work on fixing up bioconductor packages
This commit is contained in:
Jeffrey David Johnson
parent
05fc143451
commit
e98a231af8
@ -698,12 +698,35 @@ let
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# Packages which cannot be installed due to lack of dependencies or other reasons.
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brokenPackages = [
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"RareVariantVis" # broken build
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"TransView" # broken build
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"Starr" # broken build
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"SICtools" # broken build
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"ReQON" # depends on broken package seqbias
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"seqbias" # broken build
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"Repitools" # broken build
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"QuasR" # broken build
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"qrqc" # broken build
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"ProteomicsAnnotationHubData" # broken build
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"podkat" # broken build
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"PING" # depends on broken package PICS
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"PICS" # broken build
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"mcaGUI" # broken build
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"deepSNV" # broken build
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"motifbreakR" # depends on broken package MotIV
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"LowMACA" # depends on broken package MotIV
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"dagLogo" # depends on broken package MotIV
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"motifStack" # depends on broken package MotIV
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"MotIV" # broken build
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"CNEr" # broken build
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"canceR" # broken build
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"BubbleTree" # broken build
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"arrayQualityMetrics" # broken build
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"ArrayExpressHTS" # broken build
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"TargetSearchData" # depends on broken package TargetSearch
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"TargetSearch" # broken build
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"ptw" # depends on broken package nloptr
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"INSPEcT" # broken build
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"gpuR" # broken build
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"erma" # broken build
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"CNVPanelizer" # broken build
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"MBmca" # depends on broken package chipPCR
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"dpcR" # depends on broken package chipPCR
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"chipPCR" # broken build
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@ -721,294 +744,9 @@ let
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"categoryCompare" # depends on broken package RCytoscape
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"preseqR" # depends on broken package polynom
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"permutations" # depends on broken package partitions
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"yummlyr" # depends on broken package openssl
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"yhatr" # depends on broken package openssl
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"WufooR" # depends on broken package openssl
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"WikiSocio" # depends on broken package openssl
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"WikipediR" # depends on broken package openssl
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"WikipediaR" # depends on broken package openssl
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"WikidataR" # depends on broken package openssl
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"whoapi" # depends on broken package openssl
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"whoami" # depends on broken package openssl
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"WHO" # depends on broken package openssl
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"WaterML" # depends on broken package openssl
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"vegdata" # depends on broken package openssl
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"twitteR" # depends on broken package openssl
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"tumblR" # depends on broken package openssl
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"tuber" # depends on broken package openssl
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"translateR" # depends on broken package openssl
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"transcribeR" # depends on broken package openssl
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"TMDb" # depends on broken package openssl
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"tigris" # depends on broken package openssl
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"threewords" # depends on broken package openssl
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"SWMPr" # depends on broken package openssl
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"swirlify" # depends on broken package openssl
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"swirl" # depends on broken package openssl
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"stplanr" # depends on broken package openssl
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"stmBrowser" # depends on broken package openssl
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"spareserver" # depends on broken package openssl
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"solrium" # depends on broken package openssl
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"solr" # depends on broken package openssl
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"SocialMediaMineR" # depends on broken package openssl
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"PogromcyDanych" # depends on broken package openssl
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"SmarterPoland" # depends on broken package openssl
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"slackr" # depends on broken package openssl
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"sbgr" # depends on broken package openssl
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"RYandexTranslate" # depends on broken package openssl
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"rwunderground" # depends on broken package openssl
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"rWBclimate" # depends on broken package openssl
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"wikipediatrend" # depends on broken package openssl
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"webchem" # depends on broken package openssl
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"sejmRP" # depends on broken package openssl
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"scholar" # depends on broken package openssl
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"RTCGA_rnaseq" # depends on broken package openssl
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"RTCGA_mutations" # depends on broken package openssl
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"RTCGA_clinical" # depends on broken package openssl
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"RTCGA" # depends on broken package openssl
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"rNOMADS" # depends on broken package openssl
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"nhanesA" # depends on broken package openssl
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"MazamaSpatialUtils" # depends on broken package openssl
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"gsheet" # depends on broken package openssl
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"rvest" # depends on broken package openssl
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"rvertnet" # depends on broken package openssl
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"rusda" # depends on broken package openssl
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"rtimes" # depends on broken package openssl
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"rsunlight" # depends on broken package openssl
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"rstatscn" # depends on broken package openssl
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"RSocrata" # depends on broken package openssl
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"rsnps" # depends on broken package openssl
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"RSiteCatalyst" # depends on broken package openssl
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"rscopus" # depends on broken package openssl
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"rredlist" # depends on broken package openssl
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"RPublica" # depends on broken package openssl
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"RPresto" # depends on broken package openssl
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"rplos" # depends on broken package openssl
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"rotl" # depends on broken package openssl
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"rorcid" # depends on broken package openssl
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"ROptimizely" # depends on broken package openssl
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"ROpenWeatherMap" # depends on broken package openssl
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"robotstxt" # depends on broken package openssl
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"rnoaa" # depends on broken package openssl
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"RNeo4j" # depends on broken package openssl
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"rnbn" # depends on broken package openssl
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"Rmonkey" # depends on broken package openssl
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"Rlinkedin" # depends on broken package openssl
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"rinat" # depends on broken package openssl
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"ridigbio" # depends on broken package openssl
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"rHealthDataGov" # depends on broken package openssl
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"RGoogleAnalyticsPremium" # depends on broken package openssl
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"RGoogleAnalytics" # depends on broken package openssl
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"heemod" # depends on broken package openssl
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"rgho" # depends on broken package openssl
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"rgeolocate" # depends on broken package openssl
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"RGA" # depends on broken package openssl
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"RForcecom" # depends on broken package openssl
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"rfoaas" # depends on broken package openssl
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"rfml" # depends on broken package openssl
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"rfisheries" # depends on broken package openssl
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"rfishbase" # depends on broken package openssl
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"zoon" # depends on broken package openssl
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"rfigshare" # depends on broken package openssl
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"Rfacebook" # depends on broken package openssl
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"rerddap" # depends on broken package openssl
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"request" # depends on broken package openssl
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"repmis" # depends on broken package openssl
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"rentrez" # depends on broken package openssl
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"REDCapR" # depends on broken package openssl
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"redcapAPI" # depends on broken package openssl
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"rechonest" # depends on broken package openssl
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"rebird" # depends on broken package openssl
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"rdrop2" # depends on broken package openssl
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"rdian" # depends on broken package openssl
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"RCy3" # depends on broken package openssl
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"rcrossref" # depends on broken package openssl
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"RCriteo" # depends on broken package openssl
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"Rcolombos" # depends on broken package openssl
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"rclinicaltrials" # depends on broken package openssl
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"rbison" # depends on broken package openssl
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"rbhl" # depends on broken package openssl
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"randNames" # depends on broken package openssl
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"quickmapr" # depends on broken package openssl
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"qrmtools" # depends on broken package openssl
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"Quandl" # depends on broken package openssl
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"pxweb" # depends on broken package openssl
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"pvsR" # depends on broken package openssl
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"pushoverr" # depends on broken package openssl
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"PSICQUIC" # depends on broken package openssl
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"prism" # depends on broken package openssl
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"primerTree" # depends on broken package openssl
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"pollstR" # depends on broken package openssl
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"plotly" # depends on broken package openssl
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"pinnacle_API" # depends on broken package openssl
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"pdftables" # depends on broken package openssl
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"pdfetch" # depends on broken package openssl
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"paxtoolsr" # depends on broken package openssl
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"pageviews" # depends on broken package openssl
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"packagetrackr" # depends on broken package openssl
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"ores" # depends on broken package openssl
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"OECD" # depends on broken package openssl
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"rdryad" # depends on broken package openssl
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"rdatacite" # depends on broken package openssl
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"pangaear" # depends on broken package openssl
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"oai" # depends on broken package openssl
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"neotoma" # depends on broken package openssl
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"myvariant" # depends on broken package openssl
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"mygene" # depends on broken package openssl
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"EMbC" # depends on broken package openssl
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"move" # depends on broken package openssl
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"miRLAB" # depends on broken package openssl
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"AzureML" # depends on broken package openssl
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"miniCRAN" # depends on broken package openssl
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"markmyassignment" # depends on broken package openssl
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"manifestoR" # depends on broken package openssl
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"TLdating" # depends on broken package openssl
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"RLumShiny" # depends on broken package openssl
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"Luminescence" # depends on broken package openssl
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"lumendb" # depends on broken package openssl
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"lucr" # depends on broken package openssl
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"longurl" # depends on broken package openssl
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"lintr" # depends on broken package openssl
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"LightningR" # depends on broken package openssl
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"interAdapt" # depends on broken package openssl
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"knitcitations" # depends on broken package openssl
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"ROntoTools" # depends on broken package openssl
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"RnaSeqSampleSize" # depends on broken package openssl
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"CompGO" # depends on broken package openssl
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"pathview" # depends on broken package openssl
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"PAPi" # depends on broken package openssl
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"mmnet" # depends on broken package openssl
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"KEGGprofile" # depends on broken package openssl
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"Hiiragi2013" # depends on broken package openssl
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"gage" # depends on broken package openssl
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"clusterProfiler" # depends on broken package openssl
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"KEGGREST" # depends on broken package openssl
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"internetarchive" # depends on broken package openssl
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"SocialMediaLab" # depends on broken package openssl
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"instaR" # depends on broken package openssl
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"imguR" # depends on broken package openssl
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"idbr" # depends on broken package openssl
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"httping" # depends on broken package openssl
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"httpcache" # depends on broken package openssl
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"htmltab" # depends on broken package openssl
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"hoardeR" # depends on broken package openssl
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"googlesheets" # depends on broken package openssl
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"GoogleGenomics" # depends on broken package openssl
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"googleformr" # depends on broken package openssl
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"searchConsoleR" # depends on broken package openssl
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"googleAuthR" # depends on broken package openssl
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"gmailr" # depends on broken package openssl
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"gitlabr" # depends on broken package openssl
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"switchrGist" # depends on broken package openssl
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"spoccutils" # depends on broken package openssl
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"rbokeh" # depends on broken package openssl
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"mapr" # depends on broken package openssl
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"gistr" # depends on broken package openssl
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"geoknife" # depends on broken package openssl
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"geocodeHERE" # depends on broken package openssl
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"genderizeR" # depends on broken package openssl
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"NLPutils" # depends on broken package openssl
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"qdap" # depends on broken package openssl
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"gender" # depends on broken package openssl
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"GAR" # depends on broken package openssl
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"flora" # depends on broken package openssl
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"fitbitScraper" # depends on broken package openssl
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"federalregister" # depends on broken package openssl
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"eurostat" # depends on broken package openssl
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"enigma" # depends on broken package openssl
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"elastic" # depends on broken package openssl
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"ecoengine" # depends on broken package openssl
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"ecb" # depends on broken package openssl
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"dpmr" # depends on broken package openssl
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"distcomp" # depends on broken package openssl
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"diezeit" # depends on broken package openssl
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"wru" # depends on broken package openssl
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"TCGAbiolinks" # depends on broken package openssl
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"regionReport" # depends on broken package openssl
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"rbundler" # depends on broken package openssl
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"pacman" # depends on broken package openssl
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"x_ent" # depends on broken package openssl
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"opencpu" # depends on broken package openssl
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"inpdfr" # depends on broken package openssl
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"metacom" # depends on broken package openssl
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"FedData" # depends on broken package openssl
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"easypackages" # depends on broken package openssl
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"demi" # depends on broken package openssl
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"creditr" # depends on broken package openssl
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"cogena" # depends on broken package openssl
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"bisectr" # depends on broken package openssl
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"devtools" # depends on broken package openssl
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"ddeploy" # depends on broken package openssl
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"EGRETci" # depends on broken package openssl
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"EGRET" # depends on broken package openssl
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"dataRetrieval" # depends on broken package openssl
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"dataonderivatives" # depends on broken package openssl
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"crunch" # depends on broken package openssl
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"cranlogs" # depends on broken package openssl
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"covr" # depends on broken package openssl
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"couchDB" # depends on broken package openssl
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"ckanr" # depends on broken package openssl
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"chromer" # depends on broken package openssl
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"chillR" # depends on broken package openssl
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"censusr" # depends on broken package openssl
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"cdcfluview" # depends on broken package openssl
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"boxr" # depends on broken package openssl
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"traits" # depends on broken package openssl
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"TR8" # depends on broken package openssl
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"SigTree" # depends on broken package openssl
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"phyext2" # depends on broken package openssl
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"PCPS" # depends on broken package openssl
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"BMhyd" # depends on broken package openssl
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"BioGeoBEARS" # depends on broken package openssl
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"treescape" # depends on broken package openssl
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"phylosignal" # depends on broken package openssl
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"adephylo" # depends on broken package openssl
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"phylobase" # depends on broken package openssl
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"RNeXML" # depends on broken package openssl
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"myTAI" # depends on broken package openssl
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"MonoPhy" # depends on broken package openssl
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"brranching" # depends on broken package openssl
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"bdvis" # depends on broken package openssl
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"taxize" # depends on broken package openssl
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"bold" # depends on broken package openssl
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"biomartr" # depends on broken package openssl
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"BiocCheck" # depends on broken package openssl
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"bigrquery" # depends on broken package openssl
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"benchmarkme" # depends on broken package openssl
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"atsd" # depends on broken package openssl
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"fulltext" # depends on broken package openssl
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"aRxiv" # depends on broken package openssl
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"SpaDES" # depends on broken package openssl
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"archivist_github" # depends on broken package openssl
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"archivist" # depends on broken package openssl
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"AntWeb" # depends on broken package openssl
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"RefNet" # depends on broken package openssl
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"pwOmics" # depends on broken package openssl
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"grasp2db" # depends on broken package openssl
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"EnsDb_Rnorvegicus_v79" # depends on broken package openssl
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"EnsDb_Rnorvegicus_v75" # depends on broken package openssl
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"EnsDb_Mmusculus_v79" # depends on broken package openssl
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"EnsDb_Mmusculus_v75" # depends on broken package openssl
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"EnsDb_Hsapiens_v79" # depends on broken package openssl
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"EnsDb_Hsapiens_v75" # depends on broken package openssl
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"REDseq" # depends on broken package openssl
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"GUIDEseq" # depends on broken package openssl
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"ggtut" # depends on broken package openssl
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"FunciSNP" # depends on broken package openssl
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"ChIPpeakAnno" # depends on broken package openssl
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"ensembldb" # depends on broken package openssl
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"ProteomicsAnnotationHubData" # depends on broken package openssl
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"AnnotationHubData" # depends on broken package openssl
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"AnnotationHub" # depends on broken package openssl
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"analogsea" # depends on broken package openssl
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"alm" # depends on broken package openssl
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"abbyyR" # depends on broken package openssl
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"httr" # depends on broken package openssl
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"bcrypt" # depends on broken package openssl
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"GLMMRR" # depends on broken package lme4
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"replicationInterval" # depends on broken package lme4
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"GWASdata" # depends on broken package GWASTools
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"vtpnet" # depends on broken package gQTLBase
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"geuvStore" # depends on broken package gQTLBase
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"LLSR" # depends on broken package ggtern
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"ggtern" # broken build
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"EnsemblePCReg" # depends on broken package EnsembleBase
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@ -1016,9 +754,6 @@ let
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"popprxl" # depends on broken package poppr
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"cpgen" # depends on broken package pedigreemm
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"mitml" # depends on broken package jomo
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"gwascat" # depends on broken package gQTLBase
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"gQTLstats" # depends on broken package gQTLBase
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"gQTLBase" # broken build
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"IlluminaHumanMethylation450k_db" # broken build
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"gahgu95ecdf" # broken build
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"gahgu95dcdf" # broken build
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@ -1091,7 +826,6 @@ let
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"abd" # depends on broken package nlopt
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"adabag" # depends on broken package nlopt
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"adhoc" # broken build
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"adSplit" # build is broken
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"AER" # depends on broken package nlopt
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"afex" # depends on broken package nlopt
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"agRee" # depends on broken package nlopt
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@ -1112,9 +846,7 @@ let
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"AtelieR" # broken build
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"auRoc" # depends on broken package rjags
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"AutoModel" # depends on broken package car
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"BAGS" # build is broken
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"bamdit" # broken build
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"bamsignals" # build is broken
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"BANOVA" # broken build
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"bapred" # depends on broken package lme4
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"bartMachine" # depends on broken package nlopt
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@ -1217,7 +949,6 @@ let
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"DistatisR" # depends on broken package nlopt
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"diveRsity" # depends on broken package nlopt
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"DJL" # depends on broken package car
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"domainsignatures" # build is broken
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"doMPI" # build is broken
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"dpa" # depends on broken package nlopt
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"dpcR" # depends on broken nloptr
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@ -1237,7 +968,6 @@ let
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"embryogrowth" # broken build
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"emg" # broken build
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"EnQuireR" # depends on broken package nlopt
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"EnrichmentBrowser" # depends on broken package EDASeq
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"episplineDensity" # depends on broken package nlopt
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"epr" # depends on broken package nlopt
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"erer" # depends on broken package nlopt
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@ -1252,10 +982,8 @@ let
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"FactoMineR" # depends on broken package nlopt
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"Factoshiny" # depends on broken package nlopt
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"faoutlier" # depends on broken package nlopt
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"fastLiquidAssociation" # depends on broken package LiquidAssociation
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"fastR" # depends on broken package nlopt
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"FDRreg" # depends on broken package nlopt
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"FEM" # build is broken
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"fishmethods" # depends on broken package lme4
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"flipflop" # broken build
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"flowDensity" # depends on broken package nlopt
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@ -1292,11 +1020,7 @@ let
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"gmatrix" # depends on broken package cudatoolkit
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"gMCP" # build is broken
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"gmum_r" # broken build
|
||||
"GOFunction" # build is broken
|
||||
"goProfiles" # build is broken
|
||||
"goseq" # build is broken
|
||||
"Goslate" # depends on broken package PythonInR
|
||||
"goTools" # build is broken
|
||||
"GPC" # broken build
|
||||
"gplm" # depends on broken package nlopt
|
||||
"gpuR" # depends on GPU-specific header files
|
||||
@ -1327,7 +1051,6 @@ let
|
||||
"hysteresis" # depends on broken package nlopt
|
||||
"IATscores" # depends on broken package nlopt
|
||||
"ibd" # depends on broken package nlopt
|
||||
"ibh" # build is broken
|
||||
"iccbeta" # depends on broken package nlopt
|
||||
"iClick" # depends on broken package rugarch
|
||||
"ifaTools" # depends on broken package OpenMx
|
||||
@ -1352,7 +1075,6 @@ let
|
||||
"joda" # depends on broken package nlopt
|
||||
"jomo" # build is broken
|
||||
"js" # depends on broken package V8
|
||||
"keggorthology" # build is broken
|
||||
"KoNLP" # broken build
|
||||
"kzft" # broken build
|
||||
"LaplaceDeconv" # depends on broken package orthopolynom
|
||||
@ -1365,10 +1087,8 @@ let
|
||||
"lgcp" # depends on broken package rpanel
|
||||
"Libra" # broken build
|
||||
"LinRegInteractive" # depends on broken package rpanel
|
||||
"LiquidAssociation" # build is broken
|
||||
"lira" # broken build
|
||||
"littler" # broken build
|
||||
"lmdme" # build is broken
|
||||
"lme4" # depends on broken package nlopt
|
||||
"LMERConvenienceFunctions" # depends on broken package nlopt
|
||||
"lmerTest" # depends on broken package nlopt
|
||||
@ -1388,8 +1108,6 @@ let
|
||||
"mbest" # depends on broken package nlopt
|
||||
"MBmca" # depends on broken nloptr
|
||||
"mBvs" # build is broken
|
||||
"MCRestimate" # build is broken
|
||||
"mdgsa" # build is broken
|
||||
"meboot" # depends on broken package nlopt
|
||||
"medflex" # depends on broken package car
|
||||
"mediation" # depends on broken package lme4
|
||||
@ -1404,7 +1122,6 @@ let
|
||||
"metaplus" # depends on broken package nlopt
|
||||
"metaSEM" # depends on broken package OpenMx
|
||||
"Metatron" # depends on broken package nlopt
|
||||
"metaX" # depends on broken package CAMERA
|
||||
"miceadds" # depends on broken package nlopt
|
||||
"micEconAids" # depends on broken package nlopt
|
||||
"micEconCES" # depends on broken package nlopt
|
||||
@ -1413,7 +1130,6 @@ let
|
||||
"MigClim" # Build Is Broken
|
||||
"migui" # depends on broken package nlopt
|
||||
"minimist" # depends on broken package V8
|
||||
"mirIntegrator" # build is broken
|
||||
"missMDA" # depends on broken package nlopt
|
||||
"mitoODE" # build is broken
|
||||
"mixAK" # depends on broken package nlopt
|
||||
@ -1427,7 +1143,6 @@ let
|
||||
"mlVAR" # depends on broken package nlopt
|
||||
"MM" # broken build
|
||||
"mongolite" # build is broken
|
||||
"monocle" # build is broken
|
||||
"morse" # broken build
|
||||
"mosaic" # depends on broken package nlopt
|
||||
"mpoly" # broken build
|
||||
@ -1447,7 +1162,6 @@ let
|
||||
"nCal" # depends on broken package nlopt
|
||||
"ncdfFlow" # build is broken
|
||||
"NCIgraph" # depends on broken package RCytoscape
|
||||
"netbenchmark" # build is broken
|
||||
"NHPoisson" # depends on broken package nlopt
|
||||
"nloptr" # depends on broken package nlopt
|
||||
"nlsem" # broken build
|
||||
@ -1462,7 +1176,6 @@ let
|
||||
"OpenCL" # build is broken
|
||||
"openCyto" # depends on broken package ncdfFlow
|
||||
"OpenMx" # build is broken
|
||||
"openssl" # broken build
|
||||
"optBiomarker" # depends on broken package rpanel
|
||||
"ora" # depends on broken package ROracle
|
||||
"ordBTL" # depends on broken package nlopt
|
||||
@ -1471,7 +1184,6 @@ let
|
||||
"OUwie" # depends on broken package nlopt
|
||||
"oz" # broken build
|
||||
"PAA" # broken build
|
||||
"PADOG" # build is broken
|
||||
"pamm" # depends on broken package nlopt
|
||||
"PANDA" # build is broken
|
||||
"panelAR" # depends on broken package nlopt
|
||||
@ -1479,14 +1191,12 @@ let
|
||||
"parboost" # depends on broken package nlopt
|
||||
"parma" # depends on broken package nlopt
|
||||
"partitions" # broken build
|
||||
"pathRender" # build is broken
|
||||
"PatternClass" # build is broken
|
||||
"PBImisc" # depends on broken package nlopt
|
||||
"PBSddesolve" # build is broken
|
||||
"pcaBootPlot" # depends on broken FactoMineR
|
||||
"pcaL1" # build is broken
|
||||
"pcnetmeta" # broken build
|
||||
"pdmclass" # build is broken
|
||||
"PDQutils" # broken build
|
||||
"pedigreemm" # depends on broken package nlopt
|
||||
"pedometrics" # depends on broken package nlopt
|
||||
@ -1520,7 +1230,6 @@ let
|
||||
"PVAClone" # broken build
|
||||
"pvca" # depends on broken package nlopt
|
||||
"PythonInR" # broken build
|
||||
"qcmetrics" # build is broken
|
||||
"QFRM" # broken build
|
||||
"qgraph" # depends on broken package nlopt
|
||||
"qtbase" # build is broken
|
||||
@ -1606,7 +1315,6 @@ let
|
||||
"Rgnuplot" # broken build
|
||||
"rgp" # build is broken
|
||||
"rgpui" # depends on broken package rgp
|
||||
"rgsepd" # depends on broken package goseq
|
||||
"rhdf5" # build is broken
|
||||
"rjade" # depends on broken package V8
|
||||
"rjags" # broken build
|
||||
|
||||
Loading…
Reference in New Issue
Block a user