diff --git a/pkgs/development/r-modules/default.nix b/pkgs/development/r-modules/default.nix index 8163b9915c04..68ed405ad7c2 100644 --- a/pkgs/development/r-modules/default.nix +++ b/pkgs/development/r-modules/default.nix @@ -674,15 +674,25 @@ let # Packages which cannot be installed due to lack of dependencies or other reasons. brokenPackages = [ "a4Base" # depends on broken package annaffy-1.41.1 + "a4Classif" # broken build + "a4Core" # broken build "a4" # depends on broken package annaffy-1.41.1 + "a4Preproc" # broken build "a4Reporting" # depends on broken package annaffy-1.41.1 + "ABAEnrichment" # broken build + "ABarray" # broken build "abd" # depends on broken package nlopt-2.4.2 + "aCGH" # broken build + "ACME" # broken build "Actigraphy" # Build Is Broken "adabag" # depends on broken package nlopt-2.4.2 "ADaCGH2" # depends on broken package tilingArray-1.47.0 + "adhoc" # broken build "adSplit" # build is broken "AER" # depends on broken package nlopt-2.4.2 "afex" # depends on broken package nlopt-2.4.2 + "AffyCompatible" # broken build + "affycomp" # broken build "affyContam" # depends on broken package affyio-1.37.0 "affycoretools" # depends on broken package affyio-1.37.0 "affy" # depends on broken package affyio-1.37.0 @@ -696,9 +706,13 @@ let "affyQCReport" # depends on broken package affyio-1.37.0 "AffyRNADegradation" # depends on broken package affyio-1.37.0 "AffyTiling" # depends on broken package affyio-1.37.0 + "AGDEX" # broken build "AgiMicroRna" # depends on broken package affyio-1.37.0 "agRee" # depends on broken package nlopt-2.4.2 + "AIMS" # broken build + "ALDEx2" # broken build "aLFQ" # depends on broken package nlopt-2.4.2 + "algstat" # broken build "AllelicImbalance" # depends on broken package Rsamtools-1.21.8 "alr3" # depends on broken package nlopt-2.4.2 "alr4" # depends on broken package nlopt-2.4.2 @@ -706,15 +720,28 @@ let "altcdfenvs" # depends on broken package affyio-1.37.0 "ampliQueso" # depends on broken package Rsamtools-1.21.8 "anacor" # depends on broken package nlopt-2.4.2 + "AnalysisPageServer" # broken build + "animation" # broken build + "anim_plots" # broken build "annaffy" # build is broken "annmap" # depends on broken package Rsamtools-1.21.8 + "annotate" # broken build + "AnnotationDbi" # broken build "AnnotationForge" # Build Is Broken + "AnnotationFuncs" # broken build + "AnnotationHubData" # depends on broken package r-AnnotationForge-1.11.19 "AnnotationHub" # depends on broken package interactiveDisplayBase-1.7.0 + "annotationTools" # broken build + "anota" # broken build "aods3" # depends on broken package nlopt-2.4.2 + "aop" # broken build + "apaTables" # depends on broken package r-car-2.1-0 "apComplex" # build is broken + "apmsWAPP" # broken build "apt" # depends on broken package nlopt-2.4.2 "ArfimaMLM" # depends on broken package nlopt-2.4.2 "arm" # depends on broken package nlopt-2.4.2 + "ArrayBin" # broken build "ArrayExpress" # depends on broken package affyio-1.37.0 "ArrayExpressHTS" # depends on broken package Rsamtools-1.21.8 "arrayMvout" # depends on broken package affyio-1.37.0 @@ -722,68 +749,133 @@ let "ArrayTools" # depends on broken package affyio-1.37.0 "ArrayTV" # depends on broken package affyio-1.37.0 "ARRmNormalization" # Build Is Broken + "ART" # depends on broken package ar-car-2.1-0 "ARTool" # depends on broken package nlopt-2.4.2 + "AssetPricing" # broken build + "AtelieR" # broken build "attract" # depends on broken package AnnotationForge-1.11.3 + "AutoModel" # depends on broken package r-car-2.1-0 + "babel" # broken build "BACA" # depends on broken package Category-2.35.1 + "backShift" # broken build "BAGS" # build is broken "ballgown" # depends on broken package Rsamtools-1.21.8 "bamsignals" # build is broken + "bapred" # depends on broken package r-lme4-1.1-9 "bartMachine" # depends on broken package nlopt-2.4.2 "Basic4Cseq" # depends on broken package Rsamtools-1.21.8 "bayesDem" # depends on broken package nlopt-2.4.2 "bayesLife" # depends on broken package nlopt-2.4.2 + "BayesPeak" # broken build "bayesPop" # depends on broken package nlopt-2.4.2 "Bayesthresh" # depends on broken package nlopt-2.4.2 + "bayou" # broken build + "baySeq" # broken build + "BBCAnalyzer" # depends on broken package r-Rsamtools-1.21.18 "BBRecapture" # depends on broken package nlopt-2.4.2 "BCA" # depends on broken package nlopt-2.4.2 + "BcDiag" # broken build + "BCRANK" # broken build + "beadarray" # broken build + "beadarrayFilter" # broken build + "beadarrayMSV" # broken build + "beadarraySNP" # broken build "BEAT" # depends on broken package Rsamtools-1.21.8 + "bedr" # broken build + "betr" # broken build "bgmm" # depends on broken package nlopt-2.4.2 "bgx" # depends on broken package affyio-1.37.0 + "BicARE" # broken build "BIFIEsurvey" # depends on broken package nlopt-2.4.2 "bigGP" # build is broken "BiGGR" # depends on broken package rsbml-2.27.0 + "bigmemoryExtras" # broken build + "bioassayR" # broken build + "Biobase" # broken build + "BiocCaseStudies" # broken build + "BiocCheck" # broken build + "BiocGenerics" # broken build + "biocGraph" # broken build + "biocViews" # broken build + "bioDist" # broken build "BiodiversityR" # depends on broken package nlopt-2.4.2 + "biomaRt" # broken build + "biomartr" # broken build + "BioMVCClass" # broken build "biomvRCNS" # depends on broken package Rsamtools-1.21.8 + "BioNet" # broken build + "BioSeqClass" # broken build + "Biostrings" # broken build + "biosvd" # broken build "biotools" # depends on broken package rpanel-1.1-3 "biovizBase" # depends on broken package Rsamtools-1.21.8 + "birta" # broken build "birte" # build is broken + "bisectr" # broken build "BiSEp" # depends on broken package GOSemSim-1.27.3 "BiSeq" # depends on broken package Rsamtools-1.21.8 "BitSeq" # depends on broken package Rsamtools-1.21.8 "BLCOP" # depends on broken package Rsymphony-0.1-20 + "blima" # broken build "blmeco" # depends on broken package nlopt-2.4.2 "blme" # depends on broken package nlopt-2.4.2 "bmd" # depends on broken package nlopt-2.4.2 "bmem" # depends on broken package nlopt-2.4.2 + "BMhyd" # broken build + "bnclassify" # broken build "bootnet" # depends on broken package nlopt-2.4.2 "boss" # depends on broken package nlopt-2.4.2 "BradleyTerry2" # depends on broken package nlopt-2.4.2 + "BrailleR" # broken build + "BRAIN" # broken build + "BrainStars" # broken build + "BrowserViz" # broken build + "BrowserVizDemo" # broken build + "brr" # broken build "BRugs" # build is broken "BSgenome" # depends on broken package Rsamtools-1.21.8 + "bsseq" # broken build + "BubbleTree" # depends on broken package r-biovizBase-1.17.2 "bumphunter" # depends on broken package Rsamtools-1.21.8 "CADFtest" # depends on broken package nlopt-2.4.2 "CAFE" # depends on broken package affyio-1.37.0 "CAGEr" # depends on broken package Rsamtools-1.21.8 "cAIC4" # depends on broken package nlopt-2.4.2 "CAMERA" # depends on broken package mzR-2.3.1 + "cancerclass" # broken build "canceR" # depends on broken package Category-2.35.1 + "CancerMutationAnalysis" # broken build "candisc" # depends on broken package nlopt-2.4.2 "carcass" # depends on broken package nlopt-2.4.2 "car" # depends on broken package nlopt-2.4.2 + "Cardinal" # broken build "caret" # depends on broken package nlopt-2.4.2 "caretEnsemble" # depends on broken package nlopt-2.4.2 + "caRpools" # broken build "CARrampsOcl" # depends on broken package OpenCL-0.1-3 "casper" # depends on broken package Rsamtools-1.21.8 + "cate" # broken build "Category" # Build Is Broken "categoryCompare" # depends on broken package Category-2.35.1 + "Causata" # broken build "CCpop" # depends on broken package nlopt-2.4.2 + "cdcfluview" # broken build "cellHTS2" # depends on broken package Category-2.35.1 + "cellHTS" # broken build + "CellNOptR" # broken build "CexoR" # depends on broken package Rsamtools-1.21.8 + "CGHbase" # broken build + "CGHcall" # broken build + "cghMCR" # broken build + "CGHnormaliter" # broken build + "CGHregions" # broken build "ChainLadder" # depends on broken package nlopt-2.4.2 "ChAMP" # depends on broken package affyio-1.37.0 "charm" # depends on broken package affyio-1.37.0 + "ChemmineOB" # broken build "ChemmineR" # Build Is Broken "chimera" # depends on broken package Rsamtools-1.21.8 + "ChIPComp" # depends on broken package r-Rsamtools-1.21.18 "chipenrich" # build is broken "chipPCR" # depends on broken nloptr-1.0.4 "ChIPpeakAnno" # depends on broken package Rsamtools-1.21.8 @@ -793,34 +885,57 @@ let "ChIPseqR" # depends on broken package Rsamtools-1.21.8 "ChIPsim" # depends on broken package Rsamtools-1.21.8 "ChIPXpress" # depends on broken package affyio-1.37.0 + "chroGPS" # broken build + "chromDraw" # broken build "ChromHeatMap" # depends on broken package Rsamtools-1.21.8 + "Claddis" # broken build + "classGraph" # broken build + "ClassifyR" # broken build "cleanUpdTSeq" # depends on broken package Rsamtools-1.21.8 + "cleaver" # broken build + "clere" # broken build "climwin" # depends on broken package nlopt-2.4.2 + "clippda" # broken build "clipper" # depends on broken package Rsamtools-1.21.8 "CLME" # depends on broken package nlopt-2.4.2 "clpAPI" # build is broken "clusterPower" # depends on broken package nlopt-2.4.2 "clusterProfiler" # depends on broken package GOSemSim-1.27.3 "clusterSEs" # depends on broken AER-1.2-4 + "clusterStab" # broken build "ClustGeo" # depends on broken FactoMineR-1.31.3 + "CMA" # broken build "CNEr" # depends on broken package Rsamtools-1.21.8 "cn_farms" # depends on broken package affyio-1.37.0 "cn_mops" # depends on broken package Rsamtools-1.21.8 + "CNORdt" # broken build + "CNORfeeder" # broken build "CNORfuzzy" # depends on broken package nlopt-2.4.2 + "CNORode" # broken build + "CNTools" # broken build + "cnvGSA" # broken build "CNVPanelizer" # depends on broken cn.mops-1.15.1 "CNVrd2" # depends on broken package Rsamtools-1.21.8 "cobindR" # depends on broken package Rsamtools-1.21.8 "CoCiteStats" # Build Is Broken + "codelink" # broken build "CODEX" # depends on broken package Rsamtools-1.21.8 + "cogena" # broken build "COHCAP" # build is broken "colorscience" "coMET" # depends on broken package Rsamtools-1.21.8 + "compcodeR" # broken build + "compendiumdb" # broken build "compEpiTools" # depends on broken package topGO-2.21.0 "CompGO" # depends on broken package Category-2.35.1 "conformal" # depends on broken package nlopt-2.4.2 "ConsensusClusterPlus" # Build Is Broken "conumee" # depends on broken package Rsamtools-1.21.8 + "convert" # broken build + "convevol" # broken build + "copa" # broken build "CopyNumber450k" # depends on broken package Rsamtools-1.21.8 + "copynumber" # broken build "CopywriteR" # depends on broken package Rsamtools-1.21.8 "corHMM" # depends on broken package nlopt-2.4.2 "Cormotif" # depends on broken package affyio-1.37.0 @@ -828,21 +943,44 @@ let "cosmiq" # depends on broken package mzR-2.3.1 "CosmoPhotoz" # depends on broken package nlopt-2.4.2 "CoverageView" # depends on broken package Rsamtools-1.21.8 + "covmat" # depends on broken package r-VIM-4.4.1 + "covr" # broken build + "cp4p" # broken build + "cpgen" # depends on broken package r-pedigreemm-0.3-3 "cplexAPI" # build is broken "cpvSNP" # depends on broken package Rsamtools-1.21.8 + "creditr" # broken build + "CRImage" # broken build "CRISPRseek" # depends on broken package Rsamtools-1.21.8 "crlmm" # depends on broken package affyio-1.37.0 + "crmn" # broken build "Crossover" # Build Is Broken "CrypticIBDcheck" # depends on broken package nlopt-2.4.2 + "CSAR" # broken build "csaw" # depends on broken package Rsamtools-1.21.8 + "ctsem" # depends on broken package r-OpenMx-2.2.6 "cudaBayesreg" # build is broken "cummeRbund" # depends on broken package Rsamtools-1.21.8 + "curvHDR" # broken build "customProDB" # depends on broken package Rsamtools-1.21.8 + "cycle" # broken build + "cytofkit" # broken build + "D2C" # broken build "daff" # depends on broken package V8-0.6 "dagbag" # build is broken "dagLogo" # depends on broken package Rsamtools-1.21.8 "DAMisc" # depends on broken package nlopt-2.4.2 + "DASiR" # broken build + "datafsm" # depends on broken package r-caret-6.0-52 + "DBChIP" # broken build + "dbConnect" # broken build "DBKGrad" # depends on broken package rpanel-1.1-3 + "dcGOR" # broken build + "ddCt" # broken build + "ddgraph" # broken build + "ddst" # broken build + "DECIPHER" # broken build + "DeconRNASeq" # broken build "Deducer" # depends on broken package nlopt-2.4.2 "DeducerExtras" # depends on broken package nlopt-2.4.2 "DeducerPlugInExample" # depends on broken package nlopt-2.4.2 @@ -852,21 +990,34 @@ let "DeducerText" # depends on broken package nlopt-2.4.2 "deepSNV" # depends on broken package Rsamtools-1.21.8 "DEGraph" # depends on broken package RCytoscape-1.19.0 + "DEGreport" # broken build "demi" # depends on broken package affyio-1.37.0 "derfinder" # depends on broken package Rsamtools-1.21.8 + "derfinderHelper" # broken build "derfinderPlot" # depends on broken package Rsamtools-1.21.8 + "DESeq2" # broken build + "DESeq" # broken build + "DESP" # broken build "destiny" # depends on broken package VIM-4.3.0 + "devtools" # broken build "DEXSeq" # depends on broken package Rsamtools-1.21.8 + "dexus" # broken build + "DFP" # broken build "DiagTest3Grp" # depends on broken package nlopt-2.4.2 "DiffBind" # depends on broken package AnnotationForge-1.11.3 + "DiffCorr" # broken build "diffHic" # depends on broken package rhdf5-2.13.1 "difR" # depends on broken package nlopt-2.4.2 + "diggit" # broken build "DirichletMultinomial" # Build Is Broken "discSurv" # depends on broken package nlopt-2.4.2 "DistatisR" # depends on broken package nlopt-2.4.2 "diveRsity" # depends on broken package nlopt-2.4.2 + "DMRcaller" # broken build "DMRcate" # depends on broken package Rsamtools-1.21.8 "DMRforPairs" # depends on broken package Rsamtools-1.21.8 + "dnet" # broken build + "docxtractr" # broken build "domainsignatures" # build is broken "doMPI" # build is broken "DOQTL" # depends on broken package Rsamtools-1.21.8 @@ -877,12 +1028,23 @@ let "drfit" # depends on broken package nlopt-2.4.2 "drsmooth" # depends on broken package nlopt-2.4.2 "DrugVsDisease" # depends on broken package affyio-1.37.0 + "DSS" # broken build "dualKS" # depends on broken package affyio-1.37.0 + "dupRadar" # depends on broken package r-Rsubread-1.19.5 + "dyebias" # broken build "dynlm" # depends on broken package nlopt-2.4.2 "easyanova" # depends on broken package nlopt-2.4.2 "easyRNASeq" # depends on broken package Rsamtools-1.21.8 + "EBarrays" # broken build + "EBcoexpress" # broken build + "EBImage" # broken build + "ecolitk" # broken build "EDASeq" # depends on broken package Rsamtools-1.21.8 + "EDDA" # broken build "edge" # depends on broken package nlopt-2.4.2 + "edgeR" # broken build + "edgeRun" # broken build + "edmr" # broken build "eeptools" # depends on broken package nlopt-2.4.2 "EffectLiteR" # depends on broken package nlopt-2.4.2 "effects" # depends on broken package nlopt-2.4.2 @@ -890,18 +1052,28 @@ let "eisa" # depends on broken package Category-2.35.1 "ELMER" # depends on broken package Rsamtools-1.21.8 "EMA" # depends on broken package nlopt-2.4.2 + "embryogrowth" # broken build + "emg" # broken build + "empiricalFDR_DESeq2" # broken build "ENmix" # depends on broken package affyio-1.37.0 "EnQuireR" # depends on broken package nlopt-2.4.2 + "EnrichedHeatmap" # broken build "EnrichmentBrowser" # depends on broken package r-EDASeq-2.3.2 "ensembldb" # depends on broken package interactiveDisplayBase-1.7.0 "ensemblVEP" # depends on broken package Rsamtools-1.21.8 "epigenomix" # depends on broken package Rsamtools-1.21.8 "episplineDensity" # depends on broken package nlopt-2.4.2 "epivizr" # depends on broken package Rsamtools-1.21.8 + "epoc" # broken build "epr" # depends on broken package nlopt-2.4.2 + "erccdashboard" # broken build "erer" # depends on broken package nlopt-2.4.2 "erma" # depends on broken GenomicFiles-1.5.4 "erpR" # depends on broken package rpanel-1.1-3 + "ESKNN" # depends on broken package r-caret-6.0-52 + "eulerian" # broken build + "evobiR" # broken build + "evolqg" # broken build "ExiMiR" # depends on broken package affyio-1.37.0 "exomeCopy" # depends on broken package Rsamtools-1.21.8 "ExomeDepth" # depends on broken package Rsamtools-1.21.8 @@ -909,68 +1081,138 @@ let "ExpressionView" # depends on broken package Category-2.35.1 "extRemes" # depends on broken package nlopt-2.4.2 "ez" # depends on broken package nlopt-2.4.2 + "fabia" # broken build "facopy" # depends on broken package nlopt-2.4.2 + "factDesign" # broken build "FactoMineR" # depends on broken package nlopt-2.4.2 "Factoshiny" # depends on broken package nlopt-2.4.2 "faoutlier" # depends on broken package nlopt-2.4.2 "farms" # depends on broken package affyio-1.37.0 "fastLiquidAssociation" # depends on broken package LiquidAssociation-1.23.0 "fastR" # depends on broken package nlopt-2.4.2 + "fastseg" # broken build + "fdrDiscreteNull" # broken build "FDRreg" # depends on broken package nlopt-2.4.2 + "FedData" # broken build "FEM" # build is broken "ffpe" # depends on broken package affyio-1.37.0 + "FIACH" # broken build + "FindMyFriends" # broken build + "FISHalyseR" # broken build "flagme" # depends on broken package mzR-2.3.1 + "flipflop" # broken build + "flowBeads" # broken build + "flowBin" # broken build + "flowcatchR" # broken build + "flowCHIC" # broken build + "flowCL" # broken build + "flowClean" # broken build + "flowClust" # broken build + "flowCore" # broken build "flowDensity" # depends on broken package nlopt-2.4.2 + "flowFit" # broken build + "flowFP" # broken build + "flowMatch" # broken build + "flowMeans" # broken build + "flowMerge" # broken build "flowPeaks" # build is broken + "flowQB" # broken build "flowQ" # build is broken "FlowSOM" # depends on broken package ConsensusClusterPlus-1.23.0 "flowStats" # depends on broken package ncdfFlow-2.15.2 + "flowTrans" # broken build + "flowType" # broken build + "flowUtils" # broken build + "flowViz" # broken build "flowVS" # depends on broken package ncdfFlow-2.15.2 "flowWorkspace" # depends on broken package ncdfFlow-2.15.2 "fmcsR" # depends on broken package ChemmineR-2.21.7 + "focalCall" # broken build "FourCSeq" # depends on broken package Rsamtools-1.21.8 "fPortfolio" # depends on broken package Rsymphony-0.1-20 + "fracprolif" # broken build + "FreeSortR" # broken build "freqweights" # depends on broken package nlopt-2.4.2 "frma" # depends on broken package affyio-1.37.0 "frmaTools" # depends on broken package affyio-1.37.0 + "frmqa" # broken build "fscaret" # depends on broken package nlopt-2.4.2 + "fulltext" # broken build "FunciSNP" # depends on broken package snpStats-1.19.0 "FunctionalNetworks" # Build Is Broken "fxregime" # depends on broken package nlopt-2.4.2 + "gaga" # broken build + "gage" # broken build + "gaggle" # broken build "gamclass" # depends on broken package nlopt-2.4.2 "gamlss_demo" # depends on broken package rpanel-1.1-3 "gamm4" # depends on broken package nlopt-2.4.2 + "gaucho" # broken build + "gaussquad" # broken build "gCMAP" # depends on broken package Category-2.35.1 "gCMAPWeb" # depends on broken package Category-2.35.1 "gcmr" # depends on broken package nlopt-2.4.2 "gcrma" # depends on broken package affyio-1.37.0 "GDAtools" # depends on broken package nlopt-2.4.2 + "GeneAnswers" # broken build "GENE_E" # depends on broken package rhdf5-2.13.1 "GeneExpressionSignature" # depends on broken package annaffy-1.41.1 + "genefilter" # broken build + "genefu" # broken build + "GeneMeta" # broken build + "GeneNetworkBuilder" # broken build + "geneplotter" # broken build + "geneRecommender" # broken build + "GeneRegionScan" # broken build + "geneRxCluster" # broken build + "GeneSelectMMD" # broken build + "GeneSelector" # broken build + "GENESIS" # broken build + "geNetClassifier" # broken build "GeneticTools" # depends on broken package snpStats-1.19.0 "genomation" # depends on broken package Rsamtools-1.21.8 + "GenomeGraphs" # broken build + "GenomeInfoDb" # broken build + "genomeIntervals" # broken build + "genomes" # broken build "GenomicAlignments" # depends on broken package Rsamtools-1.21.8 "GenomicFeatures" # depends on broken package Rsamtools-1.21.8 "GenomicFiles" # depends on broken package Rsamtools-1.21.8 "GenomicInteractions" # depends on broken package Rsamtools-1.21.8 + "GenomicRanges" # broken build + "GenomicTuples" # broken build + "Genominator" # broken build + "genoset" # broken build "genotypeeval" # depends on broken package r-rtracklayer-1.29.12 "GenoView" # depends on broken package Rsamtools-1.21.8 "genridge" # depends on broken package nlopt-2.4.2 "geojsonio" # depends on broken package V8-0.6 + "GEOmetadb" # broken build + "geomorph" # broken build + "GEOquery" # broken build + "GEOsearch" # broken build "GEOsubmission" # depends on broken package affyio-1.37.0 "gespeR" # depends on broken package Category-2.35.1 "GEWIST" # depends on broken package nlopt-2.4.2 + "GExMap" # broken build + "gfcanalysis" # broken build "GGBase" # depends on broken package snpStats-1.19.0 "ggbio" # depends on broken package Rsamtools-1.21.8 "GGtools" # depends on broken package snpStats-1.19.0 + "ggtree" # broken build "gimme" # depends on broken package nlopt-2.4.2 "girafe" # depends on broken package Rsamtools-1.21.8 + "gitter" # broken build + "GlobalAncova" # broken build + "globaltest" # broken build "gmapR" # depends on broken package Rsamtools-1.21.8 "gmatrix" # depends on broken package cudatoolkit-5.5.22 "gMCP" # build is broken + "GOexpress" # broken build "GOFunction" # build is broken "GOGANPA" # depends on broken package WGCNA-1.47 "GoogleGenomics" # depends on broken package Rsamtools-1.21.8 + "googlesheets" # broken build "goProfiles" # build is broken "GOSemSim" # Build Is Broken "goseq" # build is broken @@ -978,78 +1220,153 @@ let "GOstats" # depends on broken package AnnotationForge-1.11.3 "GOTHiC" # depends on broken package Rsamtools-1.21.8 "goTools" # build is broken + "GPC" # broken build "gplm" # depends on broken package nlopt-2.4.2 "gputools" # depends on broken package cudatoolkit-5.5.22 + "gQTLBase" # depends on broken package r-GenomicFiles-1.5.8 "gQTLstats" # depends on broken package snpStats-1.19.0 + "gRain" # broken build "granova" # depends on broken package nlopt-2.4.2 + "GraphAT" # broken build + "graph" # broken build + "gRapHD" # broken build "graphicalVAR" # depends on broken package nlopt-2.4.2 + "graphite" # broken build + "GraphPAC" # broken build "GraphPCA" # depends on broken package nlopt-2.4.2 + "gRbase" # broken build + "gRc" # broken build "GreyListChIP" # depends on broken package Rsamtools-1.21.8 + "gridDebug" # broken build + "gridGraphviz" # broken build + "gRim" # broken build "groHMM" # depends on broken package Rsamtools-1.21.8 + "GSAgm" # broken build "GSCA" # depends on broken package rhdf5-2.13.1 + "GSEABase" # broken build + "GSEAlm" # broken build + "gsheet" # broken build + "GSRI" # broken build + "GSVA" # broken build "GUIDE" # depends on broken package rpanel-1.1-3 + "GUIProfiler" # broken build + "Guitar" # depends on broken package r-GenomicAlignments-1.5.18 "Gviz" # depends on broken package Rsamtools-1.21.8 "GWAF" # depends on broken package nlopt-2.4.2 "gwascat" # depends on broken package interactiveDisplayBase-1.7.0 + "GWASTools" # broken build "h2o" # build is broken "h5" # build is broken "h5vc" # depends on broken package rhdf5-2.13.1 + "hapFabia" # broken build "Harshlight" # depends on broken package affyio-1.37.0 + "hasseDiagram" # broken build "hbsae" # depends on broken package nlopt-2.4.2 + "HCsnip" # broken build + "hddplot" # broken build + "HELP" # broken build + "HEM" # broken build "heplots" # depends on broken package nlopt-2.4.2 "hiAnnotator" # depends on broken package Rsamtools-1.21.8 + "HiDimMaxStable" # broken build "hierGWAS" "HierO" # Build Is Broken "highriskzone" + "HilbertCurve" # broken build "HilbertVisGUI" # Build Is Broken "HiPLARM" # Build Is Broken "hiReadsProcessor" # depends on broken package Rsamtools-1.21.8 + "hisse" # broken build "HistDAWass" # depends on broken package nlopt-2.4.2 "HiTC" # depends on broken package Rsamtools-1.21.8 "HLMdiag" # depends on broken package nlopt-2.4.2 + "HMMcopy" # broken build + "hopach" # broken build + "hpcwld" # broken build + "hpoPlot" # broken build "HTqPCR" # depends on broken package affyio-1.37.0 "HTSanalyzeR" # depends on broken package Category-2.35.1 + "HTSCluster" # broken build "HTSeqGenie" # depends on broken package Rsamtools-1.21.8 "htSeqTools" # depends on broken package Rsamtools-1.21.8 + "HTSFilter" # broken build + "hwwntest" # broken build + "HybridMTest" # broken build + "HydeNet" # broken build + "hyperdraw" # broken build + "hypergraph" # broken build "hysteresis" # depends on broken package nlopt-2.4.2 "IATscores" # depends on broken package nlopt-2.4.2 "ibd" # depends on broken package nlopt-2.4.2 "ibh" # build is broken + "iBMQ" # broken build "iccbeta" # depends on broken package nlopt-2.4.2 "IdeoViz" # depends on broken package Rsamtools-1.21.8 + "idiogram" # broken build + "IdMappingAnalysis" # broken build + "IdMappingRetrieval" # broken build + "idm" # broken build "ifaTools" # depends on broken package r-OpenMx-2.2.6 "iFes" # depends on broken package cudatoolkit-5.5.22 "imageHTS" # depends on broken package Category-2.35.1 + "imager" # broken build + "immer" # depends on broken package r-sirt-1.8-9 "immunoClust" # build is broken + "imputeLCMD" # broken build "imputeR" # depends on broken package nlopt-2.4.2 "in2extRemes" # depends on broken package nlopt-2.4.2 "inferference" # depends on broken package nlopt-2.4.2 "influence_ME" # depends on broken package nlopt-2.4.2 "InPAS" # depends on broken package Rsamtools-1.21.8 + "inSilicoDb" # broken build "inSilicoMerging" # build is broken "INSPEcT" # depends on broken GenomicFeatures-1.21.13 "intansv" # depends on broken package Rsamtools-1.21.8 + "IntegratedJM" # broken build "interactiveDisplayBase" # build is broken "interactiveDisplay" # depends on broken package Category-2.35.1 "interplot" # depends on broken arm-1.8-5 + "ioncopy" # broken build + "ionflows" # broken build "IONiseR" # depends on broken rhdf5-2.13.4 + "iPAC" # broken build "iptools" + "IRanges" # broken build + "iRefR" # broken build "IsingFit" # depends on broken package nlopt-2.4.2 + "isobar" # broken build "IsoGene" # depends on broken package affyio-1.37.0 "IsoGeneGUI" # depends on broken package affyio-1.37.0 "ITALICS" # depends on broken package oligo-1.33.0 + "iteRates" # broken build + "iterativeBMA" # broken build + "iterpc" # broken build "IVAS" # depends on broken package nlopt-2.4.2 "ivpack" # depends on broken package nlopt-2.4.2 "JAGUAR" # depends on broken package nlopt-2.4.2 "jetset" + "jmosaics" # broken build "joda" # depends on broken package nlopt-2.4.2 "jomo" # build is broken "js" # depends on broken package V8-0.6 "KANT" # depends on broken package affyio-1.37.0 + "KCsmart" # broken build + "kebabs" # broken build + "KEGGgraph" # broken build "keggorthology" # build is broken "KEGGprofile" # Build Is Broken + "KEGGREST" # broken build + "KoNLP" # broken build + "ktspair" # broken build + "kza" # broken build + "kzft" # broken build + "lapmix" # broken build "lawn" # depends on broken package V8-0.6 + "ldamatch" # broken build + "ldblock" # depends on broken package r-snpStats-1.19.3 + "leapp" # broken build "learnstats" # depends on broken package nlopt-2.4.2 + "LedPred" # broken build "lefse" # build is broken "lessR" # depends on broken package nlopt-2.4.2 "lfe" # build is broken @@ -1065,19 +1382,34 @@ let "lmSupport" # depends on broken package nlopt-2.4.2 "LogisticDx" # depends on broken package nlopt-2.4.2 "logitT" # depends on broken package affyio-1.37.0 + "LOLA" # broken build "longpower" # depends on broken package nlopt-2.4.2 + "LOST" # broken build "LowMACA" # depends on broken package Rsamtools-1.21.8 + "lpNet" # broken build + "LPTime" # broken build "lumi" # depends on broken package affyio-1.37.0 "LVSmiRNA" # depends on broken package affyio-1.37.0 "M3D" # depends on broken package Rsamtools-1.21.8 + "maanova" # broken build + "macat" # broken build + "maigesPack" # broken build "MAIT" # depends on broken package nlopt-2.4.2 "makecdfenv" # depends on broken package affyio-1.37.0 + "MAMA" # broken build + "manta" # broken build "mAPKL" # build is broken "maPredictDSC" # depends on broken package nlopt-2.4.2 + "mar1s" # broken build "marked" # depends on broken package nlopt-2.4.2 + "maSigPro" # broken build "maskBAD" # depends on broken package affyio-1.37.0 + "massiR" # broken build + "matchingMarkets" # broken build "MatrixRider" # depends on broken package DirichletMultinomial-1.11.1 "MaxPro" # depends on broken package nlopt-2.4.2 + "MazamaSpatialUtils" # broken build + "MBASED" # broken build "mbest" # depends on broken package nlopt-2.4.2 "MBmca" # depends on broken nloptr-1.0.4 "mBPCR" # depends on broken package affyio-1.37.0 @@ -1085,112 +1417,207 @@ let "MCRestimate" # build is broken "mdgsa" # build is broken "meboot" # depends on broken package nlopt-2.4.2 + "medflex" # depends on broken package r-car-2.1-0 "mediation" # depends on broken package r-lme4-1.1-8 "MEDIPS" # depends on broken package Rsamtools-1.21.8 "MEDME" # depends on broken package nlopt-2.4.2 + "MEET" # broken build + "MEIGOR" # broken build "MEMSS" # depends on broken package nlopt-2.4.2 + "MergeMaid" # broken build + "merTools" # depends on broken package r-arm-1.8-6 + "MeSHDbi" # broken build "meshr" # depends on broken package Category-2.35.1 + "meta4diag" # broken build + "metaArray" # broken build "Metab" # depends on broken package mzR-2.3.1 + "metabolomics" # broken build + "metabomxtr" # broken build + "metacom" # broken build + "MetaDE" # broken build "metagear" # build is broken "metagene" # depends on broken package Rsamtools-1.21.8 + "metagenomeSeq" # broken build + "MetaLandSim" # broken build "metaMix" # build is broken "metaMS" # depends on broken package mzR-2.3.1 "metaplus" # depends on broken package nlopt-2.4.2 "metaSEM" # depends on broken package OpenMx-2.2.4 + "metaSeq" # broken build "metaseqR" # depends on broken package affyio-1.37.0 "Metatron" # depends on broken package nlopt-2.4.2 + "metaX" # depends on broken package r-CAMERA-1.25.2 + "MethTargetedNGS" # broken build + "methVisual" # broken build "methyAnalysis" # depends on broken package affyio-1.37.0 "MethylAid" # depends on broken package Rsamtools-1.21.8 + "methylMnM" # broken build "methylPipe" # depends on broken package Rsamtools-1.21.8 "MethylSeekR" # depends on broken package Rsamtools-1.21.8 "methylumi" # depends on broken package Rsamtools-1.21.8 + "Mfuzz" # broken build + "MGFM" # broken build + "mGSZ" # broken build "miceadds" # depends on broken package nlopt-2.4.2 "micEconAids" # depends on broken package nlopt-2.4.2 "micEconCES" # depends on broken package nlopt-2.4.2 "micEconSNQP" # depends on broken package nlopt-2.4.2 + "MiChip" # broken build + "microRNA" # broken build "mi" # depends on broken package nlopt-2.4.2 "MigClim" # Build Is Broken "migui" # depends on broken package nlopt-2.4.2 + "MIMOSA" # broken build "MineICA" # depends on broken package AnnotationForge-1.11.3 "minfi" # depends on broken package Rsamtools-1.21.8 "minimist" # depends on broken package V8-0.6 "MinimumDistance" # depends on broken package affyio-1.37.0 + "MiPP" # broken build + "MiRaGE" # broken build "mirIntegrator" # build is broken + "miRLAB" # broken build + "miRNAtap" # broken build + "miRtest" # broken build "missDeaths" "missMDA" # depends on broken package nlopt-2.4.2 "missMethyl" # depends on broken package Rsamtools-1.21.8 "mitoODE" # build is broken "mixAK" # depends on broken package nlopt-2.4.2 + "MixedPoisson" # broken build "mixlm" # depends on broken package nlopt-2.4.2 "MixMAP" # depends on broken package nlopt-2.4.2 + "MLInterfaces" # broken build "mlmRev" # depends on broken package nlopt-2.4.2 "MLP" # depends on broken package affyio-1.37.0 "MLSeq" # depends on broken package nlopt-2.4.2 "mlVAR" # depends on broken package nlopt-2.4.2 + "MM2S" # broken build + "MM2Sdata" # broken build + "MM" # broken build "MMDiff" # depends on broken package AnnotationForge-1.11.3 + "mmnet" # broken build "MmPalateMiRNA" # depends on broken package affyio-1.37.0 + "mogsa" # broken build "mongolite" # build is broken "monocle" # build is broken + "monogeneaGM" # broken build + "MoPS" # broken build "mosaic" # depends on broken package nlopt-2.4.2 + "mosaics" # broken build + "motifbreakR" # depends on broken package r-BSgenome-1.37.5 "MotifDb" # depends on broken package Rsamtools-1.21.8 "motifRG" # depends on broken package Rsamtools-1.21.8 "motifStack" # depends on broken package Rsamtools-1.21.8 "MotIV" # depends on broken package Rsamtools-1.21.8 + "mpoly" # broken build + "mRMRe" # broken build + "msa" # broken build + "msarc" # broken build "MSeasy" # depends on broken package mzR-2.3.1 "MSeasyTkGUI" # depends on broken package mzR-2.3.1 "MSGFgui" # depends on broken package MSGFplus-1.3.0 "MSGFplus" # Build Is Broken + "MSIseq" # broken build "msmsEDA" # depends on broken package affyio-1.37.0 "msmsTests" # depends on broken package affyio-1.37.0 "MSnbase" # depends on broken package affyio-1.37.0 "MSnID" # depends on broken package affyio-1.37.0 "MSstats" # depends on broken package nlopt-2.4.2 + "msSurv" # broken build + "Mulcom" # broken build "multiDimBio" # depends on broken package nlopt-2.4.2 "MultiRR" # depends on broken package nlopt-2.4.2 + "multiscan" # broken build + "multtest" # broken build "muma" # depends on broken package nlopt-2.4.2 "munsellinterpol" + "muscle" # broken build + "mutoss" # broken build "mutossGUI" # build is broken "mvGST" # depends on broken package AnnotationForge-1.11.3 "mvinfluence" # depends on broken package nlopt-2.4.2 + "mvMORPH" # broken build + "MXM" # broken build "mygene" # depends on broken package Rsamtools-1.21.8 + "myTAI" # broken build + "myvariant" # depends on broken package r-VariantAnnotation-1.15.31 + "mzID" # broken build "mzR" # build is broken + "NanoStringDiff" # broken build "NanoStringQCPro" # build is broken + "NarrowPeaks" # broken build "nCal" # depends on broken package nlopt-2.4.2 "ncdfFlow" # build is broken "NCIgraph" # depends on broken package RCytoscape-1.19.0 + "ndtv" # broken build + "nem" # broken build "netbenchmark" # build is broken + "netClass" # broken build + "nethet" # broken build + "netresponse" # broken build + "NetSAM" # broken build "nettools" # depends on broken package WGCNA-1.47 + "netweavers" # broken build "NGScopy" + "nhanesA" # broken build "NHPoisson" # depends on broken package nlopt-2.4.2 "nloptr" # depends on broken package nlopt-2.4.2 + "nlsem" # broken build + "nlts" # broken build + "NOISeq" # broken build "nondetects" # depends on broken package affyio-1.37.0 "nonrandom" # depends on broken package nlopt-2.4.2 "NormqPCR" # depends on broken package affyio-1.37.0 "NORRRM" # build is broken + "npGSEA" # broken build "npIntFactRep" # depends on broken package nlopt-2.4.2 + "NSM3" # broken build "nucleR" # depends on broken package Rsamtools-1.21.8 + "oai" # depends on broken package r-xml2-0.1.2 + "OCplus" # broken build + "OGSA" # broken build "oligoClasses" # depends on broken package affyio-1.37.0 "oligo" # depends on broken package affyio-1.37.0 + "OmicCircos" # broken build "OmicsMarkeR" # depends on broken package nlopt-2.4.2 + "OncoSimulR" # broken build "oneChannelGUI" # depends on broken package affyio-1.37.0 + "OPDOE" # broken build "OpenCL" # build is broken + "opencpu" # broken build "openCyto" # depends on broken package ncdfFlow-2.15.2 "OpenMx" # build is broken "OperaMate" # depends on broken package Category-2.35.1 + "oposSOM" # broken build "optBiomarker" # depends on broken package rpanel-1.1-3 "ora" # depends on broken package ROracle-1.1-12 "ordBTL" # depends on broken package nlopt-2.4.2 + "OrderedList" # broken build + "ordPens" # depends on broken package r-lme4-1.1-9 "OrganismDbi" # depends on broken package Rsamtools-1.21.8 + "orQA" # broken build + "orthopolynom" # broken build "OTUbase" # depends on broken package Rsamtools-1.21.8 + "OutlierD" # broken build "OUwie" # depends on broken package nlopt-2.4.2 + "oz" # broken build + "PAA" # broken build + "pacman" # broken build "PADOG" # build is broken + "paircompviz" # broken build + "PairViz" # broken build + "paleotree" # broken build "pamm" # depends on broken package nlopt-2.4.2 "PANDA" # build is broken "panelAR" # depends on broken package nlopt-2.4.2 + "PAnnBuilder" # broken build "panp" # depends on broken package affyio-1.37.0 "papeR" # depends on broken package nlopt-2.4.2 + "PAPi" # broken build "parboost" # depends on broken package nlopt-2.4.2 + "parglms" # broken build "parma" # depends on broken package nlopt-2.4.2 + "partitions" # broken build "Pasha" # depends on broken package GenomicAlignments-1.5.12 "pathClass" # depends on broken package affyio-1.37.0 "pathRender" # build is broken @@ -1198,6 +1625,7 @@ let "PatternClass" # build is broken "Pbase" # depends on broken package affyio-1.37.0 "pbdBASE" # depends on broken package pbdSLAP-0.2-0 + "PBD" # broken build "pbdDEMO" # depends on broken package pbdSLAP-0.2-0 "pbdDMAT" # depends on broken package pbdSLAP-0.2-0 "pbdSLAP" # build is broken @@ -1206,14 +1634,24 @@ let "PBSddesolve" # build is broken "PBSmapping" # build is broken "pcaBootPlot" # depends on broken FactoMineR-1.31.3 + "pcaGoPromoter" # broken build "pcaL1" # build is broken + "pcalg" # broken build + "pcaMethods" # broken build + "PCGSE" # broken build + "pcot2" # broken build "PCpheno" # depends on broken package Category-2.35.1 + "PCS" # broken build "pdInfoBuilder" # depends on broken package affyio-1.37.0 "pdmclass" # build is broken + "PDQutils" # broken build "PECA" # depends on broken package affyio-1.37.0 "pedigreemm" # depends on broken package nlopt-2.4.2 "pedometrics" # depends on broken package nlopt-2.4.2 + "PepPrep" # broken build + "pepStat" # broken build "pequod" # depends on broken package nlopt-2.4.2 + "PerfMeas" # broken build "permGPU" # build is broken "PGA" # depends on broken package Rsamtools-1.21.8 "PGSEA" # depends on broken package annaffy-1.41.1 @@ -1222,12 +1660,22 @@ let "phenoTest" # depends on broken package Category-2.35.1 "PhenStat" # depends on broken package nlopt-2.4.2 "phia" # depends on broken package nlopt-2.4.2 + "phreeqc" # broken build "phylocurve" # depends on broken package nlopt-2.4.2 + "phyloseq" # broken build "phyloTop" # depends on broken package nlopt-2.4.2 + "phytools" # broken build + "piano" # broken build "PICS" # depends on broken package Rsamtools-1.21.8 "PING" # depends on broken package Rsamtools-1.21.8 + "pkgDepTools" # broken build "plateCore" # depends on broken package ncdfFlow-2.15.2 + "plethy" # broken build + "plfMA" # broken build + "plgem" # broken build "plier" # depends on broken package affyio-1.37.0 + "PLPE" # broken build + "plrs" # broken build "plsRbeta" # depends on broken package nlopt-2.4.2 "plsRcox" # depends on broken package nlopt-2.4.2 "plsRglm" # depends on broken package nlopt-2.4.2 @@ -1235,24 +1683,43 @@ let "pmclust" # build is broken "pmm" # depends on broken package nlopt-2.4.2 "podkat" # depends on broken package Rsamtools-1.21.8 + "polyester" # broken build + "Polyfit" # broken build + "polynom" # broken build "polytomous" # depends on broken package nlopt-2.4.2 "pomp" # depends on broken package nlopt-2.4.2 "ppiPre" # depends on broken package GOSemSim-1.27.3 "ppiStats" # depends on broken package Category-2.35.1 + "prada" # broken build "prebs" # depends on broken package affyio-1.37.0 + "PREDA" # broken build + "predictionet" # broken build "predictmeans" # depends on broken package nlopt-2.4.2 + "pRF" # broken build "prLogistic" # depends on broken package nlopt-2.4.2 "proBAMr" # depends on broken package Rsamtools-1.21.8 "ProCoNA" # depends on broken package AnnotationForge-1.11.3 "pRoloc" # depends on broken package nlopt-2.4.2 "pRolocGUI" # depends on broken package nlopt-2.4.2 + "PROMISE" # broken build + "PROPER" # broken build + "propOverlap" # broken build + "prot2D" # broken build + "ProteomicsAnnotationHubData" # depends on broken package r-AnnotationHub-2.1.40 "proteoQC" # depends on broken package affyio-1.37.0 + "ProtGenerics" # broken build + "protiq" # broken build + "provenance" # broken build "PSAboot" # depends on broken package nlopt-2.4.2 + "PSEA" # broken build + "PSICQUIC" # broken build "ptw" # depends on broken nloptr-1.0.4 "puma" # depends on broken package affyio-1.37.0 + "purge" # depends on broken package r-lme4-1.1-9 "pvac" # depends on broken package affyio-1.37.0 "pvca" # depends on broken package nlopt-2.4.2 "Pviz" # depends on broken package Rsamtools-1.21.8 + "PWMEnrich" # broken build "pwOmics" # depends on broken package interactiveDisplayBase-1.7.0 "PythonInR" "qcmetrics" # build is broken @@ -1266,28 +1733,46 @@ let "qtlnet" # depends on broken package nlopt-2.4.2 "qtpaint" # depends on broken package qtbase-1.0.9 "qtutils" # depends on broken package qtbase-1.0.9 + "QuACN" # broken build "QUALIFIER" # depends on broken package ncdfFlow-2.15.2 "quantification" # depends on broken package nlopt-2.4.2 "quantro" # depends on broken package Rsamtools-1.21.8 + "QuartPAC" # broken build + "QuasiSeq" # broken build "QuasR" # depends on broken package Rsamtools-1.21.8 + "qusage" # broken build "R2STATS" # depends on broken package nlopt-2.4.2 "R3CPET" # depends on broken package Rsamtools-1.21.8 "r3Cseq" # depends on broken package Rsamtools-1.21.8 "R453Plus1Toolbox" # depends on broken package Rsamtools-1.21.8 + "RADami" # broken build "radiant" # depends on broken package nlopt-2.4.2 + "rain" # broken build "raincpc" # build is broken "rainfreq" # build is broken + "RAM" # broken build "RamiGO" # depends on broken package RCytoscape-1.19.0 + "randPack" # broken build "RapidPolygonLookup" # depends on broken package PBSmapping-2.69.76 "RAPIDR" # depends on broken package Rsamtools-1.21.8 "RareVariantVis" # depends on broken VariantAnnotation-1.15.19 "Rariant" # depends on broken package Rsamtools-1.21.8 "rasclass" # depends on broken package nlopt-2.4.2 + "rase" # broken build + "rationalfun" # broken build + "RbcBook1" # broken build "RBerkeley" + "RBGL" # broken build + "RBioinf" # broken build "RbioRXN" # depends on broken package ChemmineR-2.21.7 + "Rblpapi" # broken build + "rbsurv" # broken build + "rbundler" # broken build "Rcade" # depends on broken package Rsamtools-1.21.8 + "rcellminer" # broken build "rCGH" # depends on broken package r-affy-1.47.1 "Rchemcpp" # depends on broken package ChemmineR-2.21.7 + "RchyOptimyx" # broken build "Rcmdr" # depends on broken package nlopt-2.4.2 "RcmdrMisc" # depends on broken package nlopt-2.4.2 "RcmdrPlugin_BCA" # depends on broken package nlopt-2.4.2 @@ -1331,6 +1816,8 @@ let "RcppAPT" # Build Is Broken "RcppOctave" # build is broken "RcppRedis" # build is broken + "rcrypt" # broken build + "RCyjs" # broken build "RCytoscape" # Build Is Broken "RDAVIDWebService" # depends on broken package Category-2.35.1 "rdd" # depends on broken package nlopt-2.4.2 @@ -1340,39 +1827,53 @@ let "ReactomePA" # depends on broken package GOSemSim-1.27.3 "ReadqPCR" # depends on broken package affyio-1.37.0 "REBayes" # depends on broken package Rmosek-1.2.5.1 + "reb" # broken build + "recluster" # broken build "REDseq" # depends on broken package Rsamtools-1.21.8 "referenceIntervals" # depends on broken package nlopt-2.4.2 "RefNet" # depends on broken package interactiveDisplayBase-1.7.0 "RefPlus" # depends on broken package affyio-1.37.0 "refund" # depends on broken package nlopt-2.4.2 + "refund_shiny" # depends on broken package r-refund-0.1-13 "regioneR" # depends on broken package Rsamtools-1.21.8 "regionReport" # depends on broken package Rsamtools-1.21.8 + "regRSM" # broken build "repijson" # depends on broken package V8-0.6 "Repitools" # depends on broken package affyio-1.37.0 "ReportingTools" # depends on broken package Category-2.35.1 "ReQON" # depends on broken package Rsamtools-1.21.8 + "rerddap" # broken build "REST" # depends on broken package nlopt-2.4.2 "rfPred" # depends on broken package Rsamtools-1.21.8 "rGADEM" # depends on broken package Rsamtools-1.21.8 + "RGalaxy" # broken build "rgbif" # depends on broken package V8-0.6 "Rgnuplot" "rgp" # build is broken "rgpui" # depends on broken package rgp-0.4-1 + "Rgraphviz" # broken build + "rGREAT" # broken build + "RGSEA" # broken build "rgsepd" # depends on broken package goseq-1.21.1 "rhdf5" # build is broken "rHVDM" # depends on broken package affyio-1.37.0 + "riboSeqR" # broken build "Ringo" # depends on broken package affyio-1.37.0 "RIPSeeker" # depends on broken package Rsamtools-1.21.8 "Risa" # depends on broken package affyio-1.37.0 "rjade" # depends on broken package V8-0.6 "rJPSGCS" # build is broken "rLindo" # build is broken + "RLRsim" # depends on broken package r-lme4-1.1-9 + "Rmagpie" # broken build + "RMallow" # broken build "RMassBank" # depends on broken package mzR-2.3.1 "rMAT" # build is broken "rmgarch" # depends on broken package nlopt-2.4.2 "rminer" # depends on broken package nlopt-2.4.2 "RmiR" # Build Is Broken "Rmosek" # build is broken + "RMySQL" # broken build "RNAinteract" # depends on broken package Category-2.35.1 "RNAither" # depends on broken package nlopt-2.4.2 "RNAprobR" # depends on broken package Rsamtools-1.21.8 @@ -1381,145 +1882,259 @@ let "RnavGraph" # build is broken "RnBeads" # depends on broken package Rsamtools-1.21.8 "Rnits" # depends on broken package affyio-1.37.0 + "rNOMADS" # broken build "roar" # depends on broken package Rsamtools-1.21.8 "RobLoxBioC" # depends on broken package affyio-1.37.0 + "RobLox" # broken build "robustlmm" # depends on broken package nlopt-2.4.2 "rockchalk" # depends on broken package nlopt-2.4.2 + "RockFab" # broken build "ROI_plugin_symphony" # depends on broken package Rsymphony-0.1-20 + "Roleswitch" # broken build "Rolexa" # depends on broken package Rsamtools-1.21.8 "rols" # build is broken + "ROntoTools" # broken build "ROracle" # Build Is Broken "RPA" # depends on broken package affyio-1.37.0 "rpanel" # build is broken + "Rphylopars" # broken build + "Rpoppler" # broken build + "RPPanalyzer" # broken build + "RpsiXML" # broken build "rpubchem" # depends on broken package nlopt-2.4.2 "Rqc" # depends on broken package Rsamtools-1.21.8 "RQuantLib" # build is broken + "rqubic" # broken build "rr" # depends on broken package nlopt-2.4.2 + "rRDP" # broken build "Rsamtools" # Build Is Broken "RSAP" # build is broken "rsbml" # build is broken "rscala" # build is broken "RSDA" # depends on broken package nlopt-2.4.2 + "RSeed" # broken build "rSFFreader" # depends on broken package Rsamtools-1.21.8 + "RStoolbox" # depends on broken package r-caret-6.0-52 "Rsubread" # Build Is Broken "RSVSim" # depends on broken package Rsamtools-1.21.8 "Rsymphony" # build is broken + "rTableICC" # broken build "rTANDEM" # build is broken + "RTCA" # broken build + "RTCGA" # depends on broken package r-rvest-0.3.0 "RTN" # depends on broken package nlopt-2.4.2 + "RTopper" # broken build "rtracklayer" # depends on broken package Rsamtools-1.21.8 + "Rtreemix" # broken build + "rTRM" # broken build "rTRMui" # depends on broken package Rsamtools-1.21.8 "rugarch" # depends on broken package nlopt-2.4.2 + "rUnemploymentData" # broken build "RUVcorr" # build is broken "RUVnormalize" # Build Is Broken "RUVSeq" # depends on broken package Rsamtools-1.21.8 "RVAideMemoire" # depends on broken package nlopt-2.4.2 + "rversions" # broken build + "rvest" # broken build "RVFam" # depends on broken package nlopt-2.4.2 "RVideoPoker" # depends on broken package rpanel-1.1-3 + "RWebServices" # broken build "ryouready" # depends on broken package nlopt-2.4.2 + "S4Vectors" # broken build + "sadists" # broken build + "safe" # broken build + "SAGx" # broken build "sampleSelection" # depends on broken package nlopt-2.4.2 + "sangerseqR" # broken build "sapFinder" # depends on broken package rTANDEM-1.9.0 + "saps" # broken build "SCAN_UPC" # depends on broken package affyio-1.37.0 "ScISI" # depends on broken package apComplex-2.35.0 + "scmamp" # broken build + "scsR" # broken build "sdcMicro" # depends on broken package nlopt-2.4.2 "sdcMicroGUI" # depends on broken package nlopt-2.4.2 "SDD" # depends on broken package rpanel-1.1-3 "seeg" # depends on broken package nlopt-2.4.2 "segmentSeq" # depends on broken package Rsamtools-1.21.8 + "sejmRP" # depends on broken package r-rvest-0.3.0 + "Sejong" # broken build + "SELEX" # broken build "sem" # depends on broken package nlopt-2.4.2 "semdiag" # depends on broken package nlopt-2.4.2 "SemDist" # Build Is Broken "semGOF" # depends on broken package nlopt-2.4.2 "semPlot" # depends on broken package nlopt-2.4.2 + "SensMixed" # depends on broken package r-lme4-1.1-9 "SensoMineR" # depends on broken package nlopt-2.4.2 "SEPA" # depends on broken package topGO-2.21.0 "seq2pathway" # depends on broken package WGCNA-1.47 "SeqArray" # depends on broken package Rsamtools-1.21.8 "seqbias" # depends on broken package Rsamtools-1.21.8 "seqCNA" # build is broken + "SeqFeatR" # broken build "SeqGrapheR" # Build Is Broken + "SeqGSEA" # broken build + "seqPattern" # broken build "seqplots" # depends on broken package Rsamtools-1.21.8 "seqTools" # build is broken + "sequenza" # broken build "SeqVarTools" # depends on broken package Rsamtools-1.21.8 "SGSeq" # depends on broken package Rsamtools-1.21.8 + "SharpeR" # broken build "shinyMethyl" # depends on broken package Rsamtools-1.21.8 "shinyTANDEM" # depends on broken package rTANDEM-1.9.0 "ShortRead" # depends on broken package Rsamtools-1.21.8 + "SID" # broken build + "sigaR" # broken build + "SigCheck" # broken build + "SigFuge" # broken build + "siggenes" # broken build + "sigsquared" # broken build + "SigTree" # broken build "SIMAT" # depends on broken package mzR-2.3.1 "SimBindProfiles" # depends on broken package affyio-1.37.0 + "SIM" # broken build "similaRpeak" # depends on broken package Rsamtools-1.21.8 "simpleaffy" # depends on broken package affyio-1.37.0 + "simPop" # depends on broken package r-VIM-4.4.1 "SimRAD" # depends on broken package Rsamtools-1.21.8 + "SimReg" # broken build + "simulatorZ" # broken build "sirt" # depends on broken package nlopt-2.4.2 + "SJava" # broken build "sjPlot" # depends on broken package nlopt-2.4.2 "skewr" # depends on broken package affyio-1.37.0 "SLGI" # depends on broken package apComplex-2.35.0 + "smacof" # broken build "SNAGEE" # build is broken "snapCGH" # depends on broken package tilingArray-1.47.0 "snm" # depends on broken package nlopt-2.4.2 "SNPchip" # depends on broken package affyio-1.37.0 "snpEnrichment" # depends on broken package snpStats-1.19.0 + "snplist" # broken build "snpStats" # build is broken "snpStatsWriter" # depends on broken package snpStats-1.19.0 "SNPtools" # depends on broken package Rsamtools-1.21.8 "SOD" # depends on broken package cudatoolkit-5.5.22 "soGGi" # depends on broken package Rsamtools-1.21.8 "soilphysics" # depends on broken package rpanel-1.1-3 + "SomatiCA" # broken build "SomaticSignatures" # depends on broken package Rsamtools-1.21.8 + "sortinghat" # broken build "SoyNAM" # depends on broken package r-lme4-1.1-8 + "SpacePAC" # broken build "spacom" # depends on broken package nlopt-2.4.2 + "spade" # broken build + "spdynmod" # broken build "specificity" # depends on broken package nlopt-2.4.2 + "SpeCond" # broken build + "SPEM" # broken build + "SPIA" # broken build + "spkTools" # broken build + "splicegear" # broken build "spliceR" # depends on broken package Rsamtools-1.21.8 + "spliceSites" # broken build "SplicingGraphs" # depends on broken package Rsamtools-1.21.8 "spocc" # depends on broken package V8-0.6 "spoccutils" # depends on broken spocc-0.3.0 "spsann" # depends on broken package r-pedometrics-0.6-2 + "SRAdb" # broken build + "srd" # broken build "sscore" # depends on broken package affyio-1.37.0 + "ssizeRNA" # broken build "ssmrob" # depends on broken package nlopt-2.4.2 "ssviz" # depends on broken package Rsamtools-1.21.8 "stagePop" # depends on broken package PBSddesolve-1.11.29 "staRank" # depends on broken package Category-2.35.1 "Starr" # depends on broken package affyio-1.37.0 "STATegRa" # depends on broken package affyio-1.37.0 + "Statomica" # broken build "stcm" # depends on broken package nlopt-2.4.2 "stepp" # depends on broken package nlopt-2.4.2 + "stepwiseCM" # broken build + "stream" # broken build + "Streamer" # broken build + "streamMOA" # broken build "stringgaussnet" # build is broken + "structSSI" # broken build + "strum" # broken build + "SummarizedExperiment" # broken build + "superbiclust" # broken build "Surrogate" # depends on broken package nlopt-2.4.2 + "Sushi" # broken build + "sva" # broken build "SVM2CRM" # depends on broken package Rsamtools-1.21.8 "sybilSBML" # build is broken "synapter" # depends on broken package affyio-1.37.0 "systemfit" # depends on broken package nlopt-2.4.2 + "systemPipeRdata" # broken build "systemPipeR" # depends on broken package AnnotationForge-1.11.3 "TargetSearch" # depends on broken package mzR-2.3.1 + "TCC" # broken build + "TCGA2STAT" # broken build + "TCGAbiolinks" # depends on broken package r-affy-1.47.1 "TcGSA" # depends on broken package nlopt-2.4.2 + "TDARACNE" # broken build "TDMR" # depends on broken package nlopt-2.4.2 + "TED" # broken build "TEQC" # depends on broken package Rsamtools-1.21.8 "TFBSTools" # depends on broken package DirichletMultinomial-1.11.1 "tigerstats" # depends on broken package nlopt-2.4.2 + "tigre" # broken build "tilingArray" # depends on broken package affyio-1.37.0 + "timecourse" # broken build + "timeSeq" # broken build "TIN" # depends on broken package WGCNA-1.47 "TitanCNA" # depends on broken package Rsamtools-1.21.8 + "TKF" # broken build + "tmle" # broken build + "tnam" # depends on broken package r-lme4-1.1-9 "ToPASeq" # depends on broken package Rsamtools-1.21.8 "topGO" # build is broken "topologyGSA" # depends on broken package Rsamtools-1.21.8 + "TPP" # broken build "tracktables" # depends on broken package Rsamtools-1.21.8 "trackViewer" # depends on broken package Rsamtools-1.21.8 "translateSPSS2R" # depends on broken car-2.0-25 "tRanslatome" # depends on broken package GOSemSim-1.27.3 "TransView" # depends on broken package Rsamtools-1.21.8 "traseR" + "triform" # broken build + "trigger" # broken build "TriMatch" # depends on broken package nlopt-2.4.2 + "triplex" # broken build "TROM" # depends on broken package topGO-2.21.0 + "TRONCO" # broken build + "TSdist" # broken build + "TSMySQL" # broken build + "tsoutliers" # broken build + "tspair" # broken build + "TSSi" # broken build + "ttScreening" # broken build "TurboNorm" # depends on broken package affyio-1.37.0 + "tweeDEseq" # broken build + "twilight" # broken build + "UBCRM" # broken build + "umx" # depends on broken package r-OpenMx-2.2.6 + "UNDO" # broken build "unifiedWMWqPCR" # depends on broken package affyio-1.37.0 + "uniftest" # broken build + "UniProt_ws" # broken build + "untb" # broken build "userfriendlyscience" # depends on broken package nlopt-2.4.2 "V8" # build is broken "VanillaICE" # depends on broken package affyio-1.37.0 + "varComp" # depends on broken package r-lme4-1.1-9 "variancePartition" # depends on broken package lme4-1.1-8 "VariantAnnotation" # depends on broken package Rsamtools-1.21.8 "VariantFiltering" # depends on broken package Rsamtools-1.21.8 "VariantTools" # depends on broken package Rsamtools-1.21.8 + "VBmix" # broken build + "VegaMC" # broken build "VIM" # depends on broken package nlopt-2.4.2 "VIMGUI" # depends on broken package nlopt-2.4.2 + "viper" # broken build "vmsbase" # depends on broken package PBSmapping-2.69.76 "vows" # depends on broken package nlopt-2.4.2 "vsn" # depends on broken package affyio-1.37.0 @@ -1532,9 +2147,15 @@ let "WGCNA" # build is broken "wgsea" # depends on broken package snpStats-1.19.0 "WideLM" # depends on broken package cudatoolkit-5.5.22 + "wikipediatrend" # broken build + "XBSeq" # broken build "xcms" # depends on broken package mzR-2.3.1 + "XDE" # broken build + "x_ent" # broken build "xergm" # depends on broken package nlopt-2.4.2 + "xml2" # broken build "xps" # build is broken + "XVector" # broken build "yaqcaffy" # depends on broken package affyio-1.37.0 "ZeligMultilevel" # depends on broken package nlopt-2.4.2 "zetadiv" # depends on broken package nlopt-2.4.2