diff --git a/com.oracle.truffle.r.test.packages/initial.package.blacklist b/com.oracle.truffle.r.test.packages/initial.package.blacklist
index f69f6327e6c76af4ee13b6caf89aab7a8a2ab8fd..80c6a5c45db7986aec560f68c996fed6cf7540d9 100644
--- a/com.oracle.truffle.r.test.packages/initial.package.blacklist
+++ b/com.oracle.truffle.r.test.packages/initial.package.blacklist
@@ -1,6 +1,3 @@
-Package: ABCoptim
-Reason: corebug
-
Package: beadarray
Reason: Bioconductor
@@ -25,24 +22,15 @@ Reason: Bioconductor
Package: SAGx
Reason: Bioconductor
-Package: RJSONIO
-Reason: C++
-
Package: LBE
Reason: Bioconductor
Package: widgetTools
Reason: Bioconductor
-Package: gmp
-Reason: C++
-
Package: rgl
Reason: graphics
-Package: qtbase
-Reason: C++
-
Package: ChemmineR
Reason: Bioconductor
@@ -58,9 +46,6 @@ Reason: Bioconductor
Package: MergeMaid
Reason: Bioconductor
-Package: stepR
-Reason: C++
-
Package: rtracklayer
Reason: Bioconductor
@@ -73,15 +58,9 @@ Reason: Bioconductor
Package: Cairo
Reason: graphics
-Package: timeDate
-Reason: corebug
-
Package: GlobalAncova
Reason: Bioconductor
-Package: archiDART
-Reason: corebug
-
Package: DNAcopy
Reason: Bioconductor
@@ -94,27 +73,15 @@ Reason: Bioconductor
Package: GEOmetadb
Reason: Bioconductor
-Package: EMCC
-Reason: C++
-
Package: tcltk2
Reason: tcltk
-Package: simplexreg
-Reason: C++
-
-Package: Rcpp
-Reason: C++
-
Package: BSgenome
Reason: Bioconductor
Package: nem
Reason: Bioconductor
-Package: vignettes
-Reason: corebug
-
Package: minet
Reason: Bioconductor
@@ -124,15 +91,9 @@ Reason: Bioconductor
Package: R.methodsS3
Reason: replacement
-Package: depmixS4
-Reason: C++
-
Package: breastCancerVDX
Reason: Bioconductor
-Package: pcaPP
-Reason: C++
-
Package: topGO
Reason: Bioconductor
@@ -151,31 +112,18 @@ Reason: Bioconductor
Package: globaltest
Reason: Bioconductor
-Package: proxy
-Reason: corebug
-Analysis: stack overflow in vector extract
-
Package: convert
Reason: Bioconductor
Package: RDAVIDWebService
Reason: Bioconductor
-Package: MaXact
-Reason: C++
-
-Package: Rglpk
-Reason: native
-
Package: simpleaffy
Reason: Bioconductor
Package: GO.db
Reason: Bioconductor
-Package: mixer
-Reason: C++
-
Package: EBImage
Reason: Bioconductor
@@ -185,42 +133,24 @@ Reason: Bioconductor
Package: S4Vectors
Reason: Bioconductor
-Package: HiDimDA
-Reason: C++
-
-Package: wle
-Reason: native
-
Package: xcms
Reason: Bioconductor
Package: qvalue
Reason: Bioconductor
-Package: bnpmr
-Reason: C++
-
Package: BSgenome.Hsapiens.UCSC.hg19
Reason: Bioconductor
Package: GOstats
Reason: Bioconductor
-Package: dbarts
-Reason: C++
-
-Package: aidar
-Reason: corebug
-
Package: pcaMethods
Reason: Bioconductor
Package: BiocGenerics
Reason: Bioconductor
-Package: synchronicity
-Reason: C++
-
Package: phyloseq
Reason: Bioconductor
@@ -254,9 +184,6 @@ Reason: Bioconductor
Package: AnnotLists
Reason: tcltk
-Package: corpcor
-Reason: corebug
-
Package: fabia
Reason: Bioconductor
@@ -269,9 +196,6 @@ Reason: Bioconductor
Package: aroma.light
Reason: Bioconductor
-Package: flam
-Reason: C++
-
Package: marray
Reason: Bioconductor
@@ -284,18 +208,12 @@ Reason: Bioconductor
Package: Rgraphviz
Reason: Bioconductor
-Package: OjaNP
-Reason: C++
-
Package: biomaRt
Reason: Bioconductor
Package: DESeq2
Reason: Bioconductor
-Package: colorspace
-Reason: replacement
-
Package: preprocessCore
Reason: Bioconductor
@@ -305,27 +223,15 @@ Reason: Bioconductor
Package: Biobase
Reason: Bioconductor
-Package: cit
-Reason: C++
-
Package: aplpack
Reason: tcltk
-Package: TraMineR
-Reason: C++
-
Package: siggenes
Reason: Bioconductor
-Package: mixcat
-Reason: C++
-
Package: survcomp
Reason: Bioconductor
-Package: multic
-Reason: C++
-
Package: Rsamtools
Reason: Bioconductor
@@ -338,9 +244,6 @@ Reason: Bioconductor
Package: GSEABase
Reason: Bioconductor
-Package: DALY
-Reason: C++
-
Package: limma
Reason: Bioconductor
@@ -386,18 +289,9 @@ Reason: Bioconductor
Package: Biostrings
Reason: Bioconductor
-Package: quantreg
-Reason: corebug
-
Package: gcrma
Reason: Bioconductor
-Package: IM
-Reason: C++
-
-Package: ff
-Reason: C++
-
Package: lumi
Reason: Bioconductor
@@ -407,18 +301,9 @@ Reason: java
Package: mzR
Reason: Bioconductor
-Package: stringi
-Reason: C++
-
-Package: KFKSDS
-Reason: C++
-
Package: edgeR
Reason: Bioconductor
-Package: tpr
-Reason: C++
-
Package: MassSpecWavelet
Reason: Bioconductor
diff --git a/com.oracle.truffle.r.test.packages/r/install.packages.R b/com.oracle.truffle.r.test.packages/r/install.packages.R
index 27dea0522e1c96821f2630686ea4e0a14944c92b..3319ca852664959c0152057cdf4734899be5a892 100644
--- a/com.oracle.truffle.r.test.packages/r/install.packages.R
+++ b/com.oracle.truffle.r.test.packages/r/install.packages.R
@@ -590,7 +590,7 @@ install.suggests <- function(pkgnames) {
blacklist <- get.blacklist()
nsuggests <- suggests[!suggests %in% blacklist]
if (length(nsuggests) != length(suggests)) {
- cat("not installing Suggests of:", pkgname, ", one or more is blacklisted", "\n")
+ cat("not installing Suggests of:", pkgname, ", one or more is blacklisted: ", paste(suggests[suggests %in% blacklist], sep=", "), "\n")
return()
}
}
@@ -605,8 +605,8 @@ install.suggests <- function(pkgnames) {
} else {
if (anyNA(dep.status)) {
# case 3
- cat("installing Suggests of:", pkgname, "\n")
- dependent.install.ok <- install.pkgs(suggests, dependents.install=T, log=F)
+ cat("installing Suggests of:", pkgname,":",paste(suggests[is.na(dep.status)], sep=", "), "\n")
+ dependent.install.ok <- install.pkgs(suggests[is.na(dep.status)], dependents.install=T, log=F)
} else {
# case 1
}