diff options
Diffstat (limited to 'pkgs/development/r-modules/default.nix')
| -rw-r--r-- | pkgs/development/r-modules/default.nix | 2420 |
1 files changed, 959 insertions, 1461 deletions
diff --git a/pkgs/development/r-modules/default.nix b/pkgs/development/r-modules/default.nix index 7a7b603b449b..955dd9ed667d 100644 --- a/pkgs/development/r-modules/default.nix +++ b/pkgs/development/r-modules/default.nix @@ -46,6 +46,14 @@ let mkHomepage = {name, rVersion}: "https://bioconductor.org/packages/${rVersion}/bioc/html/${name}.html"; mkUrls = {name, version, rVersion}: [ "mirror://bioc/${rVersion}/bioc/src/contrib/${name}_${version}.tar.gz" ]; }; + deriveBiocAnn = mkDerive { + mkHomepage = {name, rVersion}: "http://www.bioconductor.org/packages/${name}.html"; + mkUrls = {name, version, rVersion}: [ "mirror://bioc/${rVersion}/data/annotation/src/contrib/${name}_${version}.tar.gz" ]; + }; + deriveBiocExp = mkDerive { + mkHomepage = {name, rVersion}: "http://www.bioconductor.org/packages/${name}.html"; + mkUrls = {name, version, rVersion}: [ "mirror://bioc/${rVersion}/data/experiment/src/contrib/${name}_${version}.tar.gz" ]; + }; deriveCran = mkDerive { mkHomepage = {name, snapshot}: "http://mran.revolutionanalytics.com/snapshot/${snapshot}/web/packages/${name}/"; mkUrls = {name, version, snapshot}: [ "http://mran.revolutionanalytics.com/snapshot/${snapshot}/src/contrib/${name}_${version}.tar.gz" ]; @@ -213,6 +221,8 @@ let # packages in `_self` may depends on overridden packages. self = (defaultOverrides _self self) // overrides; _self = import ./bioc-packages.nix { inherit self; derive = deriveBioc; } // + import ./bioc-annotation-packages.nix { inherit self; derive = deriveBiocAnn; } // + import ./bioc-experiment-packages.nix { inherit self; derive = deriveBiocExp; } // import ./cran-packages.nix { inherit self; derive = deriveCran; } // import ./irkernel-packages.nix { inherit self; derive = deriveIRkernel; }; @@ -267,7 +277,6 @@ let mvabund = [ pkgs.gsl_1 ]; mwaved = [ pkgs.fftw ]; ncdf4 = [ pkgs.netcdf ]; - ncdf = [ pkgs.netcdf ]; nloptr = [ pkgs.nlopt ]; openssl = [ pkgs.openssl ]; outbreaker = [ pkgs.gsl_1 ]; @@ -300,7 +309,6 @@ let RGtk2 = [ pkgs.gtk2 ]; Rhpc = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.openmpi pkgs.pcre ]; Rhtslib = [ pkgs.zlib ]; - ridge = [ pkgs.gsl_1 ]; RJaCGH = [ pkgs.zlib ]; rjags = [ pkgs.jags ]; rJava = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre pkgs.jdk pkgs.libzip ]; @@ -329,7 +337,6 @@ let SAVE = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre ]; sdcTable = [ pkgs.gmp pkgs.glpk ]; seewave = [ pkgs.fftw pkgs.libsndfile ]; - SemiCompRisks = [ pkgs.gsl_1 ]; seqinr = [ pkgs.zlib ]; seqminer = [ pkgs.zlib pkgs.bzip2 ]; showtext = [ pkgs.zlib pkgs.libpng pkgs.icu pkgs.freetype ]; @@ -355,6 +362,20 @@ let XBRL = [ pkgs.zlib pkgs.libxml2 ]; xml2 = [ pkgs.libxml2 ]; XML = [ pkgs.libtool pkgs.libxml2 pkgs.xmlsec pkgs.libxslt ]; + affyPLM = [ pkgs.zlib ]; + bamsignals = [ pkgs.zlib ]; + BitSeq = [ pkgs.zlib ]; + DiffBind = [ pkgs.zlib ]; + ShortRead = [ pkgs.zlib ]; + oligo = [ pkgs.zlib ]; + gmapR = [ pkgs.zlib ]; + Rsubread = [ pkgs.zlib ]; + XVector = [ pkgs.zlib ]; + Rsamtools = [ pkgs.zlib ]; + rtracklayer = [ pkgs.zlib ]; + affyio = [ pkgs.zlib ]; + VariantAnnotation = [ pkgs.zlib ]; + snpStats = [ pkgs.zlib ]; }; packagesWithBuildInputs = { @@ -398,6 +419,7 @@ let adimpro = [ pkgs.which pkgs.xorg.xdpyinfo ]; PET = [ pkgs.which pkgs.xorg.xdpyinfo pkgs.imagemagick ]; dti = [ pkgs.which pkgs.xorg.xdpyinfo pkgs.imagemagick ]; + mzR = [ pkgs.netcdf ]; }; packagesRequireingX = [ @@ -674,1624 +696,1100 @@ 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 - "AffyExpress" # depends on broken package affyio-1.37.0 - "affyILM" # depends on broken package affyio-1.37.0 - "affyio" # build is broken - "affylmGUI" # depends on broken package affyio-1.37.0 - "affyPara" # depends on broken package affyio-1.37.0 - "affypdnn" # depends on broken package affyio-1.37.0 - "affyPLM" # depends on broken package affyio-1.37.0 - "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 - "alsace" # depends on broken nloptr-1.0.4 - "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 + "TED" # depends on broken package animation + "streamMOA" # depends on broken package animation + "stream" # depends on broken package animation + "spdynmod" # depends on broken package animation + "treeplyr" # depends on broken package animation + "recluster" # depends on broken package animation + "geomorph" # depends on broken package animation + "phytools" # depends on broken package animation "animation" # broken build + "srd" # broken build + "paleotree" # broken build + "ndtv" # broken build + "mvMORPH" # broken build + "mptools" # broken build + "monogeneaGM" # broken build + "molaR" # broken build + "idm" # broken build + "hisse" # broken build + "gfcanalysis" # broken build + "evolqg" # broken build + "evobiR" # broken build + "convevol" # broken build + "bayou" # 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 - "apex" # depends on broken package Biostrings-2.38.2 - "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 - "arrayQualityMetrics" # depends on broken package affyio-1.37.0 - "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 + "TKF" # broken build + "Rphylopars" # broken build + "RAM" # broken build + "PhySortR" # broken build + "MonoPhy" # broken build + "Momocs" # broken build + "Evomorph" # broken build + "PBD" # depends on broken package DDD + "DDD" # broken build + "BMhyd" # broken build + "rscala" # broken build + "rgpui" # depends on broken package rgp + "rgp" # broken build + "qcmetrics" # broken build + "lfe" # broken build + "interactiveDisplay" # depends on broken package interactiveDisplayBase + "RefNet" # depends on broken package interactiveDisplayBase + "pwOmics" # depends on broken package interactiveDisplayBase + "grasp2db" # depends on broken package interactiveDisplayBase + "EnsDb_Rnorvegicus_v79" # depends on broken package interactiveDisplayBase + "EnsDb_Rnorvegicus_v75" # depends on broken package interactiveDisplayBase + "EnsDb_Mmusculus_v79" # depends on broken package interactiveDisplayBase + "EnsDb_Mmusculus_v75" # depends on broken package interactiveDisplayBase + "EnsDb_Hsapiens_v79" # depends on broken package interactiveDisplayBase + "EnsDb_Hsapiens_v75" # depends on broken package interactiveDisplayBase + "ensembldb" # depends on broken package interactiveDisplayBase + "AnnotationHubData" # depends on broken package interactiveDisplayBase + "AnnotationHub" # depends on broken package interactiveDisplayBase + "interactiveDisplayBase" # broken build + "h2o" # broken build + "funModeling" # broken build + "brr" # broken build + "bedr" # broken build + "Sabermetrics" # broken build + "RKEEL" # depends on broken package RKEELjars + "RKEELjars" # broken build + "RapidPolygonLookup" # depends on broken package PBSmapping + "PBSmapping" # broken build + "stagePop" # depends on broken package PBSddesolve + "PBSddesolve" # broken build + "Metab" # broken build + "Crossover" # broken build + "CardinalWorkflows" # broken build + "spoccutils" # depends on broken package spocc + "mapr" # depends on broken package spocc + "vmsbase" # broken build + "vcfR" # broken build + "strataG" # broken build + "SSDM" # broken build + "SimInf" # broken build + "shazam" # broken build + "rsvg" # broken build + "Rothermel" # broken build + "rfPermute" # broken build + "redland" # broken build + "RAppArmor" # broken build + "permGPU" # broken build + "pdftools" # broken build + "OceanView" # broken build + "MSeasyTkGUI" # broken build + "mrMLM" # broken build + "MonetDBLite" # broken build + "MixGHD" # broken build + "LCMCR" # broken build + "hunspell" # broken build + "googleformr" # broken build + "ggseas" # depends on broken package x13binary + "seasonal" # depends on broken package x13binary + "gunsales" # depends on broken package x13binary + "x13binary" # broken build + "fds" # broken build + "exifr" # broken build + "rite" # depends on broken package euroMix + "MBCB" # depends on broken package euroMix + "forensim" # depends on broken package euroMix + "dynBiplotGUI" # depends on broken package euroMix + "cncaGUI" # depends on broken package euroMix + "biplotbootGUI" # depends on broken package euroMix + "AnthropMMD" # depends on broken package euroMix + "ilc" # depends on broken package demography + "demography" # broken build + "webbioc" # depends on broken package limma + "davidTiling" # depends on broken package limma + "tilingArray" # depends on broken package limma + "NAPPA" # depends on broken package limma + "NanoStringNorm" # depends on broken package limma + "synapterdata" # depends on broken package limma + "synapter" # depends on broken package limma + "RforProteomics" # depends on broken package limma + "pRolocdata" # depends on broken package limma + "ProCoNA" # depends on broken package limma + "Pbase" # depends on broken package limma + "MSnID" # depends on broken package limma + "msmsEDA" # depends on broken package limma + "MSnbase" # depends on broken package limma + "staRank" # depends on broken package limma + "phenoDist" # depends on broken package limma + "imageHTS" # depends on broken package limma + "Mulder2012" # depends on broken package limma + "HTSanalyzeR" # depends on broken package limma + "gespeR" # depends on broken package limma + "cellHTS2" # depends on broken package limma + "affyPara" # depends on broken package limma + "vsn" # depends on broken package limma + "ttScreening" # depends on broken package limma + "metaX" # depends on broken package limma + "SSPA" # depends on broken package limma + "SQDA" # depends on broken package limma + "ADaCGH2" # depends on broken package limma + "snapCGH" # depends on broken package limma + "Shrinkage" # depends on broken package limma + "SafeQuant" # depends on broken package limma + "RTopper" # depends on broken package limma + "RTCGAToolbox" # depends on broken package limma + "RPPanalyzer" # depends on broken package limma + "Rnits" # depends on broken package limma + "RNAinteractMAPK" # depends on broken package limma + "RNAinteract" # depends on broken package limma + "SimBindProfiles" # depends on broken package limma + "ccTutorial" # depends on broken package limma + "Ringo" # depends on broken package limma + "rCGH" # depends on broken package limma + "qusage" # depends on broken package limma + "qpcrNorm" # depends on broken package limma + "prot2D" # depends on broken package limma + "polyester" # depends on broken package limma + "plmDE" # depends on broken package limma + "phenoTest" # depends on broken package limma + "RANKS" # depends on broken package limma + "PerfMeas" # depends on broken package limma + "pepStat" # depends on broken package limma + "PECA" # depends on broken package limma + "PADOG" # depends on broken package limma + "OGSA" # depends on broken package limma + "nethet" # depends on broken package limma + "lpNet" # depends on broken package limma + "nem" # depends on broken package limma + "monocle" # depends on broken package limma + "MmPalateMiRNA" # depends on broken package limma + "miRtest" # depends on broken package limma + "miRLAB" # depends on broken package limma + "mGSZ" # depends on broken package limma + "MAMA" # depends on broken package limma + "metaMA" # depends on broken package limma + "msd16s" # depends on broken package limma + "metagenomeSeq" # depends on broken package limma + "metabolomics" # depends on broken package limma + "maSigPro" # depends on broken package limma + "timecourse" # depends on broken package limma + "stepNorm" # depends on broken package limma + "RBM" # depends on broken package limma + "saps" # depends on broken package limma + "PharmacoGx" # depends on broken package limma + "piano" # depends on broken package limma + "OLINgui" # depends on broken package limma + "OLIN" # depends on broken package limma + "nnNorm" # depends on broken package limma + "ListerEtAlBSseq" # depends on broken package limma + "compEpiTools" # depends on broken package limma + "methylPipe" # depends on broken package limma + "dyebiasexamples" # depends on broken package limma + "dyebias" # depends on broken package limma + "CluMix" # depends on broken package limma + "HCsnip" # depends on broken package limma + "sigaR" # depends on broken package limma + "plrs" # depends on broken package limma + "CGHregions" # depends on broken package limma + "QDNAseq_mm10" # depends on broken package limma + "QDNAseq_hg19" # depends on broken package limma + "QDNAseq" # depends on broken package limma + "GeneBreak" # depends on broken package limma + "focalCall" # depends on broken package limma + "CGHnormaliter" # depends on broken package limma + "CGHcall" # depends on broken package limma + "CGHbase" # depends on broken package limma + "beta7" # depends on broken package limma + "marray" # depends on broken package limma + "LVSmiRNA" # depends on broken package limma + "lmdme" # depends on broken package limma + "limmaGUI" # depends on broken package limma + "InPAS" # depends on broken package limma + "iChip" # depends on broken package limma + "unifiedWMWqPCR" # depends on broken package limma + "nondetects" # depends on broken package limma + "HTqPCR" # depends on broken package limma + "HD2013SGI" # depends on broken package limma + "vtpnet" # depends on broken package limma + "gwascat" # depends on broken package limma + "gQTLstats" # depends on broken package limma + "GOsummaries" # depends on broken package limma + "yri1kgv" # depends on broken package limma + "hmyriB36" # depends on broken package limma + "cheung2010" # depends on broken package limma + "GGtools" # depends on broken package limma + "GGdata" # depends on broken package limma + "encoDnaseI" # depends on broken package limma + "dsQTL" # depends on broken package limma + "ceuhm3" # depends on broken package limma + "ceu1kgv" # depends on broken package limma + "ceu1kg" # depends on broken package limma + "GGBase" # depends on broken package limma + "GeneSelector" # depends on broken package limma + "GeneSelectMMD" # depends on broken package limma + "gCMAPWeb" # depends on broken package limma + "gCMAP" # depends on broken package limma + "flowBin" # depends on broken package limma + "Fletcher2013a" # depends on broken package limma + "FEM" # depends on broken package limma + "explorase" # depends on broken package limma + "ExiMiR" # depends on broken package limma + "tweeDEseq" # depends on broken package limma + "tRanslatome" # depends on broken package limma + "ToPASeq" # depends on broken package limma + "timeSeq" # depends on broken package limma + "TCGAbiolinks" # depends on broken package limma + "TCC" # depends on broken package limma + "systemPipeR" # depends on broken package limma + "STATegRa" # depends on broken package limma + "ssizeRNA" # depends on broken package limma + "RUVSeq" # depends on broken package limma + "RnaSeqSampleSizeData" # depends on broken package limma + "RnaSeqSampleSize" # depends on broken package limma + "rnaSeqMap" # depends on broken package limma + "ReportingTools" # depends on broken package limma + "QuasiSeq" # depends on broken package limma + "PROPER" # depends on broken package limma + "myTAI" # depends on broken package limma + "msmsTests" # depends on broken package limma + "methylMnM" # depends on broken package limma + "metaseqR" # depends on broken package limma + "MEDIPS" # depends on broken package limma + "manta" # depends on broken package limma + "HTSFilter" # depends on broken package limma + "HTSCluster" # depends on broken package limma + "GSAgm" # depends on broken package limma + "fdrDiscreteNull" # depends on broken package limma + "erccdashboard" # depends on broken package limma + "EnrichmentBrowser" # depends on broken package limma + "edgeRun" # depends on broken package limma + "EDDA" # depends on broken package limma + "RnaSeqTutorial" # depends on broken package limma + "easyRNASeq" # depends on broken package limma + "DEGreport" # depends on broken package limma + "Imetagene" # depends on broken package limma + "metagene" # depends on broken package limma + "DBChIP" # depends on broken package limma + "babel" # depends on broken package limma + "apmsWAPP" # depends on broken package limma + "ampliQueso" # depends on broken package limma + "edgeR" # depends on broken package limma + "MMDiff" # depends on broken package limma + "ChIPQC" # depends on broken package limma + "DiffBind" # depends on broken package limma + "DCGL" # depends on broken package limma + "Prostar" # depends on broken package limma + "DAPAR" # depends on broken package limma + "DAAGbio" # depends on broken package limma + "csaw" # depends on broken package limma + "cp4p" # depends on broken package limma + "coRNAi" # depends on broken package limma + "Cormotif" # depends on broken package limma + "CORM" # depends on broken package limma + "TurboNorm" # depends on broken package limma + "maigesPack" # depends on broken package limma + "convert" # depends on broken package limma + "compcodeR" # depends on broken package limma + "codelink" # depends on broken package limma + "clippda" # depends on broken package limma + "REDseq" # depends on broken package limma + "GUIDEseq" # depends on broken package limma + "ggtut" # depends on broken package limma + "FunciSNP" # depends on broken package limma + "ChIPpeakAnno" # depends on broken package limma + "ChIPComp" # depends on broken package limma + "ChimpHumanBrainData" # depends on broken package limma + "charmData" # depends on broken package limma + "charm" # depends on broken package limma + "cghMCR" # depends on broken package limma + "CCl4" # depends on broken package limma + "casper" # depends on broken package limma + "CancerMutationAnalysis" # depends on broken package limma + "CALIB" # depends on broken package limma + "quantro" # depends on broken package limma + "RnBeads" # depends on broken package limma + "mvoutData" # depends on broken package limma + "MineICA" # depends on broken package limma + "methyAnalysis" # depends on broken package limma + "MAQCsubsetILM" # depends on broken package limma + "MAQCsubset" # depends on broken package limma + "lumiRatIDMapping" # depends on broken package limma + "lumiMouseIDMapping" # depends on broken package limma + "lumiHumanIDMapping" # depends on broken package limma + "lumiBarnes" # depends on broken package limma + "iCheck" # depends on broken package limma + "ffpeExampleData" # depends on broken package limma + "arrayMvout" # depends on broken package limma + "lumi" # depends on broken package limma + "ffpe" # depends on broken package limma + "methylumi" # depends on broken package limma + "shinyMethyl" # depends on broken package limma + "MethylAidData" # depends on broken package limma + "MethylAid" # depends on broken package limma + "IlluminaHumanMethylation450kmanifest" # depends on broken package limma + "skewr" # depends on broken package limma + "wateRmelon" # depends on broken package limma + "missMethyl" # depends on broken package limma + "minfiData" # depends on broken package limma + "IlluminaHumanMethylation450kanno_ilmn12_hg19" # depends on broken package limma + "IlluminaHumanMethylation27kmanifest" # depends on broken package limma + "FlowSorted_DLPFC_450k" # depends on broken package limma + "FlowSorted_Blood_450k" # depends on broken package limma + "ENmix" # depends on broken package limma + "ELMER" # depends on broken package limma + "MEAL" # depends on broken package limma + "DMRcate" # depends on broken package limma + "CopyNumber450kData" # depends on broken package limma + "CopyNumber450k" # depends on broken package limma + "conumee" # depends on broken package limma + "ChAMP" # depends on broken package limma + "minfi" # depends on broken package limma + "regionReport" # depends on broken package limma + "derfinderPlot" # depends on broken package limma + "derfinder" # depends on broken package limma + "bumphunter" # depends on broken package limma + "birta" # depends on broken package limma + "betr" # depends on broken package limma + "beadarrayMSV" # depends on broken package limma + "RobLoxBioC" # depends on broken package limma + "maGUI" # depends on broken package limma + "epigenomix" # depends on broken package limma + "blima" # depends on broken package limma + "BeadArrayUseCases" # depends on broken package limma + "beadarrayFilter" # depends on broken package limma + "beadarrayExampleData" # depends on broken package limma + "beadarray" # depends on broken package limma + "ballgown" # depends on broken package limma + "attract" # depends on broken package limma + "ArrayTools" # depends on broken package limma + "arrayQuality" # depends on broken package limma + "DrugVsDisease" # depends on broken package limma + "ArrayExpress" # depends on broken package limma + "oneChannelGUI" # depends on broken package limma + "affylmGUI" # depends on broken package limma + "AffyExpress" # depends on broken package limma + "AgiMicroRna" # depends on broken package limma + "affycoretools" # depends on broken package limma + "ABSSeq" # depends on broken package limma + "a4" # depends on broken package limma + "a4Base" # depends on broken package limma + "limma" # broken build + "TransView" # broken build + "Starr" # broken build + "SICtools" # broken build + "ReQON" # depends on broken package seqbias + "seqbias" # broken build + "Repitools" # broken build + "QuasR" # broken build + "qrqc" # broken build + "ProteomicsAnnotationHubData" # broken build + "podkat" # broken build + "PING" # depends on broken package PICS + "PICS" # broken build + "mcaGUI" # broken build + "deepSNV" # broken build + "motifbreakR" # depends on broken package MotIV + "LowMACA" # depends on broken package MotIV + "dagLogo" # depends on broken package MotIV + "motifStack" # depends on broken package MotIV + "MotIV" # broken build + "CNEr" # broken build + "canceR" # broken build + "BubbleTree" # broken build + "arrayQualityMetrics" # broken build + "ArrayExpressHTS" # broken build + "TargetSearchData" # depends on broken package TargetSearch + "TargetSearch" # broken build + "ptw" # depends on broken package nloptr + "gpuR" # broken build + "erma" # broken build + "MBmca" # depends on broken package chipPCR + "dpcR" # depends on broken package chipPCR + "chipPCR" # broken build + "alsace" # broken build + "rrlda" # depends on broken package VIM + "qrfactor" # depends on broken package VIM + "MVN" # depends on broken package VIM + "mvoutlier" # depends on broken package VIM + "robCompositions" # depends on broken package VIM + "DiagrammeRsvg" # depends on broken package V8 + "dagitty" # depends on broken package V8 + "remoter" # depends on broken package sodium + "Fletcher2013b" # depends on broken package RTN + "apaStyle" # depends on broken package ReporteRs + "categoryCompare" # depends on broken package RCytoscape + "preseqR" # depends on broken package polynom + "permutations" # depends on broken package partitions + "GLMMRR" # depends on broken package lme4 + "replicationInterval" # depends on broken package lme4 + "GWASdata" # depends on broken package GWASTools + "EnsemblePCReg" # depends on broken package EnsembleBase + "EnsembleCV" # depends on broken package EnsembleBase + "cpgen" # depends on broken package pedigreemm + "mitml" # depends on broken package jomo + "IlluminaHumanMethylation450k_db" # broken build + "gahgu95ecdf" # broken build + "gahgu95dcdf" # broken build + "gahgu95ccdf" # broken build + "gahgu95bcdf" # broken build + "gahgu95av2cdf" # broken build + "PREDAsampledata" # depends on broken package gahgu133plus2cdf + "gahgu133plus2cdf" # broken build + "gahgu133bcdf" # broken build + "gahgu133acdf" # broken build + "annmap" # depends on broken package RMySQL + "choroplethr" # depends on broken package acs + "acs" # broken build + "spray" # depends on broken package partitions + "simmr" # depends on broken package rjags + "morse" # depends on broken package rjags + "gemtc" # depends on broken package rjags + "EasyMARK" # depends on broken package rjags + "PVAClone" # depends on broken package rjags + "sharx" # depends on broken package rjags + "dcmle" # depends on broken package rjags + "dclone" # depends on broken package rjags + "CNVrd2" # depends on broken package rjags + "bayescount" # depends on broken package rjags + "BANOVA" # depends on broken package rjags + "rjags" # broken build + "proteoQC" # depends on broken package rTANDEM + "PGA" # depends on broken package rTANDEM + "MBESS" # depends on broken package OpenMx + "IONiseR" # depends on broken package rhdf5 + "DOQTL" # depends on broken package rhdf5 + "DmelSGI" # depends on broken package rhdf5 + "flowDiv" # depends on broken package ncdfFlow + "ChemmineDrugs" # depends on broken package ChemmineR + "stpm" # depends on broken package nloptr + "sjmisc" # depends on broken package nloptr + "rstanarm" # depends on broken package nloptr + "glmmsr" # depends on broken package nloptr + "FDboost" # depends on broken package nloptr + "faraway" # depends on broken package nloptr + "interplot" # depends on broken package nloptr + "VSE" # depends on broken package car + "VARSEDIG" # depends on broken package car + "translateSPSS2R" # depends on broken package car + "tadaatoolbox" # depends on broken package car + "lavaan_shiny" # depends on broken package car + "RcmdrPlugin_GWRM" # depends on broken package car + "TextoMineR" # depends on broken package car + "pcaBootPlot" # depends on broken package car + "ClustGeo" # depends on broken package car + "preproviz" # depends on broken package car + "hsdar" # depends on broken package car + "DecisionCurve" # depends on broken package car + "CONDOP" # depends on broken package car + "EnsemblePenReg" # depends on broken package car + "EnsembleBase" # depends on broken package car + "fullfact" # depends on broken package car + "clusterSEs" # depends on broken package car + "ggiraph" # depends on broken package gdtools + "rvg" # depends on broken package gdtools + "ggpmisc" # depends on broken package polynom + "mlt_docreg" # depends on broken package polynom + "mlt" # depends on broken package polynom + "basefun" # depends on broken package polynom + "rtable" # depends on broken package ReporteRs + "Mediana" # depends on broken package ReporteRs + "ReporteRs" # broken build + "abd" # depends on broken package nlopt + "adabag" # depends on broken package nlopt + "adhoc" # broken build + "AER" # depends on broken package nlopt + "afex" # depends on broken package nlopt + "agRee" # depends on broken package nlopt + "aLFQ" # depends on broken package nlopt + "algstat" # broken build + "alr3" # depends on broken package nlopt + "alr4" # depends on broken package nlopt + "alsace" # depends on broken nloptr + "anacor" # depends on broken package nlopt + "aods3" # depends on broken package nlopt + "apaTables" # depends on broken package car + "apt" # depends on broken package nlopt + "ArfimaMLM" # depends on broken package nlopt + "arm" # depends on broken package nlopt + "ART" # depends on broken package car + "ARTool" # depends on broken package nlopt "AssetPricing" # broken build "AtelieR" # broken build - "attract" # depends on broken package AnnotationForge-1.11.3 - "auRoc" # depends on broken package rjags-4-4 - "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 - "bamdit" - "bamsignals" # build is broken - "BANOVA" - "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 - "bayescount" - "bayesDem" # depends on broken package nlopt-2.4.2 - "bayesLife" # depends on broken package nlopt-2.4.2 - "BayesMed" - "bayesmix" - "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 - "BaySIC" - "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 - "bcrypt" - "bdynsys" # depends on broken package car-2.1 - "beadarray" # broken build - "beadarrayFilter" # broken build - "beadarrayMSV" # broken build - "beadarraySNP" # broken build - "BEAT" # depends on broken package Rsamtools-1.21.8 - "BEDMatrix" # broken build - "bedr" # broken build - "BEST" - "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 + "auRoc" # depends on broken package rjags + "AutoModel" # depends on broken package car + "bamdit" # broken build + "BANOVA" # broken build + "bapred" # depends on broken package lme4 + "bartMachine" # depends on broken package nlopt + "bayescount" # broken build + "bayesDem" # depends on broken package nlopt + "bayesLife" # depends on broken package nlopt + "BayesMed" # broken build + "bayesmix" # broken build + "bayesPop" # depends on broken package nlopt + "Bayesthresh" # depends on broken package nlopt + "BaySIC" # broken build + "BBRecapture" # depends on broken package nlopt + "BCA" # depends on broken package nlopt + "bdynsys" # depends on broken package car + "BEST" # broken build + "bgmm" # depends on broken package nlopt + "BIFIEsurvey" # depends on broken package nlopt + "BiGGR" # depends on broken package rsbml "bioassayR" # broken build - "Biobase" # broken build - "biobroom" # depends on broken package r-Biobase-2.30.0 - "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 + "BiodiversityR" # depends on broken package nlopt + "biotools" # depends on broken package rpanel "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 - "bmeta" # depends on broken package r-R2jags-0.5-7 - "BMhyd" # broken build - "bnclassify" # broken build - "bootnet" # depends on broken package nlopt-2.4.2 - "boral" - "boss" # depends on broken package nlopt-2.4.2 - "BradleyTerry2" # depends on broken package nlopt-2.4.2 + "BLCOP" # depends on broken package Rsymphony + "blmeco" # depends on broken package nlopt + "blme" # depends on broken package nlopt + "bmd" # depends on broken package nlopt + "bmem" # depends on broken package nlopt + "bmeta" # depends on broken package R2jags + "bootnet" # depends on broken package nlopt + "boral" # broken build + "BradleyTerry2" # depends on broken package nlopt "BrailleR" # broken build - "BRAIN" # broken build "brainGraph" # build is broken - "BrainStars" # broken build "brms" # build is broken - "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 - "BTSPAS" - "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 + "BTSPAS" # broken build + "CADFtest" # depends on broken package nlopt + "cAIC4" # depends on broken package nlopt + "candisc" # depends on broken package nlopt + "carcass" # depends on broken package nlopt + "car" # depends on broken package nlopt + "caret" # depends on broken package nlopt + "caretEnsemble" # depends on broken package nlopt + "CARrampsOcl" # depends on broken package OpenCL |