diff --git a/DESCRIPTION b/DESCRIPTION index 6baca9b..ec87175 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -46,7 +46,7 @@ Suggests: GenomeInfoDb, Biobase, AnnotationDbi, annotate, TxDb.Dmelanogaster.UCSC.dm3.ensGene, TxDb.Hsapiens.UCSC.hg38.knownGene, TxDb.Mmusculus.UCSC.mm10.knownGene, - RUnit, digest, knitr, rmarkdown, BiocStyle + RUnit, digest, knitr, rmarkdown, BiocStyle, XVector VignetteBuilder: knitr Collate: normarg-utils.R utils.R diff --git a/man/GRangesList-class.Rd b/man/GRangesList-class.Rd index 0d3941b..3073498 100644 --- a/man/GRangesList-class.Rd +++ b/man/GRangesList-class.Rd @@ -398,7 +398,9 @@ as(grl, "IRangesList") isDisjoint(grl) ## disjoin(): +\dontshow{if (requireNamespace("XVector", quietly=TRUE)) withAutoprint(} disjoin(grl) # metadata columns and order NOT preserved +\dontshow{)} ## Construction with makeGRangesListFromFeatureFragments(): filepath <- system.file("extdata", "feature_frags.txt", diff --git a/man/inter-range-methods.Rd b/man/inter-range-methods.Rd index e941455..b16a6ff 100644 --- a/man/inter-range-methods.Rd +++ b/man/inter-range-methods.Rd @@ -167,6 +167,7 @@ gr3 <- GRanges(seqnames=c("chr1", "chr2"), grl <- GRangesList(gr1=gr1, gr2=gr2, gr3=gr3) grl +\dontshow{if (requireNamespace("XVector", quietly=TRUE)) withAutoprint(\{} ## --------------------------------------------------------------------- ## range() ## --------------------------------------------------------------------- @@ -179,6 +180,7 @@ range(gr, with.revmap=TRUE) range(grl) range(grl, ignore.strand=TRUE) range(grl, with.revmap=TRUE, ignore.strand=TRUE) +\dontshow{\})} # --------------------------------------------------------------------- ## reduce()