/usr/lib/R/site-library/XVector/NAMESPACE is in r-bioc-xvector 0.18.0-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 | useDynLib(XVector)
import(methods)
import(BiocGenerics)
import(S4Vectors)
import(IRanges)
### - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
### Export S4 classes
###
exportClasses(
SharedVector, SharedVector_Pool,
SharedRaw, SharedRaw_Pool,
SharedInteger, SharedDouble,
XVector, XRaw, XInteger, XDouble,
GroupedIRanges, XVectorList, XRawList,
XIntegerViews,
RdaCollection
)
### - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
### Export S3 methods
###
S3method(duplicated, XRawList)
### We also export them thru the export() directive so that (a) they can be
### called directly, (b) tab-completion on the name of the generic shows them,
### and (c) methods() doesn't asterisk them.
export(
duplicated.XRawList
)
### - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
### Export S4 methods for generics not defined in XVector
###
exportMethods(
length,
names, "names<-",
"[", "[<-", "[[", "[[<-",
rev,
as.vector, as.integer, as.numeric, as.raw, as.data.frame,
toString,
coerce,
c,
show,
"==", "!=", "<=",
duplicated, match,
order, rank, is.unsorted,
relist,
width,
updateObject,
## Methods for generics defined in the S4Vectors package:
showAsCell,
pcompare,
elementNROWS,
relistToClass,
endoapply,
## Methods for generics defined in the IRanges package:
Views,
viewMins, viewMaxs, viewSums, viewMeans,
viewWhichMins, viewWhichMaxs,
extractList,
reverse,
slice
)
### - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
### Export non-generic functions
###
export(
SharedVector.compare,
SharedVector.copy,
SharedRaw,
SharedRaw.readInts, SharedRaw.writeInts,
SharedRaw.read, SharedRaw.write,
SharedRaw.readComplexes,
#SharedInteger, SharedInteger.read, SharedInteger.write,
#SharedDouble, SharedDouble.read, SharedDouble.write,
XRaw, XInteger, XDouble, XNumeric,
XVectorList,
unlist_list_of_XVectorList, unsplit_list_of_XVectorList,
RdaCollection
)
### - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
### Export S4 generics defined in XVector + export corresponding methods
###
export(
## XVector-class.R:
subseq, "subseq<-",
## RdaCollection-class.R:
rdaPath,
## compact-methods.R:
xvcopy, compact,
## reverse-methods.R:
reverse
)
### Exactly the same list as above.
exportMethods(
subseq, "subseq<-",
rdaPath,
xvcopy, compact,
reverse
)
|