Devtools::document() and R CMD check

charles-plessy · May 31, 2024 · 00ef961 · 00ef961
1 parent 5e7d906
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diff --git a/DESCRIPTION b/DESCRIPTION
@@ -18,6 +18,7 @@ Imports:
     formula.tools,
     GenomeInfoDb,
     GenomicAlignments,
+    GenomicFeatures,
     GenomicRanges (>= 1.37.16),
     ggplot2 (>= 2.2.0),
     gtools,

diff --git a/NAMESPACE b/NAMESPACE
@@ -105,6 +105,10 @@ importFrom(GenomeInfoDb,seqnames)
 importFrom(GenomeInfoDb,sortSeqlevels)
 importFrom(GenomicAlignments,qwidth)
 importFrom(GenomicAlignments,readGAlignments)
+importFrom(GenomicFeatures,exons)
+importFrom(GenomicFeatures,genes)
+importFrom(GenomicFeatures,promoters)
+importFrom(GenomicFeatures,transcripts)
 importFrom(GenomicRanges,GPos)
 importFrom(GenomicRanges,GRanges)
 importFrom(GenomicRanges,GRangesList)

diff --git a/R/Annotations.R b/R/Annotations.R
@@ -440,6 +440,8 @@ msScope_annotation <- function(libs) {
 #' annotateCTSS(exampleCAGEexp, exampleZv9_annot)
 #' colData(exampleCAGEexp)
 #' 
+#' @importFrom GenomicFeatures genes
+#' 
 #' @export
 
 setGeneric("annotateCTSS", function(object, ranges, upstream=500, downstream=500)

diff --git a/man/annotateCTSS.Rd b/man/annotateCTSS.Rd
diff --git a/man/ranges2annot.Rd b/man/ranges2annot.Rd