info @@ -5887,7 +6315,7 @@ Run `revdep_details(,"MLInterfaces")` for more info * Version: 0.1.1 * Source code: https://github.com/cran/mlr3shiny * Date/Publication: 2020-03-31 10:30:02 UTC -* Number of recursive dependencies: 123 +* Number of recursive dependencies: 121 Run `revdep_details(,"mlr3shiny")` for more info @@ -5911,7 +6339,7 @@ Run `revdep_details(,"mlr3shiny")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/MLRShiny * Date/Publication: 2019-04-22 19:20:03 UTC -* Number of recursive dependencies: 99 +* Number of recursive dependencies: 101 Run `revdep_details(,"MLRShiny")` for more info @@ -5933,7 +6361,7 @@ Run `revdep_details(,"MLRShiny")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/MLRShiny2 * Date/Publication: 2019-10-02 08:40:02 UTC -* Number of recursive dependencies: 99 +* Number of recursive dependencies: 101 Run `revdep_details(,"MLRShiny2")` for more info @@ -6001,7 +6429,7 @@ Run `revdep_details(,"MMDiff2")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/MNLR * Date/Publication: 2019-03-23 10:06:11 UTC -* Number of recursive dependencies: 97 +* Number of recursive dependencies: 96 Run `revdep_details(,"MNLR")` for more info @@ -6016,88 +6444,6 @@ Run `revdep_details(,"MNLR")` for more info All declared Imports should be used. ``` -# MODIStsp - -
- -* Version: 1.3.9 -* Source code: https://github.com/cran/MODIStsp -* URL: https://github.com/ropensci/MODIStsp -* BugReports: https://github.com/ropensci/MODIStsp/issues -* Date/Publication: 2019-06-21 10:20:03 UTC -* Number of recursive dependencies: 131 - -Run `revdep_details(,"MODIStsp")` for more info - -
- -## In both - -* checking S3 generic/method consistency ... WARNING - ``` - - (R:48052): Gtk-WARNING **: gtk_disable_setlocale() must be called before gtk_init() - See section ‘Generic functions and methods’ in the ‘Writing R - Extensions’ manual. - ``` - -* checking replacement functions ... WARNING - ``` - - (R:48163): Gtk-WARNING **: gtk_disable_setlocale() must be called before gtk_init() - The argument of a replacement function which corresponds to the right - hand side must be named ‘value’. - ``` - -* checking for missing documentation entries ... WARNING - ``` - - (R:48813): Gtk-WARNING **: gtk_disable_setlocale() must be called before gtk_init() - All user-level objects in a package should have documentation entries. - See chapter ‘Writing R documentation files’ in the ‘Writing R - Extensions’ manual. - ``` - -* checking for code/documentation mismatches ... WARNING - ``` - - (R:48868): Gtk-WARNING **: gtk_disable_setlocale() must be called before gtk_init() - - (R:48897): Gtk-WARNING **: gtk_disable_setlocale() must be called before gtk_init() - - (R:49054): Gtk-WARNING **: gtk_disable_setlocale() must be called before gtk_init() - ``` - -* checking dependencies in R code ... NOTE - ``` - - (R:47886): Gtk-WARNING **: gtk_disable_setlocale() must be called before gtk_init() - ``` - -* checking foreign function calls ... NOTE - ``` - - (R:48254): Gtk-WARNING **: gtk_disable_setlocale() must be called before gtk_init() - See chapter ‘System and foreign language interfaces’ in the ‘Writing R - Extensions’ manual. - ``` - -* checking R code for possible problems ... NOTE - ``` - - (R:48425): Gtk-WARNING **: gtk_disable_setlocale() must be called before gtk_init() - ``` - -* checking Rd \usage sections ... NOTE - ``` - - (R:49171): Gtk-WARNING **: gtk_disable_setlocale() must be called before gtk_init() - The \usage entries for S3 methods should use the \method markup and not - their full name. - See chapter ‘Writing R documentation files’ in the ‘Writing R - Extensions’ manual. - ``` - # MSEtool
@@ -6124,16 +6470,39 @@ Run `revdep_details(,"MSEtool")` for more info libs 15.9Mb ``` +# MSGFgui + +
+ +* Version: 1.22.0 +* Source code: https://github.com/cran/MSGFgui +* Date/Publication: 2020-04-27 +* Number of recursive dependencies: 70 + +Run `revdep_details(,"MSGFgui")` for more info + +
+ +## In both + +* checking package dependencies ... ERROR + ``` + Package required but not available: ‘MSGFplus’ + + See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ + manual. + ``` + # MSnbase
-* Version: 2.14.1 +* Version: 2.14.2 * Source code: https://github.com/cran/MSnbase * URL: https://lgatto.github.io/MSnbase * BugReports: https://github.com/lgatto/MSnbase/issues -* Date/Publication: 2020-05-06 -* Number of recursive dependencies: 221 +* Date/Publication: 2020-05-15 +* Number of recursive dependencies: 222 Run `revdep_details(,"MSnbase")` for more info @@ -6141,55 +6510,6 @@ Run `revdep_details(,"MSnbase")` for more info ## In both -* checking examples ... ERROR - ``` - Running examples in ‘MSnbase-Ex.R’ failed - The error most likely occurred in: - - > ### Name: FeatComp-class - > ### Title: Class '"FeatComp"' - > ### Aliases: FeatComp-class compfnames-methods - > ### compfnames,MSnSet,MSnSet-method compfnames,list,missing-method - > ### compfnames show,FeatComp-method names,FeatComp-method - > ### common,FeatComp-method common,methods common unique1,FeatComp-method - > ### unique1,methods unique1 unique2,FeatComp-method unique2,methods - > ### unique2 - > ### Keywords: classes - > - > ### ** Examples - > - > library("pRolocdata") - Error in library("pRolocdata") : there is no package called ‘pRolocdata’ - Execution halted - ``` - -* checking tests ... - ``` - ERROR - Running the tests in ‘tests/testthat.R’ failed. - Last 13 lines of output: - 2. Error: commonFeatureNames works with lists or MSnSetLists (@test_MSnSet.R#362) - 3. Error: keeping common features (@test_MSnSet.R#381) - 4. Error: nFeatures are added correctly (@test_MSnSet.R#462) - 5. Error: (unknown) (@test_average.R#1) - 6. Error: Feature variable selection (@test_fdata-selection.R#4) - 7. Error: (unknown) (@test_foi.R#1) - 8. Error: readMSnSet2: rownames and fnames (@test_io.R#84) - 9. Error: (unknown) (@test_nadata.R#2) - 1. ... - - Error: testthat unit tests failed - In addition: Warning message: - In .Internal(lapply(X, FUN)) : - closing unused connection 4 (/var/folders/0k/bxg5lhr92sq74mb1d446ql540000gp/T//Rtmp498E8b/filee92a5e333fd8) - Execution halted - ``` - -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘pRolocdata’ - ``` - * checking installed package size ... NOTE ``` installed size is 13.2Mb @@ -6248,7 +6568,7 @@ Run `revdep_details(,"mstrio")` for more info * Version: 0.6.1 * Source code: https://github.com/cran/MuChPoint * Date/Publication: 2018-06-24 13:09:46 UTC -* Number of recursive dependencies: 21 +* Number of recursive dependencies: 22 Run `revdep_details(,"MuChPoint")` for more info @@ -6312,7 +6632,7 @@ Run `revdep_details(,"nbc4va")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/NBShiny * Date/Publication: 2019-05-06 08:30:03 UTC -* Number of recursive dependencies: 99 +* Number of recursive dependencies: 98 Run `revdep_details(,"NBShiny")` for more info @@ -6334,7 +6654,7 @@ Run `revdep_details(,"NBShiny")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/NBShiny2 * Date/Publication: 2019-10-25 08:00:09 UTC -* Number of recursive dependencies: 99 +* Number of recursive dependencies: 98 Run `revdep_details(,"NBShiny2")` for more info @@ -6379,7 +6699,7 @@ Run `revdep_details(,"NDP")` for more info * URL: https://github.com/neo4j-rstats/neo4r * BugReports: https://github.com/neo4j-rstats/neo4r/issues * Date/Publication: 2019-02-15 22:20:03 UTC -* Number of recursive dependencies: 45 +* Number of recursive dependencies: 46 Run `revdep_details(,"neo4r")` for more info @@ -6394,15 +6714,38 @@ Run `revdep_details(,"neo4r")` for more info All declared Imports should be used. ``` +# nprcgenekeepr + +
+ +* Version: 1.0.3 +* Source code: https://github.com/cran/nprcgenekeepr +* URL: https://rmsharp.github.io/nprcgenekeepr/, https://github.com/rmsharp/nprcgenekeepr +* BugReports: https://github.com/rmsharp/nprcgenekeepr/issues +* Date/Publication: 2020-06-02 12:40:03 UTC +* Number of recursive dependencies: 114 + +Run `revdep_details(,"nprcgenekeepr")` for more info + +
+ +## In both + +* checking dependencies in R code ... NOTE + ``` + Namespace in Imports field not imported from: ‘shinyBS’ + All declared Imports should be used. + ``` + # oceanis
-* Version: 1.0.7 +* Version: 1.7.3 * Source code: https://github.com/cran/oceanis * URL: https://github.com/insee-psar-at/oceanis-package/ * BugReports: https://github.com/insee-psar-at/oceanis-package/issues -* Date/Publication: 2020-04-02 16:10:02 UTC +* Date/Publication: 2020-06-02 10:20:02 UTC * Number of recursive dependencies: 128 Run `revdep_details(,"oceanis")` for more info @@ -6494,7 +6837,7 @@ Run `revdep_details(,"oneSENSE")` for more info * Version: 1.10.0 * Source code: https://github.com/cran/ontoProc * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 124 +* Number of recursive dependencies: 125 Run `revdep_details(,"ontoProc")` for more info @@ -6502,6 +6845,32 @@ Run `revdep_details(,"ontoProc")` for more info ## In both +* checking examples ... ERROR + ``` + ... + > ### Name: common_classes + > ### Title: list and count samples with common ontological annotation in two + > ### SEs + > ### Aliases: common_classes + > + > ### ** Examples + > + > if (requireNamespace("SingleR")) { + + imm = SingleR::ImmGenData() + + if ("label.ont" %in% names(colData(imm))) { + + cl = getCellOnto() + + blu = SingleR::BlueprintEncodeData() + + common_classes( cl, imm, blu ) + + } + + } + Loading required namespace: SingleR + Error: Corrupt Cache: sqlite file + See vignette section on corrupt cache + cache: /Users/barret/Library/Caches/ExperimentHub + filename: experimenthub.sqlite3 + Execution halted + ``` + * checking installed package size ... NOTE ``` installed size is 39.6Mb @@ -6548,7 +6917,7 @@ Run `revdep_details(,"ontoProc")` for more info * URL: https://github.com/chainsawriot/oolong * BugReports: https://github.com/chainsawriot/oolong/issues * Date/Publication: 2020-03-21 17:40:06 UTC -* Number of recursive dependencies: 129 +* Number of recursive dependencies: 130 Run `revdep_details(,"oolong")` for more info @@ -6572,7 +6941,7 @@ Run `revdep_details(,"oolong")` for more info * URL: https://github.com/atheriel/openmetrics * BugReports: https://github.com/atheriel/openmetrics/issues * Date/Publication: 2020-04-23 17:50:02 UTC -* Number of recursive dependencies: 38 +* Number of recursive dependencies: 39 Run `revdep_details(,"openmetrics")` for more info @@ -6593,7 +6962,7 @@ Run `revdep_details(,"openmetrics")` for more info * Version: 1.10.0 * Source code: https://github.com/cran/openPrimeRui * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 136 +* Number of recursive dependencies: 135 Run `revdep_details(,"openPrimeRui")` for more info @@ -6620,11 +6989,11 @@ Run `revdep_details(,"openPrimeRui")` for more info
-* Version: 1.0.1 +* Version: 1.0.2 * Source code: https://github.com/cran/oppr * URL: https://prioritizr.github.io/oppr, https://github.com/prioritizr/oppr * BugReports: https://github.com/prioritizr/oppr/issues -* Date/Publication: 2020-03-11 11:20:12 UTC +* Date/Publication: 2020-05-20 10:10:16 UTC * Number of recursive dependencies: 95 Run `revdep_details(,"oppr")` for more info @@ -6646,7 +7015,7 @@ Run `revdep_details(,"oppr")` for more info * Source code: https://github.com/cran/pairsD3 * URL: http://github.com/garthtarr/pairsD3/ * Date/Publication: 2015-04-28 06:58:01 -* Number of recursive dependencies: 27 +* Number of recursive dependencies: 28 Run `revdep_details(,"pairsD3")` for more info @@ -6698,7 +7067,7 @@ Run `revdep_details(,"PanVizGenerator")` for more info * URL: https://github.com/mani2012/PathoStat * BugReports: https://github.com/mani2012/PathoStat/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 183 +* Number of recursive dependencies: 184 Run `revdep_details(,"PathoStat")` for more info @@ -6717,12 +7086,12 @@ Run `revdep_details(,"PathoStat")` for more info
-* Version: 2.14.0 +* Version: 2.14.2 * Source code: https://github.com/cran/pcaExplorer * URL: https://github.com/federicomarini/pcaExplorer, https://federicomarini.github.io/pcaExplorer/ * BugReports: https://github.com/federicomarini/pcaExplorer/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 163 +* Date/Publication: 2020-06-06 +* Number of recursive dependencies: 177 Run `revdep_details(,"pcaExplorer")` for more info @@ -6758,7 +7127,7 @@ Run `revdep_details(,"pcaExplorer")` for more info * URL: https://github.com/jpritikin/pcFactorStan * BugReports: https://github.com/jpritikin/pcFactorStan/issues * Date/Publication: 2020-04-25 17:40:02 UTC -* Number of recursive dependencies: 132 +* Number of recursive dependencies: 134 Run `revdep_details(,"pcFactorStan")` for more info @@ -6768,10 +7137,10 @@ Run `revdep_details(,"pcFactorStan")` for more info * checking installed package size ... NOTE ``` - installed size is 12.9Mb + installed size is 13.2Mb sub-directories of 1Mb or more: doc 2.9Mb - libs 9.4Mb + libs 9.7Mb ``` * checking for GNU extensions in Makefiles ... NOTE @@ -6779,28 +7148,6 @@ Run `revdep_details(,"pcFactorStan")` for more info GNU make is a SystemRequirements. ``` -# PCRedux - -
- -* Version: 1.0-6 -* Source code: https://github.com/cran/PCRedux -* URL: https://CRAN.R-project.org/package=PCRedux -* BugReports: https://github.com/PCRuniversum/PCRedux/issues -* Date/Publication: 2020-03-06 08:10:02 UTC -* Number of recursive dependencies: 115 - -Run `revdep_details(,"PCRedux")` for more info - -
- -## In both - -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘FFTrees’ - ``` - # pepStat
@@ -6809,7 +7156,7 @@ Run `revdep_details(,"PCRedux")` for more info * Source code: https://github.com/cran/pepStat * URL: https://github.com/RGLab/pepStat * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 148 +* Number of recursive dependencies: 149 Run `revdep_details(,"pepStat")` for more info @@ -6859,45 +7206,6 @@ Run `revdep_details(,"pepStat")` for more info to your NAMESPACE file. ``` -# periscope - -
- -* Version: 0.4.9-1 -* Source code: https://github.com/cran/periscope -* URL: https://github.com/cb4ds/periscope.git, http://periscopeapps.org:3838, https://www.canvasxpress.org -* BugReports: https://github.com/cb4ds/periscope/issues -* Date/Publication: 2020-04-01 12:30:06 UTC -* Number of recursive dependencies: 79 - -Run `revdep_details(,"periscope")` for more info - -
- -## Newly broken - -* checking tests ... - ``` - ERROR - Running the tests in ‘tests/testthat.R’ failed. - Last 13 lines of output: - ── 1. Failure: setup_logging (@test_ui_misc_functions.R#37) ─────────────────── - class(result) not equal to c("reactiveExpr", "reactive"). - Lengths differ: 3 is not 2 - - ── 2. Failure: setup_logging existing log (@test_ui_misc_functions.R#45) ────── - class(result) not equal to c("reactiveExpr", "reactive"). - Lengths differ: 3 is not 2 - - ══ testthat results ═══════════════════════════════════════════════════════════ - [ OK: 532 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 2 ] - 1. Failure: setup_logging (@test_ui_misc_functions.R#37) - 2. Failure: setup_logging existing log (@test_ui_misc_functions.R#45) - - Error: testthat unit tests failed - Execution halted - ``` - # phenocamr
@@ -6929,7 +7237,7 @@ Run `revdep_details(,"phenocamr")` for more info * URL: http://www.sysbio.se/piano * BugReports: https://github.com/varemo/piano/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 142 +* Number of recursive dependencies: 143 Run `revdep_details(,"piano")` for more info @@ -6957,7 +7265,7 @@ Run `revdep_details(,"piano")` for more info * URL: http://cpsievert.github.com/pitchRx * BugReports: http://github.com/cpsievert/pitchRx/issues * Date/Publication: 2015-12-09 12:57:25 -* Number of recursive dependencies: 93 +* Number of recursive dependencies: 94 Run `revdep_details(,"pitchRx")` for more info @@ -6970,6 +7278,76 @@ Run `revdep_details(,"pitchRx")` for more info Package suggested but not available for checking: ‘ggsubplot’ ``` +# pivottabler + +
+ +* Version: 1.5.0 +* Source code: https://github.com/cran/pivottabler +* URL: http://www.pivottabler.org.uk/, https://github.com/cbailiss/pivottabler +* BugReports: https://github.com/cbailiss/pivottabler/issues +* Date/Publication: 2020-06-16 16:20:03 UTC +* Number of recursive dependencies: 78 + +Run `revdep_details(,"pivottabler")` for more info + +
+ +## In both + +* checking installed package size ... NOTE + ``` + installed size is 5.2Mb + sub-directories of 1Mb or more: + R 2.0Mb + data 2.0Mb + ``` + +# plethem + +
+ +* Version: 0.1.7 +* Source code: https://github.com/cran/plethem +* Date/Publication: 2019-01-02 15:50:03 UTC +* Number of recursive dependencies: 146 + +Run `revdep_details(,"plethem")` for more info + +
+ +## In both + +* checking tests ... + ``` + ERROR + Running the tests in ‘tests/testthat.R’ failed. + Last 13 lines of output: + You are now using PLETHEM. + If you have installed PLETHEM for the first time or have just updated it, please run setUserDb() to select an existing database or createUserDb() to create a new one. + > + > test_check("plethem") + ── 1. Error: Tissue volumes are less than 85% of body weight (@test_physio.R#19) + invalid 'type' (list) of argument + Backtrace: + 1. plethem::getLifecourseTissueVolumes(...) + + ══ testthat results ═══════════════════════════════════════════════════════════ + [ OK: 8 | SKIPPED: 0 | WARNINGS: 1 | FAILED: 1 ] + 1. Error: Tissue volumes are less than 85% of body weight (@test_physio.R#19) + + Error: testthat unit tests failed + Execution halted + ``` + +* checking dependencies in R code ... NOTE + ``` + Namespaces in Imports field not imported from: + ‘V8’ ‘devtools’ ‘formatR’ ‘gdata’ ‘rhandsontable’ ‘shinythemes’ + ‘sqldf’ + All declared Imports should be used. + ``` + # plotGrouper
@@ -6979,7 +7357,7 @@ Run `revdep_details(,"pitchRx")` for more info * URL: https://jdgagnon.github.io/plotGrouper/ * BugReports: https://github.com/jdgagnon/plotGrouper/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 137 +* Number of recursive dependencies: 136 Run `revdep_details(,"plotGrouper")` for more info @@ -7004,7 +7382,7 @@ Run `revdep_details(,"plotGrouper")` for more info * URL: https://plotly-r.com, https://github.com/ropensci/plotly#readme, https://plot.ly/r * BugReports: https://github.com/ropensci/plotly/issues * Date/Publication: 2020-04-04 19:50:02 UTC -* Number of recursive dependencies: 151 +* Number of recursive dependencies: 150 Run `revdep_details(,"plotly")` for more info @@ -7023,12 +7401,12 @@ Run `revdep_details(,"plotly")` for more info
-* Version: 0.1.5 +* Version: 0.1.9 * Source code: https://github.com/cran/pmd * URL: https://yufree.github.io/pmd * BugReports: https://github.com/yufree/pmd/issues -* Date/Publication: 2019-08-22 15:50:02 UTC -* Number of recursive dependencies: 139 +* Date/Publication: 2020-06-04 17:50:02 UTC +* Number of recursive dependencies: 110 Run `revdep_details(,"pmd")` for more info @@ -7036,19 +7414,6 @@ Run `revdep_details(,"pmd")` for more info ## In both -* checking installed package size ... NOTE - ``` - installed size is 5.0Mb - sub-directories of 1Mb or more: - data 4.0Mb - ``` - -* checking dependencies in R code ... NOTE - ``` - Namespace in Imports field not imported from: ‘shiny’ - All declared Imports should be used. - ``` - * checking data for non-ASCII characters ... NOTE ``` Note: found 62 marked UTF-8 strings @@ -7061,7 +7426,7 @@ Run `revdep_details(,"pmd")` for more info * Version: 1.8.0 * Source code: https://github.com/cran/pogos * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 95 +* Number of recursive dependencies: 97 Run `revdep_details(,"pogos")` for more info @@ -7099,7 +7464,7 @@ Run `revdep_details(,"pogos")` for more info * URL: https://github.com/jhk0530/polaroid * BugReports: https://github.com/jhk0530/polaroid/issues * Date/Publication: 2020-03-30 16:00:02 UTC -* Number of recursive dependencies: 78 +* Number of recursive dependencies: 79 Run `revdep_details(,"polaroid")` for more info @@ -7124,7 +7489,7 @@ Run `revdep_details(,"polaroid")` for more info * URL: https://www.github.com/PolMine/polmineR * BugReports: https://github.com/PolMine/polmineR/issues * Date/Publication: 2019-12-17 12:50:06 UTC -* Number of recursive dependencies: 100 +* Number of recursive dependencies: 99 Run `revdep_details(,"polmineR")` for more info @@ -7140,18 +7505,18 @@ Run `revdep_details(,"polmineR")` for more info extdata 1.9Mb ``` -# PopED +# precisely
-* Version: 0.4.0 -* Source code: https://github.com/cran/PopED -* URL: http://poped.sourceforge.net -* BugReports: https://github.com/andrewhooker/PopED/issues -* Date/Publication: 2018-09-10 09:40:03 UTC -* Number of recursive dependencies: 106 +* Version: 0.1.0 +* Source code: https://github.com/cran/precisely +* URL: https://github.com/malcolmbarrett/precisely +* BugReports: https://github.com/malcolmbarrett/precisely/issues +* Date/Publication: 2020-06-02 08:50:09 UTC +* Number of recursive dependencies: 115 -Run `revdep_details(,"PopED")` for more info +Run `revdep_details(,"precisely")` for more info
@@ -7159,30 +7524,8 @@ Run `revdep_details(,"PopED")` for more info * checking dependencies in R code ... NOTE ``` - Namespace in Imports field not imported from: ‘tidyr’ - All declared Imports should be used. - ``` - -# powdR - -
- -* Version: 1.2.1 -* Source code: https://github.com/cran/powdR -* URL: http://github.com/benmbutler/powdR -* BugReports: http://github.com/benmbutler/powdR/issues -* Date/Publication: 2020-05-04 17:20:03 UTC -* Number of recursive dependencies: 133 - -Run `revdep_details(,"powdR")` for more info - -
- -## In both - -* checking dependencies in R code ... NOTE - ``` - Namespace in Imports field not imported from: ‘utils’ + Namespaces in Imports field not imported from: + ‘shinycssloaders’ ‘shinythemes’ All declared Imports should be used. ``` @@ -7193,7 +7536,7 @@ Run `revdep_details(,"powdR")` for more info * Version: 1.4.0 * Source code: https://github.com/cran/PrecisionTrialDrawer * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 127 +* Number of recursive dependencies: 128 Run `revdep_details(,"PrecisionTrialDrawer")` for more info @@ -7217,7 +7560,7 @@ Run `revdep_details(,"PrecisionTrialDrawer")` for more info * Source code: https://github.com/cran/predictoR * URL: http://www.promidat.com * Date/Publication: 2019-06-24 22:50:03 UTC -* Number of recursive dependencies: 141 +* Number of recursive dependencies: 142 Run `revdep_details(,"predictoR")` for more info @@ -7261,12 +7604,12 @@ Run `revdep_details(,"PREPShiny")` for more info
-* Version: 1.6.0 +* Version: 1.6.1 * Source code: https://github.com/cran/primirTSS * URL: https://github.com/ipumin/primirTSS * BugReports: http://github.com/ipumin/primirTSS/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 173 +* Date/Publication: 2020-06-09 +* Number of recursive dependencies: 176 Run `revdep_details(,"primirTSS")` for more info @@ -7274,24 +7617,47 @@ Run `revdep_details(,"primirTSS")` for more info ## In both -* checking package dependencies ... ERROR +* checking dependencies in R code ... WARNING ``` - Package required but not available: ‘phastCons100way.UCSC.hg38’ - - See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ - manual. + '::' or ':::' import not declared from: 'magrittr' + ``` + +* checking R code for possible problems ... NOTE + ``` + ... + plot_primiRNA_track: no visible binding for global variable + ‘symbol_name’ + plot_primiRNA_track: no visible binding for global variable + ‘stem_loop_p1’ + plot_primiRNA_track: no visible binding for global variable + ‘stem_loop_p2’ + plot_primiRNA_track: no visible binding for global variable ‘gene_id’ + plot_primiRNA_track: no visible binding for global variable ‘gene_p1’ + plot_primiRNA_track: no visible binding for global variable ‘gene_p2’ + plot_primiRNA_track: no visible binding for global variable ‘tss_p1’ + plot_primiRNA_track: no visible binding for global variable ‘tss_p2’ + require_fa: no visible binding for global variable ‘arrow’ + tss_filter: no visible binding for global variable ‘gene_id’ + tss_filter: no visible binding for global variable ‘new_info’ + tss_filter: no visible binding for global variable ‘predicted_tss’ + tss_filter: no visible binding for global variable ‘tss_type’ + Undefined global functions or variables: + TF TF_class arrow can_tss dhs_p1 dhs_p2 e_p_rank end1 eponine_rank + gene_id gene_p1 gene_p2 histone_p1_flank histone_p2_flank loci + mir_name new_info phast_rank predicted_tss previous seqname start1 + stem_loop_p1 stem_loop_p2 symbol_name tss_p1 tss_p2 tss_type ``` # prioritizr
-* Version: 4.1.5 +* Version: 5.0.1 * Source code: https://github.com/cran/prioritizr * URL: https://prioritizr.net, https://github.com/prioritizr/prioritizr * BugReports: https://github.com/prioritizr/prioritizr/issues -* Date/Publication: 2020-02-06 01:00:02 UTC -* Number of recursive dependencies: 104 +* Date/Publication: 2020-05-15 09:50:02 UTC +* Number of recursive dependencies: 95 Run `revdep_details(,"prioritizr")` for more info @@ -7301,13 +7667,13 @@ Run `revdep_details(,"prioritizr")` for more info * checking package dependencies ... NOTE ``` - Packages suggested but not available for checking: - 'velox', 'gurobi', 'Rsymphony' + Packages suggested but not available for checking: 'gurobi', 'Rsymphony' ``` -* checking Rd cross-references ... NOTE +* checking dependencies in R code ... NOTE ``` - Unknown package ‘velox’ in Rd xrefs + Namespace in Imports field not imported from: ‘exactextractr’ + All declared Imports should be used. ``` # PROBShiny @@ -7341,7 +7707,7 @@ Run `revdep_details(,"PROBShiny")` for more info * URL: https://github.com/bupaverse/processanimateR/ * BugReports: https://github.com/bupaverse/processanimateR/issues * Date/Publication: 2020-03-13 21:30:02 UTC -* Number of recursive dependencies: 104 +* Number of recursive dependencies: 103 Run `revdep_details(,"processanimateR")` for more info @@ -7357,13 +7723,101 @@ Run `revdep_details(,"processanimateR")` for more info htmlwidgets 2.5Mb ``` +# psichomics + +
+ +* Version: 1.14.1 +* Source code: https://github.com/cran/psichomics +* URL: https://nuno-agostinho.github.io/psichomics/ +* BugReports: https://github.com/nuno-agostinho/psichomics/issues +* Date/Publication: 2020-06-16 +* Number of recursive dependencies: 236 + +Run `revdep_details(,"psichomics")` for more info + +
+ +## In both + +* checking installed package size ... NOTE + ``` + installed size is 7.7Mb + sub-directories of 1Mb or more: + R 2.0Mb + doc 4.2Mb + ``` + +# pwrEWAS + +
+ +* Version: 1.2.0 +* Source code: https://github.com/cran/pwrEWAS +* Date/Publication: 2020-04-27 +* Number of recursive dependencies: 120 + +Run `revdep_details(,"pwrEWAS")` for more info + +
+ +## In both + +* checking examples ... ERROR + ``` + ... + > + > ### ** Examples + > + > outDelta <- pwrEWAS(minTotSampleSize = 10, + + maxTotSampleSize = 20, + + SampleSizeSteps = 10, + + NcntPer = 0.5, + + targetDelta = c(0.2, 0.5), + + J = 1000, + + targetDmCpGs = 10, + + tissueType = "Adult (PBMC)", + + detectionLimit = 0.01, + + DMmethod = "limma", + + FDRcritVal = 0.05, + + core = 2, + + sims = 30) + Error: Corrupt Cache: sqlite file + See vignette section on corrupt cache + cache: /Users/barret/Library/Caches/ExperimentHub + filename: experimenthub.sqlite3 + Execution halted + ``` + +* checking tests ... + ``` + ERROR + Running the tests in ‘tests/runTests.R’ failed. + Last 13 lines of output: + pwrEWAS RUnit Tests - 1 test function, 1 error, 0 failures + ERROR in test_pwrEWAS: Error : Corrupt Cache: sqlite file + See vignette section on corrupt cache + cache: /Users/barret/Library/Caches/ExperimentHub + filename: experimenthub.sqlite3 + + Test files with failing tests + + test_pwrEWAS.R + test_pwrEWAS + + + Error in BiocGenerics:::testPackage("pwrEWAS") : + unit tests failed for package pwrEWAS + Execution halted + ``` + # QCA
-* Version: 3.7 +* Version: 3.8.2 * Source code: https://github.com/cran/QCA -* Date/Publication: 2020-03-11 09:40:06 UTC +* Date/Publication: 2020-06-03 06:30:09 UTC * Number of recursive dependencies: 20 Run `revdep_details(,"QCA")` for more info @@ -7374,12 +7828,17 @@ Run `revdep_details(,"QCA")` for more info * checking installed package size ... NOTE ``` - installed size is 5.6Mb + installed size is 6.3Mb sub-directories of 1Mb or more: gui 1.6Mb staticdocs 3.3Mb ``` +* checking for GNU extensions in Makefiles ... NOTE + ``` + GNU make is a SystemRequirements. + ``` + # qlcData
@@ -7387,7 +7846,7 @@ Run `revdep_details(,"QCA")` for more info * Version: 0.2.1 * Source code: https://github.com/cran/qlcData * Date/Publication: 2018-01-06 00:00:34 UTC -* Number of recursive dependencies: 55 +* Number of recursive dependencies: 56 Run `revdep_details(,"qlcData")` for more info @@ -7409,7 +7868,7 @@ Run `revdep_details(,"qlcData")` for more info * URL: https://github.com/aloy/qqplotr * BugReports: https://github.com/aloy/qqplotr/issues * Date/Publication: 2020-02-04 07:40:02 UTC -* Number of recursive dependencies: 101 +* Number of recursive dependencies: 102 Run `revdep_details(,"qqplotr")` for more info @@ -7427,12 +7886,12 @@ Run `revdep_details(,"qqplotr")` for more info
-* Version: 0.7.0 +* Version: 0.7.1 * Source code: https://github.com/cran/questionr * URL: https://juba.github.io/questionr/ * BugReports: https://github.com/juba/questionr/issues -* Date/Publication: 2018-11-26 13:10:06 UTC -* Number of recursive dependencies: 79 +* Date/Publication: 2020-05-26 11:30:05 UTC +* Number of recursive dependencies: 80 Run `revdep_details(,"questionr")` for more info @@ -7440,6 +7899,12 @@ Run `revdep_details(,"questionr")` for more info ## In both +* checking dependencies in R code ... NOTE + ``` + Namespace in Imports field not imported from: ‘haven’ + All declared Imports should be used. + ``` + * checking data for non-ASCII characters ... NOTE ``` Note: found 4145 marked UTF-8 strings @@ -7453,7 +7918,7 @@ Run `revdep_details(,"questionr")` for more info * Source code: https://github.com/cran/R3CPET * BugReports: https://github.com/sirusb/R3CPET/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 175 +* Number of recursive dependencies: 172 Run `revdep_details(,"R3CPET")` for more info @@ -7461,51 +7926,12 @@ Run `revdep_details(,"R3CPET")` for more info ## In both -* checking installed package size ... NOTE +* checking package dependencies ... ERROR ``` - installed size is 6.4Mb - sub-directories of 1Mb or more: - data 3.0Mb - example 1.0Mb - ``` - -* checking DESCRIPTION meta-information ... NOTE - ``` - Package listed in more than one of Depends, Imports, Suggests, Enhances: - ‘methods’ - A package should be listed in only one of these fields. - ``` - -* checking dependencies in R code ... NOTE - ``` - Namespace in Imports field not imported from: 'BiocGenerics' - All declared Imports should be used. - ``` - -* checking R code for possible problems ... NOTE - ``` - ... - .formatDAVIDResult: no visible global function definition for - 'formatList' - .formatDAVIDResult: no visible global function definition for - 'formatGene2Gene' - .formatDAVIDResult: no visible global function definition for - 'formatAnnotationReport' - .get.NetworksGenes: no visible global function definition for - 'annotatePeakInBatch' - EnsemblToHGNC: no visible global function definition for 'useMart' - EnsemblToHGNC: no visible global function definition for 'useDataset' - EnsemblToHGNC: no visible global function definition for 'getBM' - EntrezToHGNC: no visible global function definition for 'useMart' - EntrezToHGNC: no visible global function definition for 'useDataset' - EntrezToHGNC: no visible global function definition for 'getBM' - createServer,ChiapetExperimentData-NetworkCollection-ChromMaintainers: - no visible global function definition for 'runApp' - Undefined global functions or variables: - TxDb.Hsapiens.UCSC.hg19.knownGene annotatePeakInBatch - formatAnnotationReport formatGene2Gene formatGeneReport - formatGeneReportFull formatList getBM org.Hs.eg.db org.Hs.egUCSCKG - runApp select toTable useDataset useMart + Package required but not available: ‘clues’ + + See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ + manual. ``` # RagGrid @@ -7563,7 +7989,7 @@ Run `revdep_details(,"rAmCharts")` for more info * Version: 0.1.3 * Source code: https://github.com/cran/rangeModelMetadata * Date/Publication: 2020-03-14 16:50:03 UTC -* Number of recursive dependencies: 210 +* Number of recursive dependencies: 209 Run `revdep_details(,"rangeModelMetadata")` for more info @@ -7588,7 +8014,7 @@ Run `revdep_details(,"rangeModelMetadata")` for more info * URL: http://github.com/Rapporteket/rapbase * BugReports: http://github.com/Rapporteket/rapbase/issues * Date/Publication: 2019-08-07 07:30:02 UTC -* Number of recursive dependencies: 96 +* Number of recursive dependencies: 97 Run `revdep_details(,"rapbase")` for more info @@ -7611,7 +8037,7 @@ Run `revdep_details(,"rapbase")` for more info * URL: https://github.com/juliangehring/Rariant * BugReports: https://support.bioconductor.org * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 167 +* Number of recursive dependencies: 168 Run `revdep_details(,"Rariant")` for more info @@ -7619,43 +8045,42 @@ Run `revdep_details(,"Rariant")` for more info ## In both -* checking examples ... WARNING +* checking whether package ‘Rariant’ can be installed ... ERROR ``` - Found the following significant warnings: - - Warning: 'rbind_all' is deprecated. - Deprecated functions may be defunct as soon as of the next release of - R. - See ?Deprecated. + Installation failed. + See ‘/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex.nosync/Rariant/new/Rariant.Rcheck/00install.out’ for details. ``` -* checking installed package size ... NOTE - ``` - installed size is 7.8Mb - sub-directories of 1Mb or more: - doc 2.2Mb - extdata 5.2Mb - ``` +## Installation -* checking R code for possible problems ... NOTE - ``` - tallyBamRegion: no visible global function definition for 'PileupParam' - tallyBamRegion: no visible global function definition for - 'ScanBamParam' - tallyBamRegion: no visible global function definition for 'pileup' - Undefined global functions or variables: - PileupParam ScanBamParam pileup - ``` +### Devel -* checking installed files from ‘inst/doc’ ... NOTE - ``` - The following files should probably not be installed: - ‘rariant-inspect-ci.png’, ‘rariant-inspect-shift.png’ - - Consider the use of a .Rinstignore file: see ‘Writing R Extensions’, - or move the vignette sources from ‘inst/doc’ to ‘vignettes’. - ``` +``` +* installing *source* package ‘Rariant’ ... +** using staged installation +** R +** inst +** byte-compile and prepare package for lazy loading +Error: object 'rbind_all' is not exported by 'namespace:dplyr' +Execution halted +ERROR: lazy loading failed for package ‘Rariant’ +* removing ‘/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex.nosync/Rariant/new/Rariant.Rcheck/Rariant’ +``` +### CRAN + +``` +* installing *source* package ‘Rariant’ ... +** using staged installation +** R +** inst +** byte-compile and prepare package for lazy loading +Error: object 'rbind_all' is not exported by 'namespace:dplyr' +Execution halted +ERROR: lazy loading failed for package ‘Rariant’ +* removing ‘/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex.nosync/Rariant/old/Rariant.Rcheck/Rariant’ + +``` # rcellminer
@@ -7664,7 +8089,7 @@ Run `revdep_details(,"Rariant")` for more info * Source code: https://github.com/cran/rcellminer * URL: http://discover.nci.nih.gov/cellminer/ * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 103 +* Number of recursive dependencies: 104 Run `revdep_details(,"rcellminer")` for more info @@ -7724,7 +8149,7 @@ Run `revdep_details(,"rcellminer")` for more info * Source code: https://github.com/cran/rCGH * URL: https://github.com/fredcommo/rCGH * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 135 +* Number of recursive dependencies: 136 Run `revdep_details(,"rCGH")` for more info @@ -7747,6 +8172,203 @@ Run `revdep_details(,"rCGH")` for more info Please remove from your package. ``` +# Rcwl + +
+ +* Version: 1.4.2 +* Source code: https://github.com/cran/Rcwl +* Date/Publication: 2020-05-12 +* Number of recursive dependencies: 106 + +Run `revdep_details(,"Rcwl")` for more info + +
+ +## In both + +* checking tests ... + ``` + ERROR + Running the tests in ‘tests/testthat.R’ failed. + Last 13 lines of output: + > library(yaml) + > test_check("Rcwl") + ── 1. Error: extensions (@test_all.R#94) ────────────────────────────────────── + invalid 'description' argument + Backtrace: + 1. testthat::expect_true(all(ext %in% read_yaml(cwlfile))) + 5. yaml::read_yaml(cwlfile) + 6. base::file(file, "rt", encoding = fileEncoding) + + ══ testthat results ═══════════════════════════════════════════════════════════ + [ OK: 16 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 1 ] + 1. Error: extensions (@test_all.R#94) + + Error: testthat unit tests failed + Execution halted + ``` + +* checking S3 generic/method consistency ... WARNING + ``` + /usr/local/lib/python2.7/site-packages/cwltool/__init__.py:17: CWLToolDeprecationWarning: + DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. + Please upgrade your Python as the Python 2.7 version of cwltool won't be + maintained after that date. + + """, category=CWLToolDeprecationWarning) + See section ‘Generic functions and methods’ in the ‘Writing R + Extensions’ manual. + ``` + +* checking replacement functions ... WARNING + ``` + /usr/local/lib/python2.7/site-packages/cwltool/__init__.py:17: CWLToolDeprecationWarning: + DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. + Please upgrade your Python as the Python 2.7 version of cwltool won't be + maintained after that date. + + """, category=CWLToolDeprecationWarning) + The argument of a replacement function which corresponds to the right + hand side must be named ‘value’. + ``` + +* checking for missing documentation entries ... WARNING + ``` + /usr/local/lib/python2.7/site-packages/cwltool/__init__.py:17: CWLToolDeprecationWarning: + DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. + Please upgrade your Python as the Python 2.7 version of cwltool won't be + maintained after that date. + + """, category=CWLToolDeprecationWarning) + All user-level objects in a package should have documentation entries. + See chapter ‘Writing R documentation files’ in the ‘Writing R + Extensions’ manual. + ``` + +* checking for code/documentation mismatches ... WARNING + ``` + /usr/local/lib/python2.7/site-packages/cwltool/__init__.py:17: CWLToolDeprecationWarning: + DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. + Please upgrade your Python as the Python 2.7 version of cwltool won't be + maintained after that date. + + """, category=CWLToolDeprecationWarning) + /usr/local/lib/python2.7/site-packages/cwltool/__init__.py:17: CWLToolDeprecationWarning: + DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. + Please upgrade your Python as the Python 2.7 version of cwltool won't be + maintained after that date. + + """, category=CWLToolDeprecationWarning) + /usr/local/lib/python2.7/site-packages/cwltool/__init__.py:17: CWLToolDeprecationWarning: + DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. + Please upgrade your Python as the Python 2.7 version of cwltool won't be + maintained after that date. + + """, category=CWLToolDeprecationWarning) + ``` + +* checking for hidden files and directories ... NOTE + ``` + Found the following hidden files and directories: + .BBSoptions + These were most likely included in error. See section ‘Package + structure’ in the ‘Writing R Extensions’ manual. + ``` + +* checking dependencies in R code ... NOTE + ``` + /usr/local/lib/python2.7/site-packages/cwltool/__init__.py:17: CWLToolDeprecationWarning: + DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. + Please upgrade your Python as the Python 2.7 version of cwltool won't be + maintained after that date. + + """, category=CWLToolDeprecationWarning) + ``` + +* checking foreign function calls ... NOTE + ``` + /usr/local/lib/python2.7/site-packages/cwltool/__init__.py:17: CWLToolDeprecationWarning: + DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. + Please upgrade your Python as the Python 2.7 version of cwltool won't be + maintained after that date. + + """, category=CWLToolDeprecationWarning) + See chapter ‘System and foreign language interfaces’ in the ‘Writing R + Extensions’ manual. + ``` + +* checking R code for possible problems ... NOTE + ``` + /usr/local/lib/python2.7/site-packages/cwltool/__init__.py:17: CWLToolDeprecationWarning: + DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. + Please upgrade your Python as the Python 2.7 version of cwltool won't be + maintained after that date. + + """, category=CWLToolDeprecationWarning) + ``` + +* checking Rd \usage sections ... NOTE + ``` + /usr/local/lib/python2.7/site-packages/cwltool/__init__.py:17: CWLToolDeprecationWarning: + DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. + Please upgrade your Python as the Python 2.7 version of cwltool won't be + maintained after that date. + + """, category=CWLToolDeprecationWarning) + The \usage entries for S3 methods should use the \method markup and not + their full name. + See chapter ‘Writing R documentation files’ in the ‘Writing R + Extensions’ manual. + ``` + +# rddapp + +
+ +* Version: 1.2.1 +* Source code: https://github.com/cran/rddapp +* Date/Publication: 2020-02-20 06:30:10 UTC +* Number of recursive dependencies: 131 + +Run `revdep_details(,"rddapp")` for more info + +
+ +## In both + +* checking tests ... + ``` + ERROR + Running the tests in ‘tests/testthat.R’ failed. + Last 13 lines of output: + + Attaching package: 'zoo' + + The following objects are masked from 'package:base': + + as.Date, as.Date.numeric + + Loading required package: AER + Loading required package: car + Loading required package: carData + Loading required package: survival + Loading required package: Formula + > library(rddtools) + Error in library(rddtools) : there is no package called 'rddtools' + Execution halted + ``` + +* checking package dependencies ... NOTE + ``` + Package suggested but not available for checking: ‘rddtools’ + ``` + +* checking Rd cross-references ... NOTE + ``` + Unknown package ‘rddtools’ in Rd xrefs + ``` + # recmap
@@ -7798,7 +8420,7 @@ Run `revdep_details(,"ReDaMoR")` for more info * Version: 1.24.0 * Source code: https://github.com/cran/RefNet * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 79 +* Number of recursive dependencies: 84 Run `revdep_details(,"RefNet")` for more info @@ -7821,7 +8443,7 @@ Run `revdep_details(,"RefNet")` for more info * Source code: https://github.com/cran/regressoR * URL: http://www.promidat.com * Date/Publication: 2019-09-19 04:30:03 UTC -* Number of recursive dependencies: 120 +* Number of recursive dependencies: 121 Run `revdep_details(,"regressoR")` for more info @@ -7845,7 +8467,7 @@ Run `revdep_details(,"regressoR")` for more info * Version: 2.28.0 * Source code: https://github.com/cran/ReportingTools * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 174 +* Number of recursive dependencies: 175 Run `revdep_details(,"ReportingTools")` for more info @@ -7853,28 +8475,6 @@ Run `revdep_details(,"ReportingTools")` for more info ## In both -* checking tests ... - ``` - ERROR - Running the tests in ‘tests/runTests.R’ failed. - Last 13 lines of output: - ERROR in /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex.nosync/ReportingTools/new/ReportingTools.Rcheck/ReportingTools/unitTests/test_DESeqResults.R: Error while sourcing /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex.nosync/ReportingTools/new/ReportingTools.Rcheck/ReportingTools/unitTests/test_DESeqResults.R : Error in .requirePackage(package) : - unable to find required package 'DESeq' - - Test files with failing tests - - test_DESeqDataSet.R - /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex.nosync/ReportingTools/new/ReportingTools.Rcheck/ReportingTools/unitTests/test_DESeqDataSet.R - - test_DESeqResults.R - /Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex.nosync/ReportingTools/new/ReportingTools.Rcheck/ReportingTools/unitTests/test_DESeqResults.R - - - Error in BiocGenerics:::testPackage("ReportingTools") : - unit tests failed for package ReportingTools - Execution halted - ``` - * checking R code for possible problems ... NOTE ``` ... @@ -7908,7 +8508,7 @@ Run `revdep_details(,"ReportingTools")` for more info * Version: 0.1 * Source code: https://github.com/cran/reverseR * Date/Publication: 2019-04-24 15:40:03 UTC -* Number of recursive dependencies: 30 +* Number of recursive dependencies: 31 Run `revdep_details(,"reverseR")` for more info @@ -7922,6 +8522,54 @@ Run `revdep_details(,"reverseR")` for more info All declared Imports should be used. ``` +# RforProteomics + +
+ +* Version: 1.26.0 +* Source code: https://github.com/cran/RforProteomics +* URL: http://lgatto.github.com/RforProteomics/ +* Date/Publication: 2020-05-07 +* Number of recursive dependencies: 268 + +Run `revdep_details(,"RforProteomics")` for more info + +
+ +## Newly broken + +* checking R code for possible problems ... NOTE + ``` + shinyMA: possible error in plotOutput("plotma", clickId = + "plotma_click", width = 400, height = 400): unused argument (clickId + = "plotma_click") + ``` + +## In both + +* checking whether package ‘RforProteomics’ can be installed ... WARNING + ``` + Found the following significant warnings: + Note: possible error in 'plotOutput("plotma", ': unused argument (clickId = "plotma_click") + Warning: replacing previous import ‘MSnbase::plot’ by ‘graphics::plot’ when loading ‘RforProteomics’ + See ‘/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex.nosync/RforProteomics/new/RforProteomics.Rcheck/00install.out’ for details. + Information on the location(s) of code generating the ‘Note’s can be + obtained by re-running with environment variable R_KEEP_PKG_SOURCE set + to ‘yes’. + ``` + +* checking package dependencies ... NOTE + ``` + Packages suggested but not available for checking: 'xcms', 'IPPD' + ``` + +* checking installed package size ... NOTE + ``` + installed size is 11.7Mb + sub-directories of 1Mb or more: + doc 10.8Mb + ``` + # Rfssa
@@ -8027,12 +8675,12 @@ Run `revdep_details(,"RLumShiny")` for more info
-* Version: 2.1 +* Version: 2.3 * Source code: https://github.com/cran/rmarkdown * URL: https://github.com/rstudio/rmarkdown * BugReports: https://github.com/rstudio/rmarkdown/issues -* Date/Publication: 2020-01-20 19:30:02 UTC -* Number of recursive dependencies: 71 +* Date/Publication: 2020-06-18 14:50:02 UTC +* Number of recursive dependencies: 73 Run `revdep_details(,"rmarkdown")` for more info @@ -8056,7 +8704,7 @@ Run `revdep_details(,"rmarkdown")` for more info * URL: https://github.com/pzhaonet/rmd * BugReports: https://github.com/pzhaonet/rmd/issues * Date/Publication: 2020-03-01 15:40:02 UTC -* Number of recursive dependencies: 109 +* Number of recursive dependencies: 108 Run `revdep_details(,"rmd")` for more info @@ -8079,7 +8727,7 @@ Run `revdep_details(,"rmd")` for more info * Version: 2.6.0 * Source code: https://github.com/cran/RnBeads * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 244 +* Number of recursive dependencies: 245 Run `revdep_details(,"RnBeads")` for more info @@ -8111,7 +8759,7 @@ Run `revdep_details(,"RnBeads")` for more info ``` installed size is 10.1Mb sub-directories of 1Mb or more: - R 4.0Mb + R 4.1Mb doc 3.7Mb ``` @@ -8176,7 +8824,7 @@ Run `revdep_details(,"RnBeads")` for more info * Version: 1.0.2 * Source code: https://github.com/cran/RobStatTM * Date/Publication: 2020-03-03 00:30:02 UTC -* Number of recursive dependencies: 86 +* Number of recursive dependencies: 87 Run `revdep_details(,"RobStatTM")` for more info @@ -8192,6 +8840,30 @@ Run `revdep_details(,"RobStatTM")` for more info All declared Imports should be used. ``` +# rosr + +
+ +* Version: 0.0.10 +* Source code: https://github.com/cran/rosr +* URL: https://github.com/pzhaonet/rosr +* BugReports: https://github.com/pzhaonet/rosr/issues +* Date/Publication: 2020-05-11 11:10:02 UTC +* Number of recursive dependencies: 91 + +Run `revdep_details(,"rosr")` for more info + +
+ +## In both + +* checking dependencies in R code ... NOTE + ``` + Namespaces in Imports field not imported from: + ‘bookdown’ ‘rstudioapi’ ‘tinytex’ + All declared Imports should be used. + ``` + # rpostgisLT
@@ -8224,7 +8896,7 @@ Run `revdep_details(,"rpostgisLT")` for more info * URL: https://github.com/labbcb/Rqc * BugReports: https://github.com/labbcb/Rqc/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 149 +* Number of recursive dependencies: 150 Run `revdep_details(,"Rqc")` for more info @@ -8315,13 +8987,14 @@ Run `revdep_details(,"RQuantLib")` for more info * checking whether package ‘RQuantLib’ can be installed ... WARNING ``` ... - : warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] - :47:14: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] - 14: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] - :14: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] - /usr/local/include/ql/models/marketmodels/products/multistep/multistepswap.hpp:50:14:14: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] - /usr/local/include/ql/models/marketmodels/products/pathwise/pathwiseproductswaption.hpp:73:22: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations]In file included from curves.cpp - :22: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] + /usr/local/include/ql/models/marketmodels/products/multistep/multistepcoinitialswaps.hpp:48:14: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations]# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)) + 55:14: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] + :49:14: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations]In file included from calendars.cpp:20: + :2080:28:136:22: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] + /usr/local/include/ql/models/marketmodels/products/multistep/multistepratchet.hpp# define _LIBCPP_DEPRECATED __attribute__ ((deprecated)):51:14: warning: note'auto_ptr' is deprecated [-Wdeprecated-declarations]: expanded from macro '_LIBCPP_DEPRECATED' + /usr/local/include/ql/models/marketmodels/products/pathwise/pathwiseproductcaplet.hpp:136:22: warning: 2080:28: 'auto_ptr' is deprecated [-Wdeprecated-declarations] + In file included from 48: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] + :195:22: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] /usr/local/include/ql/utilities/clone.hpp:49:20: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] /usr/local/include/ql/termstructures/yield/fittedbonddiscountcurve.hpp:201:22: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] /usr/local/include/ql/termstructures/yield/nonlinearfittingmethods.hpp:60:14: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] @@ -8330,9 +9003,8 @@ Run `revdep_details(,"RQuantLib")` for more info /usr/local/include/ql/termstructures/yield/nonlinearfittingmethods.hpp:165:14: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] /usr/local/include/ql/termstructures/yield/nonlinearfittingmethods.hpp:203:14: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] /usr/local/include/ql/termstructures/yield/nonlinearfittingmethods.hpp:223:14: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] - In file included from 49:20: warning: 'auto_ptr' is deprecated [-Wdeprecated-declarations] - bermudan.cpp:33:53: warning: 'CalibrationHelper' is deprecated [-Wdeprecated-declarations] affine.cpp:33:53: warning: 'CalibrationHelper' is deprecated [-Wdeprecated-declarations] + bermudan.cpp:33:53: warning: 'CalibrationHelper' is deprecated [-Wdeprecated-declarations] hullwhite.cpp:43:54: warning: 'CalibrationHelper' is deprecated [-Wdeprecated-declarations] hullwhite.cpp:111:54: warning: 'CalibrationHelper' is deprecated [-Wdeprecated-declarations] See ‘/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex.nosync/RQuantLib/new/RQuantLib.Rcheck/00install.out’ for details. @@ -8345,7 +9017,7 @@ Run `revdep_details(,"RQuantLib")` for more info * Version: 1.0.0 * Source code: https://github.com/cran/rrvgo * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 186 +* Number of recursive dependencies: 187 Run `revdep_details(,"rrvgo")` for more info @@ -8377,29 +9049,6 @@ Run `revdep_details(,"rrvgo")` for more info V1 V2 parent parentTerm ``` -# rskey - -
- -* Version: 0.4.1 -* Source code: https://github.com/cran/rskey -* BugReports: https://github.com/brry/rskey/issues -* Date/Publication: 2019-06-18 14:30:03 UTC -* Number of recursive dependencies: 21 - -Run `revdep_details(,"rskey")` for more info - -
- -## In both - -* checking dependencies in R code ... NOTE - ``` - Namespaces in Imports field not imported from: - ‘miniUI’ ‘shiny’ - All declared Imports should be used. - ``` - # rtimicropem
@@ -8409,7 +9058,7 @@ Run `revdep_details(,"rskey")` for more info * URL: https://github.com/ropensci/rtimicropem, https://docs.ropensci.org/rtimicropem/ * BugReports: https://github.com/ropensci/rtimicropem/issues * Date/Publication: 2019-05-15 09:40:03 UTC -* Number of recursive dependencies: 95 +* Number of recursive dependencies: 94 Run `revdep_details(,"rtimicropem")` for more info @@ -8581,9 +9230,9 @@ Run `revdep_details(,"SC3")` for more info * checking installed package size ... NOTE ``` - installed size is 6.3Mb + installed size is 6.1Mb sub-directories of 1Mb or more: - data 3.0Mb + data 2.7Mb doc 2.4Mb ``` @@ -8594,28 +9243,6 @@ Run `revdep_details(,"SC3")` for more info is not mentioned in the DESCRIPTION file. ``` -# schex - -
- -* Version: 1.2.0 -* Source code: https://github.com/cran/schex -* URL: https://github.com/SaskiaFreytag/schex -* BugReports: https://github.com/SaskiaFreytag/schex/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 214 - -Run `revdep_details(,"schex")` for more info - -
- -## In both - -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘TENxPBMCData’ - ``` - # scone
@@ -8624,7 +9251,7 @@ Run `revdep_details(,"schex")` for more info * Source code: https://github.com/cran/scone * BugReports: https://github.com/YosefLab/scone/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 220 +* Number of recursive dependencies: 221 Run `revdep_details(,"scone")` for more info @@ -8666,7 +9293,7 @@ Run `revdep_details(,"scone")` for more info * Source code: https://github.com/cran/SDEFSR * URL: https://github.com/aklxao2/SDR * Date/Publication: 2020-01-28 12:40:10 UTC -* Number of recursive dependencies: 64 +* Number of recursive dependencies: 65 Run `revdep_details(,"SDEFSR")` for more info @@ -8687,7 +9314,7 @@ Run `revdep_details(,"SDEFSR")` for more info * Version: 1.0 * Source code: https://github.com/cran/SEA * Date/Publication: 2018-05-24 12:35:11 UTC -* Number of recursive dependencies: 26 +* Number of recursive dependencies: 27 Run `revdep_details(,"SEA")` for more info @@ -8709,7 +9336,7 @@ Run `revdep_details(,"SEA")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/semdrw * Date/Publication: 2018-11-14 11:00:02 UTC -* Number of recursive dependencies: 144 +* Number of recursive dependencies: 146 Run `revdep_details(,"semdrw")` for more info @@ -8728,12 +9355,12 @@ Run `revdep_details(,"semdrw")` for more info
-* Version: 1.2.0 +* Version: 1.3.0 * Source code: https://github.com/cran/SemNeT * URL: https://github.com/AlexChristensen/SemNeT * BugReports: https://github.com/AlexChristensen/SemNeT/issues -* Date/Publication: 2020-03-22 02:40:02 UTC -* Number of recursive dependencies: 187 +* Date/Publication: 2020-06-09 14:10:03 UTC +* Number of recursive dependencies: 140 Run `revdep_details(,"SemNeT")` for more info @@ -8744,10 +9371,15 @@ Run `revdep_details(,"SemNeT")` for more info * checking dependencies in R code ... NOTE ``` Namespaces in Imports field not imported from: - ‘RColorBrewer’ ‘SemNetCleaner’ ‘grid’ ‘purrr’ + ‘RColorBrewer’ ‘grid’ ‘purrr’ All declared Imports should be used. ``` +* checking Rd cross-references ... NOTE + ``` + Package unavailable to check Rd xrefs: ‘SemNetCleaner’ + ``` + # seqplots
@@ -8820,7 +9452,7 @@ Run `revdep_details(,"seqplots")` for more info * Version: 0.7 * Source code: https://github.com/cran/sglr * Date/Publication: 2014-05-03 00:54:29 -* Number of recursive dependencies: 57 +* Number of recursive dependencies: 58 Run `revdep_details(,"sglr")` for more info @@ -8852,7 +9484,7 @@ Run `revdep_details(,"sglr")` for more info * Version: 0.1.1 * Source code: https://github.com/cran/shiny.router * Date/Publication: 2018-09-18 08:50:07 UTC -* Number of recursive dependencies: 36 +* Number of recursive dependencies: 37 Run `revdep_details(,"shiny.router")` for more info @@ -8874,7 +9506,7 @@ Run `revdep_details(,"shiny.router")` for more info * Source code: https://github.com/cran/shiny.semantic * BugReports: https://github.com/Appsilon/shiny.semantic/issues * Date/Publication: 2020-03-13 07:10:02 UTC -* Number of recursive dependencies: 69 +* Number of recursive dependencies: 70 Run `revdep_details(,"shiny.semantic")` for more info @@ -8897,7 +9529,7 @@ Run `revdep_details(,"shiny.semantic")` for more info * Source code: https://github.com/cran/shinyAce * BugReports: https://github.com/trestletech/shinyAce/issues * Date/Publication: 2019-09-24 10:10:07 UTC -* Number of recursive dependencies: 46 +* Number of recursive dependencies: 47 Run `revdep_details(,"shinyAce")` for more info @@ -8937,12 +9569,12 @@ Run `revdep_details(,"shinyaframe")` for more info
-* Version: 1.0.1 +* Version: 1.1.0 * Source code: https://github.com/cran/shinybrms * URL: https://github.com/fweber144/shinybrms * BugReports: https://github.com/fweber144/shinybrms/issues -* Date/Publication: 2020-03-26 10:00:03 UTC -* Number of recursive dependencies: 121 +* Date/Publication: 2020-06-09 19:20:02 UTC +* Number of recursive dependencies: 120 Run `revdep_details(,"shinybrms")` for more info @@ -8965,7 +9597,7 @@ Run `revdep_details(,"shinybrms")` for more info * URL: https://ebailey78.github.io/shinyBS * BugReports: https://github.com/ebailey78/shinyBS/issues * Date/Publication: 2015-03-31 07:52:38 -* Number of recursive dependencies: 17 +* Number of recursive dependencies: 18 Run `revdep_details(,"shinyBS")` for more info @@ -8993,7 +9625,7 @@ Run `revdep_details(,"shinyBS")` for more info * URL: https://github.com/DivadNojnarg/shinyEffects, https://divadnojnarg.github.io/shinyEffects/ * BugReports: https://github.com/DivadNojnarg/shinyEffects/issues * Date/Publication: 2018-11-18 18:40:03 UTC -* Number of recursive dependencies: 29 +* Number of recursive dependencies: 30 Run `revdep_details(,"shinyEffects")` for more info @@ -9015,7 +9647,7 @@ Run `revdep_details(,"shinyEffects")` for more info * Source code: https://github.com/cran/shinyhelper * BugReports: https://github.com/cwthom/shinyhelper/issues * Date/Publication: 2019-11-09 12:30:02 UTC -* Number of recursive dependencies: 19 +* Number of recursive dependencies: 20 Run `revdep_details(,"shinyhelper")` for more info @@ -9038,7 +9670,7 @@ Run `revdep_details(,"shinyhelper")` for more info * URL: http://www.ShinyItemAnalysis.org, https://CRAN.R-project.org/package=ShinyItemAnalysis * BugReports: https://github.com/patriciamar/ShinyItemAnalysis/issues * Date/Publication: 2020-05-04 15:20:02 UTC -* Number of recursive dependencies: 127 +* Number of recursive dependencies: 128 Run `revdep_details(,"ShinyItemAnalysis")` for more info @@ -9090,7 +9722,7 @@ Run `revdep_details(,"shinyjs")` for more info * Source code: https://github.com/cran/shinyKGode * URL: https://github.com/joewandy/shinyKGode * Date/Publication: 2018-02-12 12:57:59 UTC -* Number of recursive dependencies: 68 +* Number of recursive dependencies: 69 Run `revdep_details(,"shinyKGode")` for more info @@ -9112,7 +9744,7 @@ Run `revdep_details(,"shinyKGode")` for more info * Version: 1.24.0 * Source code: https://github.com/cran/shinyMethyl * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 136 +* Number of recursive dependencies: 137 Run `revdep_details(,"shinyMethyl")` for more info @@ -9138,7 +9770,7 @@ Run `revdep_details(,"shinyMethyl")` for more info * Source code: https://github.com/cran/shinypanels * URL: http://github.com/datasketch/shinypanels * Date/Publication: 2020-01-26 10:30:08 UTC -* Number of recursive dependencies: 37 +* Number of recursive dependencies: 38 Run `revdep_details(,"shinypanels")` for more info @@ -9160,7 +9792,7 @@ Run `revdep_details(,"shinypanels")` for more info * Version: 0.2.6 * Source code: https://github.com/cran/shinyr * Date/Publication: 2020-03-19 15:00:02 UTC -* Number of recursive dependencies: 125 +* Number of recursive dependencies: 124 Run `revdep_details(,"shinyr")` for more info @@ -9183,7 +9815,7 @@ Run `revdep_details(,"shinyr")` for more info * Source code: https://github.com/cran/shinyrecap * URL: https://fellstat.github.io/shinyrecap/ * Date/Publication: 2019-01-19 23:40:03 UTC -* Number of recursive dependencies: 85 +* Number of recursive dependencies: 86 Run `revdep_details(,"shinyrecap")` for more info @@ -9206,7 +9838,7 @@ Run `revdep_details(,"shinyrecap")` for more info * Version: 1.26.0 * Source code: https://github.com/cran/shinyTANDEM * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 27 +* Number of recursive dependencies: 28 Run `revdep_details(,"shinyTANDEM")` for more info @@ -9226,12 +9858,12 @@ Run `revdep_details(,"shinyTANDEM")` for more info
-* Version: 0.1.3 +* Version: 0.1.5 * Source code: https://github.com/cran/sigmajs * URL: http://sigmajs.john-coene.com/ * BugReports: https://github.com/JohnCoene/sigmajs/issues -* Date/Publication: 2019-04-09 11:10:09 UTC -* Number of recursive dependencies: 77 +* Date/Publication: 2020-06-18 18:10:02 UTC +* Number of recursive dependencies: 61 Run `revdep_details(,"sigmajs")` for more info @@ -9269,12 +9901,12 @@ Run `revdep_details(,"SimDesign")` for more info
-* Version: 1.1.2 +* Version: 1.3.0 * Source code: https://github.com/cran/simplevis * URL: https://statisticsnz.github.io/simplevis, https://github.com/statisticsnz/simplevis * BugReports: https://github.com/statisticsNZ/simplevis/issues -* Date/Publication: 2020-05-06 06:30:02 UTC -* Number of recursive dependencies: 118 +* Date/Publication: 2020-06-15 12:20:02 UTC +* Number of recursive dependencies: 117 Run `revdep_details(,"simplevis")` for more info @@ -9298,7 +9930,7 @@ Run `revdep_details(,"simplevis")` for more info * URL: https://compbiomed.github.io/sctk_docs/ * BugReports: https://github.com/compbiomed/singleCellTK/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 250 +* Number of recursive dependencies: 249 Run `revdep_details(,"singleCellTK")` for more info @@ -9306,11 +9938,6 @@ Run `revdep_details(,"singleCellTK")` for more info ## In both -* checking package dependencies ... NOTE - ``` - Package suggested but not available for checking: ‘scRNAseq’ - ``` - * checking for hidden files and directories ... NOTE ``` Found the following hidden files and directories: @@ -9335,6 +9962,61 @@ Run `revdep_details(,"singleCellTK")` for more info Missing or unexported object: ‘SingleCellExperiment::isSpike’ ``` +# skeleSim + +
+ +* Version: 0.9.8 +* Source code: https://github.com/cran/skeleSim +* URL: https://github.com/christianparobek/skeleSim +* BugReports: https://github.com/christianparobek/skeleSim/issues +* Date/Publication: 2017-11-27 22:37:36 UTC +* Number of recursive dependencies: 157 + +Run `revdep_details(,"skeleSim")` for more info + +
+ +## In both + +* checking whether package ‘skeleSim’ can be installed ... ERROR + ``` + Installation failed. + See ‘/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex.nosync/skeleSim/new/skeleSim.Rcheck/00install.out’ for details. + ``` + +## Installation + +### Devel + +``` +* installing *source* package ‘skeleSim’ ... +** package ‘skeleSim’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** inst +** byte-compile and prepare package for lazy loading +Error: object ‘strata<-’ is not exported by 'namespace:strataG' +Execution halted +ERROR: lazy loading failed for package ‘skeleSim’ +* removing ‘/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex.nosync/skeleSim/new/skeleSim.Rcheck/skeleSim’ + +``` +### CRAN + +``` +* installing *source* package ‘skeleSim’ ... +** package ‘skeleSim’ successfully unpacked and MD5 sums checked +** using staged installation +** R +** inst +** byte-compile and prepare package for lazy loading +Error: object ‘strata<-’ is not exported by 'namespace:strataG' +Execution halted +ERROR: lazy loading failed for package ‘skeleSim’ +* removing ‘/Users/barret/Documents/git/rstudio/shiny/shiny/revdep/checks.noindex.nosync/skeleSim/old/skeleSim.Rcheck/skeleSim’ + +``` # skpr
@@ -9373,7 +10055,7 @@ Run `revdep_details(,"skpr")` for more info * Source code: https://github.com/cran/soc.ca * URL: https://github.com/Rsoc/soc.ca * Date/Publication: 2016-02-09 15:53:12 -* Number of recursive dependencies: 64 +* Number of recursive dependencies: 65 Run `revdep_details(,"soc.ca")` for more info @@ -9419,12 +10101,12 @@ Run `revdep_details(,"soilcarbon")` for more info
-* Version: 1.2.0 +* Version: 1.2.1 * Source code: https://github.com/cran/sojourner * URL: https://github.com/sheng-liu/sojourner * BugReports: https://github.com/sheng-liu/sojourner/issues -* Date/Publication: 2020-04-27 -* Number of recursive dependencies: 118 +* Date/Publication: 2020-05-30 +* Number of recursive dependencies: 116 Run `revdep_details(,"sojourner")` for more info @@ -9444,10 +10126,10 @@ Run `revdep_details(,"sojourner")` for more info
-* Version: 1.6.2 +* Version: 1.7.0 * Source code: https://github.com/cran/soundgen * URL: http://cogsci.se/soundgen.html -* Date/Publication: 2020-02-06 10:20:09 UTC +* Date/Publication: 2020-05-24 14:20:02 UTC * Number of recursive dependencies: 43 Run `revdep_details(,"soundgen")` for more info @@ -9458,9 +10140,9 @@ Run `revdep_details(,"soundgen")` for more info * checking installed package size ... NOTE ``` - installed size is 5.3Mb + installed size is 5.6Mb sub-directories of 1Mb or more: - doc 4.0Mb + doc 4.3Mb ``` # SpaDES.addins @@ -9472,7 +10154,7 @@ Run `revdep_details(,"soundgen")` for more info * URL: http://spades-addins.predictiveecology.org/, https://github.com/PredictiveEcology/SpaDES.addins * BugReports: https://github.com/PredictiveEcology/SpaDES.addins/issues * Date/Publication: 2019-02-03 20:13:20 UTC -* Number of recursive dependencies: 142 +* Number of recursive dependencies: 139 Run `revdep_details(,"SpaDES.addins")` for more info @@ -9491,11 +10173,11 @@ Run `revdep_details(,"SpaDES.addins")` for more info
-* Version: 1.1.0 +* Version: 1.6.0 * Source code: https://github.com/cran/spant * BugReports: https://github.com/martin3141/spant/issues -* Date/Publication: 2020-03-01 12:50:03 UTC -* Number of recursive dependencies: 99 +* Date/Publication: 2020-06-05 15:40:06 UTC +* Number of recursive dependencies: 100 Run `revdep_details(,"spant")` for more info @@ -9589,6 +10271,81 @@ Run `revdep_details(,"SpatialEpiApp")` for more info All declared Imports should be used. ``` +# spatialLIBD + +
+ +* Version: 1.0.0 +* Source code: https://github.com/cran/spatialLIBD +* URL: https://github.com/LieberInstitute/spatialLIBD +* BugReports: https://support.bioconductor.org/t/spatialLIBD +* Date/Publication: 2020-05-07 +* Number of recursive dependencies: 181 + +Run `revdep_details(,"spatialLIBD")` for more info + +
+ +## In both + +* checking examples ... ERROR + ``` + ... + > ### Title: Check input image_path + > ### Aliases: check_image_path + > + > ### ** Examples + > + > + > if (enough_ram()) { + + ## Obtain the necessary data + + if (!exists("sce")) sce <- fetch_data("sce") + + + + ## Get the path to the images + + img_path <- system.file("app", "www", "data", package = "spatialLIBD") + + + + ## Check the object + + check_image_path(img_path, sce) + + } + Error: Corrupt Cache: sqlite file + See vignette section on corrupt cache + cache: /Users/barret/Library/Caches/ExperimentHub + filename: experimenthub.sqlite3 + Execution halted + ``` + +* checking installed package size ... NOTE + ``` + installed size is 14.3Mb + sub-directories of 1Mb or more: + app 5.6Mb + doc 5.9Mb + help 2.3Mb + ``` + +# spectrolab + +
+ +* Version: 0.0.9 +* Source code: https://github.com/cran/spectrolab +* URL: https://CRAN.R-project.org/package=spectrolab +* Date/Publication: 2020-06-09 13:20:03 UTC +* Number of recursive dependencies: 90 + +Run `revdep_details(,"spectrolab")` for more info + +
+ +## In both + +* checking dependencies in R code ... NOTE + ``` + Namespaces in Imports field not imported from: + ‘devtools’ ‘usethis’ + All declared Imports should be used. + ``` + # SSDM
@@ -9619,7 +10376,7 @@ Run `revdep_details(,"SSDM")` for more info * Version: 1.4.0 * Source code: https://github.com/cran/ssrch * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 47 +* Number of recursive dependencies: 48 Run `revdep_details(,"ssrch")` for more info @@ -9649,7 +10406,7 @@ Run `revdep_details(,"ssrch")` for more info * Version: 1.0.0 * Source code: https://github.com/cran/sstModel * Date/Publication: 2018-05-03 22:21:08 UTC -* Number of recursive dependencies: 67 +* Number of recursive dependencies: 68 Run `revdep_details(,"sstModel")` for more info @@ -9670,7 +10427,7 @@ Run `revdep_details(,"sstModel")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/STAT * Date/Publication: 2019-04-01 16:40:10 UTC -* Number of recursive dependencies: 114 +* Number of recursive dependencies: 115 Run `revdep_details(,"STAT")` for more info @@ -9695,7 +10452,7 @@ Run `revdep_details(,"STAT")` for more info * URL: https://github.com/pzhaonet/steemr * BugReports: https://github.com/pzhaonet/steemr/issues * Date/Publication: 2019-01-16 09:20:03 UTC -* Number of recursive dependencies: 116 +* Number of recursive dependencies: 115 Run `revdep_details(,"steemr")` for more info @@ -9719,7 +10476,7 @@ Run `revdep_details(,"steemr")` for more info * URL: https://github.com/cschwem2er/stminsights * BugReports: https://github.com/cschwem2er/stminsights/issues * Date/Publication: 2018-11-24 13:10:03 UTC -* Number of recursive dependencies: 129 +* Number of recursive dependencies: 130 Run `revdep_details(,"stminsights")` for more info @@ -9755,6 +10512,28 @@ Run `revdep_details(,"STMotif")` for more info All declared Imports should be used. ``` +# strand + +
+ +* Version: 0.1.3 +* Source code: https://github.com/cran/strand +* URL: https://github.com/strand-tech/strand +* BugReports: https://github.com/strand-tech/strand/issues +* Date/Publication: 2020-05-26 10:10:02 UTC +* Number of recursive dependencies: 82 + +Run `revdep_details(,"strand")` for more info + +
+ +## In both + +* checking package dependencies ... NOTE + ``` + Package suggested but not available for checking: ‘Rsymphony’ + ``` + # subscreen
@@ -9762,7 +10541,7 @@ Run `revdep_details(,"STMotif")` for more info * Version: 2.0.1 * Source code: https://github.com/cran/subscreen * Date/Publication: 2019-01-07 16:40:07 UTC -* Number of recursive dependencies: 87 +* Number of recursive dependencies: 86 Run `revdep_details(,"subscreen")` for more info @@ -9817,7 +10596,7 @@ Run `revdep_details(,"tableHTML")` for more info * URL: https://rinterface.github.io/tablerDash/, https://github.com/RinteRface/tablerDash/ * BugReports: https://github.com/RinteRface/tablerDash/issues * Date/Publication: 2019-03-08 16:00:03 UTC -* Number of recursive dependencies: 64 +* Number of recursive dependencies: 65 Run `revdep_details(,"tablerDash")` for more info @@ -9885,7 +10664,7 @@ Run `revdep_details(,"TBSignatureProfiler")` for more info * Version: 1.14.0 * Source code: https://github.com/cran/TCGAbiolinksGUI * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 325 +* Number of recursive dependencies: 321 Run `revdep_details(,"TCGAbiolinksGUI")` for more info @@ -9915,6 +10694,33 @@ Run `revdep_details(,"TCGAbiolinksGUI")` for more info for when this namespace is loaded but not attached. ``` +# TeachBayes + +
+ +* Version: 1.0 +* Source code: https://github.com/cran/TeachBayes +* Date/Publication: 2017-03-25 10:58:44 UTC +* Number of recursive dependencies: 73 + +Run `revdep_details(,"TeachBayes")` for more info + +
+ +## In both + +* checking Rd \usage sections ... WARNING + ``` + Documented arguments not in \usage in documentation object 'beta_draw': + ‘...’ + + Functions with \usage entries need to have the appropriate \alias + entries, and all their arguments documented. + The \usage entries must correspond to syntactically valid R code. + See chapter ‘Writing R documentation files’ in the ‘Writing R + Extensions’ manual. + ``` + # tenXplore
@@ -9922,7 +10728,7 @@ Run `revdep_details(,"TCGAbiolinksGUI")` for more info * Version: 1.10.0 * Source code: https://github.com/cran/tenXplore * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 113 +* Number of recursive dependencies: 115 Run `revdep_details(,"tenXplore")` for more info @@ -9967,7 +10773,7 @@ Run `revdep_details(,"TestDesign")` for more info * URL: https://github.com/RDocTaskForce/testextra * BugReports: https://github.com/RDocTaskForce/testextra/issues * Date/Publication: 2019-12-18 09:15:29 UTC -* Number of recursive dependencies: 83 +* Number of recursive dependencies: 84 Run `revdep_details(,"testextra")` for more info @@ -10012,7 +10818,7 @@ Run `revdep_details(,"texPreview")` for more info * Version: 1.8.0 * Source code: https://github.com/cran/TFutils * Date/Publication: 2020-04-30 -* Number of recursive dependencies: 166 +* Number of recursive dependencies: 167 Run `revdep_details(,"TFutils")` for more info @@ -10093,6 +10899,71 @@ Run `revdep_details(,"TFutils")` for more info Note: found 62 marked UTF-8 strings ``` +# tidycells + +
+ +* Version: 0.2.2 +* Source code: https://github.com/cran/tidycells +* URL: https://r-rudra.github.io/tidycells/, https://github.com/r-rudra/tidycells +* BugReports: https://github.com/r-rudra/tidycells/issues +* Date/Publication: 2020-01-09 19:10:09 UTC +* Number of recursive dependencies: 115 + +Run `revdep_details(,"tidycells")` for more info + +
+ +## In both + +* checking examples ... ERROR + ``` + ... + > cd <- as_cell_df(d) %>% numeric_values_classifier() + Error: `x` must be a vector, not a `tbl_df/tbl/data.frame/unpivotr` object. + Backtrace: + █ + 1. ├─as_cell_df(d) %>% numeric_values_classifier() + 2. │ └─base::eval(lhs, parent, parent) + 3. │ └─base::eval(lhs, parent, parent) + 4. ├─tidycells::as_cell_df(d) + 5. └─tidycells:::as_cell_df.data.frame(d) + 6. └─d %>% attach_intermediate_class() %>% as_cell_df_internal(...) + 7. ├─base::withVisible(eval(quote(`_fseq`(`_lhs`)), env, env)) + 8. └─base::eval(quote(`_fseq`(`_lhs`)), env, env) + 9. └─base::eval(quote(`_fseq`(`_lhs`)), env, env) + 10. └─tidycells:::`_fseq`(`_lhs`) + 11. └─magrittr::freduce(value, `_function_list`) + 12. ├─base::withVisible(function_list[[k]](value)) + 13. └─function_list[[k]](value) + 14. ├─tidycells:::as_cell_df_internal(., ...) + 15. └─tidycells:::as_cell_df_internal.default(., ...) + 16. └─`% + Execution halted + ``` + +* checking tests ... + ``` + ERROR + Running the tests in ‘tests/testthat.R’ failed. + Last 13 lines of output: + ══ testthat results ═══════════════════════════════════════════════════════════ + [ OK: 34 | SKIPPED: 2 | WARNINGS: 8 | FAILED: 29 ] + 1. Error: numeric_values_classifier works (@test-VA_classifier.R#5) + 2. Error: sample_based_classifier works (@test-VA_classifier.R#45) + 3. Error: sample_based_classifier works (@test-VA_classifier.R#41) + 4. Error: (unknown) (@test-VA_classifier.R#41) + 5. Error: analyze_cell works: base + 6. Error: analyze_cell works: tidyxl (@test-analyze_cells.R#28) + 7. Error: analyze_cell works: tidyxl (@test-analyze_cells.R#25) + 8. Error: (unknown) (@test-analyze_cells.R#25) + 9. Error: as_cell_df() works on tidyxl::xlsx_cells on single sheet (@test-as_cell_df.R#6) + 1. ... + + Error: testthat unit tests failed + Execution halted + ``` + # timeline
@@ -10102,7 +10973,7 @@ Run `revdep_details(,"TFutils")` for more info * URL: http://jason.bryer.org/timeline, http://github.com/jbryer/timeline * BugReports: https://github.com/jbryer/timeline/issues * Date/Publication: 2013-05-09 17:03:14 -* Number of recursive dependencies: 57 +* Number of recursive dependencies: 58 Run `revdep_details(,"timeline")` for more info @@ -10143,6 +11014,47 @@ Run `revdep_details(,"timeline")` for more info ylab ``` +# TimerQuant + +
+ +* Version: 1.18.0 +* Source code: https://github.com/cran/TimerQuant +* Date/Publication: 2020-05-07 +* Number of recursive dependencies: 80 + +Run `revdep_details(,"TimerQuant")` for more info + +
+ +## In both + +* checking R code for possible problems ... NOTE + ``` + ... + genTimeSteadyStateHeatmap: no visible global function definition for + ‘rainbow’ + plotPrimordiumProfile: no visible binding for global variable ‘median’ + plotPrimordiumProfile: no visible binding for global variable ‘mad’ + plotPrimordiumProfile: no visible global function definition for ‘par’ + plotPrimordiumProfile: no visible global function definition for ‘axis’ + plotPrimordiumProfile: no visible global function definition for + ‘points’ + plotPrimordiumProfile: no visible global function definition for + ‘polygon’ + plotPrimordiumProfile: no visible global function definition for ‘rgb’ + simulatedRatio: no visible global function definition for ‘rnorm’ + Undefined global functions or variables: + approxfun axis mad median optimize par points polygon predict rainbow + rgb rnorm + Consider adding + importFrom("grDevices", "rainbow", "rgb") + importFrom("graphics", "axis", "par", "points", "polygon") + importFrom("stats", "approxfun", "mad", "median", "optimize", + "predict", "rnorm") + to your NAMESPACE file. + ``` + # timeseriesdb
@@ -10152,7 +11064,7 @@ Run `revdep_details(,"timeline")` for more info * URL: https://github.com/mbannert/timeseriesdb * BugReports: https://github.com/mbannert/timeseriesdb/issues * Date/Publication: 2018-08-06 11:20:03 UTC -* Number of recursive dependencies: 51 +* Number of recursive dependencies: 52 Run `revdep_details(,"timeseriesdb")` for more info @@ -10212,6 +11124,29 @@ Run `revdep_details(,"tmaptools")` for more info All declared Imports should be used. ``` +# TR8 + +
+ +* Version: 0.9.21 +* Source code: https://github.com/cran/TR8 +* URL: https://github.com/GioBo/TR8 +* BugReports: https://github.com/GioBo/TR8/issues +* Date/Publication: 2020-05-17 13:50:06 UTC +* Number of recursive dependencies: 85 + +Run `revdep_details(,"TR8")` for more info + +
+ +## In both + +* checking data for non-ASCII characters ... NOTE + ``` + Note: found 153 marked Latin-1 strings + Note: found 108 marked UTF-8 strings + ``` + # trackeRapp
@@ -10221,7 +11156,7 @@ Run `revdep_details(,"tmaptools")` for more info * URL: https://github.com/trackerproject/trackeRapp * BugReports: https://github.com/trackerproject/trackeRapp/issues * Date/Publication: 2020-05-03 17:50:03 UTC -* Number of recursive dependencies: 127 +* Number of recursive dependencies: 128 Run `revdep_details(,"trackeRapp")` for more info @@ -10245,7 +11180,7 @@ Run `revdep_details(,"trackeRapp")` for more info * URL: https://cran.r-project.org/package=treespace, https://github.com/thibautjombart/treespace * BugReports: https://github.com/thibautjombart/treespace/issues * Date/Publication: 2019-12-08 22:40:02 UTC -* Number of recursive dependencies: 173 +* Number of recursive dependencies: 174 Run `revdep_details(,"treespace")` for more info @@ -10255,7 +11190,7 @@ Run `revdep_details(,"treespace")` for more info * checking installed package size ... NOTE ``` - installed size is 5.9Mb + installed size is 5.8Mb sub-directories of 1Mb or more: doc 4.3Mb ``` @@ -10267,7 +11202,7 @@ Run `revdep_details(,"treespace")` for more info * Version: 1.26.0 * Source code: https://github.com/cran/TSCAN * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 75 +* Number of recursive dependencies: 76 Run `revdep_details(,"TSCAN")` for more info @@ -10308,7 +11243,7 @@ Run `revdep_details(,"TSCAN")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/ttestshiny * Date/Publication: 2018-10-30 16:30:03 UTC -* Number of recursive dependencies: 34 +* Number of recursive dependencies: 35 Run `revdep_details(,"ttestshiny")` for more info @@ -10332,7 +11267,7 @@ Run `revdep_details(,"ttestshiny")` for more info * URL: https://github.com/kevinrue/TVTB * BugReports: https://github.com/kevinrue/TVTB/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 157 +* Number of recursive dependencies: 158 Run `revdep_details(,"TVTB")` for more info @@ -10380,7 +11315,7 @@ Run `revdep_details(,"twoddpcr")` for more info * Version: 1.8.0 * Source code: https://github.com/cran/TxRegInfra * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 157 +* Number of recursive dependencies: 158 Run `revdep_details(,"TxRegInfra")` for more info @@ -10467,12 +11402,12 @@ Run `revdep_details(,"ubiquity")` for more info
-* Version: 0.4.0 +* Version: 0.5.0 * Source code: https://github.com/cran/UCSCXenaShiny * URL: https://github.com/openbiox/XenaShiny * BugReports: https://github.com/openbiox/XenaShiny/issues -* Date/Publication: 2019-11-02 21:50:02 UTC -* Number of recursive dependencies: 127 +* Date/Publication: 2020-06-03 13:40:02 UTC +* Number of recursive dependencies: 126 Run `revdep_details(,"UCSCXenaShiny")` for more info @@ -10500,7 +11435,7 @@ Run `revdep_details(,"UCSCXenaShiny")` for more info * Version: 1.6.0 * Source code: https://github.com/cran/Ularcirc * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 144 +* Number of recursive dependencies: 145 Run `revdep_details(,"Ularcirc")` for more info @@ -10520,12 +11455,12 @@ Run `revdep_details(,"Ularcirc")` for more info
-* Version: 3.8.19 +* Version: 3.8.20 * Source code: https://github.com/cran/ursa * URL: https://github.com/nplatonov/ursa * BugReports: https://github.com/nplatonov/ursa/issues -* Date/Publication: 2020-03-29 08:00:03 UTC -* Number of recursive dependencies: 124 +* Date/Publication: 2020-06-12 09:10:06 UTC +* Number of recursive dependencies: 116 Run `revdep_details(,"ursa")` for more info @@ -10535,7 +11470,7 @@ Run `revdep_details(,"ursa")` for more info * checking Rd cross-references ... NOTE ``` - Packages unavailable to check Rd xrefs: ‘rje’, ‘magick’ + Package unavailable to check Rd xrefs: ‘rje’ ``` # VariantFiltering @@ -10547,7 +11482,7 @@ Run `revdep_details(,"ursa")` for more info * URL: https://github.com/rcastelo/VariantFiltering * BugReports: https://github.com/rcastelo/VariantFiltering/issues * Date/Publication: 2020-04-27 -* Number of recursive dependencies: 168 +* Number of recursive dependencies: 169 Run `revdep_details(,"VariantFiltering")` for more info @@ -10562,22 +11497,21 @@ Run `revdep_details(,"VariantFiltering")` for more info Errors in running code in vignettes: when running code in ‘usingVariantFiltering.Rnw’ ... - > vfpar <- VariantFilteringParam(CEUvcf) Loading BSgenome annotation package BSgenome.Hsapiens.1000genomes.hs37d5 Loading OrgDb annotation package org.Hs.eg.db Loading TxDb annotation package TxDb.Hsapiens.UCSC.hg19.knownGene Loading SNPlocs annotation package SNPlocs.Hsapiens.dbSNP144.GRCh37 + Loading annotation package MafDb.1Kgenomes.phase1.hs37d5 When sourcing 'usingVariantFiltering.R': - Error: please install the Bioconductor package MafDb.1Kgenomes.phase1.hs37d5. + Error: please install the Bioconductor package PolyPhen.Hsapiens.dbSNP131. Execution halted ``` * checking package dependencies ... NOTE ``` Packages suggested but not available for checking: - 'MafDb.1Kgenomes.phase1.hs37d5', 'phastCons100way.UCSC.hg19', 'PolyPhen.Hsapiens.dbSNP131', 'SIFT.Hsapiens.dbSNP137' ``` @@ -10601,11 +11535,6 @@ Run `revdep_details(,"VariantFiltering")` for more info '.adjustForStrandSense' '.ancestorsSO' '.findSOIDs' ``` -* checking Rd cross-references ... NOTE - ``` - Package unavailable to check Rd xrefs: ‘phastCons100way.UCSC.hg19’ - ``` - # VarSelLCM
@@ -10652,12 +11581,12 @@ Run `revdep_details(,"VarSelLCM")` for more info
-* Version: 0.3.1 +* Version: 0.3.2 * Source code: https://github.com/cran/vdiffr * URL: https://github.com/r-lib/vdiffr * BugReports: https://github.com/r-lib/vdiffr/issues -* Date/Publication: 2019-06-24 16:30:03 UTC -* Number of recursive dependencies: 102 +* Date/Publication: 2020-06-06 13:00:02 UTC +* Number of recursive dependencies: 103 Run `revdep_details(,"vdiffr")` for more info @@ -10700,7 +11629,7 @@ Run `revdep_details(,"viromeBrowser")` for more info * Version: 2.1 * Source code: https://github.com/cran/visit * Date/Publication: 2019-08-26 09:30:02 UTC -* Number of recursive dependencies: 87 +* Number of recursive dependencies: 88 Run `revdep_details(,"visit")` for more info @@ -10774,7 +11703,7 @@ Run `revdep_details(,"VTShiny")` for more info * Version: 0.1.0 * Source code: https://github.com/cran/waiter * Date/Publication: 2020-01-14 15:50:02 UTC -* Number of recursive dependencies: 17 +* Number of recursive dependencies: 18 Run `revdep_details(,"waiter")` for more info @@ -10837,29 +11766,6 @@ Run `revdep_details(,"webr")` for more info All declared Imports should be used. ``` -# wilson - -
- -* Version: 2.3.1 -* Source code: https://github.com/cran/wilson -* URL: https://github.com/loosolab/wilson/ -* BugReports: https://github.com/loosolab/wilson/issues/ -* Date/Publication: 2019-11-18 14:10:02 UTC -* Number of recursive dependencies: 231 - -Run `revdep_details(,"wilson")` for more info - -
- -## In both - -* checking dependencies in R code ... NOTE - ``` - Namespace in Imports field not imported from: ‘magrittr’ - All declared Imports should be used. - ``` - # wiseR
@@ -10923,7 +11829,7 @@ Run `revdep_details(,"wTO")` for more info * Source code: https://github.com/cran/xROI * BugReports: https://github.com/bnasr/xROI/issues * Date/Publication: 2019-02-13 22:00:03 UTC -* Number of recursive dependencies: 104 +* Number of recursive dependencies: 103 Run `revdep_details(,"xROI")` for more info diff --git a/revdep/revdep_cran.md b/revdep/revdep_cran.md index 001b5d47c..b4fabb78b 100644 --- a/revdep/revdep_cran.md +++ b/revdep/revdep_cran.md @@ -1,9 +1,9 @@ ## revdepcheck results -We checked 855 reverse dependencies (739 from CRAN + 116 from BioConductor), comparing R CMD check results across CRAN and dev versions of this package. +We checked 902 reverse dependencies (778 from CRAN + 124 from BioConductor), comparing R CMD check results across CRAN and dev versions of this package. - * We saw 2 new problems - * We failed to check 0 packages + * We saw 1 new problems + * We failed to check 2 packages Issues with CRAN packages are summarised below. @@ -13,5 +13,16 @@ Issues with CRAN packages are summarised below. * bsplus checking tests ... -* periscope - checking tests ... + * Notified on May 11, 2020 + * PR: https://github.com/ijlyttle/bsplus/pull/74 + * Merged: May 12, 2020 + + +### Failed to check + +* frailtypack + * I can not figure out a way to install from source on macOS + +* skeleSim + * Error: object ‘strata<-’ is not exported by 'namespace:strataG' + * False positive diff --git a/tests/testthat/helper.R b/tests/testthat/helper.R index e9ff97136..c0444e6e6 100644 --- a/tests/testthat/helper.R +++ b/tests/testthat/helper.R @@ -83,5 +83,3 @@ rewire_namespace_handler <- function(pkgname, symbolname, value) { } } } - -