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BioC 3.0: CHECK report for IRanges on perceval

This page was generated on 2015-04-10 09:52:06 -0700 (Fri, 10 Apr 2015).

Package 465/933HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
IRanges 2.0.1
Bioconductor Package Maintainer
Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/IRanges
Last Changed Rev: 97568 / Revision: 102249
Last Changed Date: 2014-12-11 11:40:54 -0800 (Thu, 11 Dec 2014)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  OK  OK  WARNINGS 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  WARNINGS  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK [ WARNINGS ] OK 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  OK  OK  WARNINGS  OK 

Summary

Package: IRanges
Version: 2.0.1
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch IRanges_2.0.1.tar.gz
StartedAt: 2015-04-10 02:56:54 -0700 (Fri, 10 Apr 2015)
EndedAt: 2015-04-10 03:01:08 -0700 (Fri, 10 Apr 2015)
EllapsedTime: 253.8 seconds
RetCode: 0
Status:  WARNINGS 
CheckDir: IRanges.Rcheck
Warnings: 5

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch IRanges_2.0.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.0-bioc/meat/IRanges.Rcheck’
* using R version 3.1.3 (2015-03-09)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘IRanges/DESCRIPTION’ ... OK
* this is package ‘IRanges’ version ‘2.0.1’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘IRanges’ can be installed ... [26s/43s] WARNING
Found the following significant warnings:
  Warning: undefined slot classes in definition of "RangesNSBS": subscript(class "Ranges")
See ‘/Users/biocbuild/bbs-3.0-bioc/meat/IRanges.Rcheck/00install.out’ for details.
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... NOTE
'library' or 'require' call to ‘XVector’ in package code.
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
Unexported object imported by a ':::' call: ‘stats:::window.default’
  See the note in ?`:::` about the use of this operator.
* checking S3 generic/method consistency ... WARNING
duplicated:
  function(x, incomparables, ...)
duplicated.CompressedIntegerList:
  function(x, incomparables, fromLast)

See section ‘Generic functions and methods’ in the ‘Writing R
Extensions’ manual.
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  ‘NCList’
Undocumented S4 classes:
  ‘NCList’
Undocumented S4 methods:
  generic '!' and siglist 'CompressedList'
  generic '!' and siglist 'List'
  generic '[[<-' and siglist 'CompressedList'
  generic '<=' and siglist 'list,List'
  generic '<=' and siglist 'List,list'
  generic '<=' and siglist 'List,List'
  generic '==' and siglist 'list,List'
  generic '==' and siglist 'List,list'
  generic '==' and siglist 'List,List'
  generic '$<-' and siglist 'CompressedList'
  generic 'anyDuplicated' and siglist 'RangesNSBS'
  generic 'anyDuplicated' and siglist 'RleNSBS'
  generic 'as.integer' and siglist 'RangesNSBS'
  generic 'as.integer' and siglist 'RleNSBS'
  generic 'c' and siglist 'SimpleList'
  generic 'coerce' and siglist 'Hits,IntegerList'
  generic 'coerce' and siglist 'list,RangesList'
  generic 'coerce' and siglist 'PartitioningByEnd,PartitioningMap'
  generic 'compare' and siglist 'list,List'
  generic 'compare' and siglist 'List,list'
  generic 'compare' and siglist 'List,List'
  generic 'duplicated' and siglist 'List'
  generic 'end' and siglist 'NCList'
  generic 'intersect' and siglist 'Ranges,Ranges'
  generic 'is.na' and siglist 'CompressedList'
  generic 'is.na' and siglist 'List'
  generic 'length' and siglist 'NCList'
  generic 'length' and siglist 'RangesNSBS'
  generic 'length' and siglist 'RleNSBS'
  generic 'match' and siglist 'CompressedList,list'
  generic 'match' and siglist 'CompressedList,vector'
  generic 'match' and siglist 'list,List'
  generic 'match' and siglist 'List,list'
  generic 'match' and siglist 'List,List'
  generic 'match' and siglist 'List,vector'
  generic 'match' and siglist 'List,Vector'
  generic 'names' and siglist 'NCList'
  generic 'pgap' and siglist 'Ranges,Ranges'
  generic 'pintersect' and siglist 'Ranges,Ranges'
  generic 'psetdiff' and siglist 'Ranges,Ranges'
  generic 'punion' and siglist 'Ranges,Ranges'
  generic 'relistToClass' and siglist 'data.frame'
  generic 'relistToClass' and siglist 'DataFrame'
  generic 'relistToClass' and siglist 'Hits'
  generic 'setdiff' and siglist 'Ranges,Ranges'
  generic 'show' and siglist 'Hits'
  generic 'splitAsList' and siglist 'ANY,Rle'
  generic 'splitAsList' and siglist 'ANY,vectorORfactor'
  generic 'splitAsListReturnedClass' and siglist 'data.frame'
  generic 'splitAsListReturnedClass' and siglist 'DataFrame'
  generic 'splitAsListReturnedClass' and siglist 'Hits'
  generic 'start' and siglist 'NCList'
  generic 'union' and siglist 'Ranges,Ranges'
  generic 'unique' and siglist 'List'
  generic 'unique' and siglist 'SimpleList'
  generic 'width' and siglist 'NCList'
All user-level objects in a package (including S4 classes and methods)
should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking for code/documentation mismatches ... WARNING
Codoc mismatches from documentation object 'extractList':
splitAsList
  Code: function(x, f, drop = FALSE, ...)
  Docs: function(x, f, drop = FALSE)
  Argument names in code not in docs:
    ...

* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... WARNING
File ‘IRanges/libs/IRanges.so’:
  Found ‘___stderrp’, possibly from ‘stderr’ (C)
    Object: ‘errabort.o’
  Found ‘___stdoutp’, possibly from ‘stdout’ (C)
    Objects: ‘IntervalTree.o’, ‘common.o’, ‘errabort.o’
  Found ‘_abort’, possibly from ‘abort’ (C)
    Object: ‘errabort.o’
  Found ‘_exit’, possibly from ‘exit’ (C)
    Object: ‘errabort.o’

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor the system RNG.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [17s/17s] OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running ‘IRanges_unit_tests.R’ [56s/56s]
 [57s/57s] OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

WARNING: There were 5 warnings.
NOTE: There was 1 note.
See
  ‘/Users/biocbuild/bbs-3.0-bioc/meat/IRanges.Rcheck/00check.log’
for details.

IRanges.Rcheck/00install.out:

* installing *source* package ‘IRanges’ ...
** libs
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c CompressedIRangesList_class.c -o CompressedIRangesList_class.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c CompressedList_class.c -o CompressedList_class.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c DataFrame_class.c -o DataFrame_class.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c GappedRanges_class.c -o GappedRanges_class.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c Grouping_class.c -o Grouping_class.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c IRanges_class.c -o IRanges_class.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c IRanges_constructor.c -o IRanges_constructor.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c IntervalTree.c -o IntervalTree.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c NCList.c -o NCList.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c R_init_IRanges.c -o R_init_IRanges.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c RangedData_class.c -o RangedData_class.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c Ranges_class.c -o Ranges_class.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c Ranges_comparison.c -o Ranges_comparison.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c RleViews_utils.c -o RleViews_utils.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c S4Vectors_stubs.c -o S4Vectors_stubs.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c SimpleRangesList_class.c -o SimpleRangesList_class.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c common.c -o common.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c coverage_methods.c -o coverage_methods.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c dlist.c -o dlist.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c errabort.c -o errabort.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c inter_range_methods.c -o inter_range_methods.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c localmem.c -o localmem.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c memalloc.c -o memalloc.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c rbTree.c -o rbTree.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I"/Library/Frameworks/R.framework/Versions/3.1/Resources/library/S4Vectors/include"   -fPIC  -mtune=core2 -g -O2 -Wall  -c ucsc_handlers.c -o ucsc_handlers.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -L/usr/local/lib -o IRanges.so CompressedIRangesList_class.o CompressedList_class.o DataFrame_class.o GappedRanges_class.o Grouping_class.o IRanges_class.o IRanges_constructor.o IntervalTree.o NCList.o R_init_IRanges.o RangedData_class.o Ranges_class.o Ranges_comparison.o RleViews_utils.o S4Vectors_stubs.o SimpleRangesList_class.o common.o coverage_methods.o dlist.o errabort.o inter_range_methods.o localmem.o memalloc.o rbTree.o ucsc_handlers.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.0-bioc/meat/IRanges.Rcheck/IRanges/libs
** R
** inst
** preparing package for lazy loading
Warning: undefined slot classes in definition of "RangesNSBS": subscript(class "Ranges")
in method for ‘NSBS’ with signature ‘"Ranges"’: no definition for class “Ranges”
in method for ‘extractROWS’ with signature ‘"vectorORfactor","Ranges"’: no definition for class “Ranges”
in method for ‘extractROWS’ with signature ‘"matrix","Ranges"’: no definition for class “Ranges”
Creating a generic function for ‘head’ from package ‘utils’ in package ‘IRanges’
Creating a generic function for ‘tail’ from package ‘utils’ in package ‘IRanges’
Creating a generic function for ‘window’ from package ‘stats’ in package ‘IRanges’
Creating a generic function for ‘window<-’ from package ‘stats’ in package ‘IRanges’
Creating a generic function for ‘rev’ from package ‘base’ in package ‘IRanges’
Creating a generic function for ‘with’ from package ‘base’ in package ‘IRanges’
in method for ‘coerce’ with signature ‘"Hits","IntegerList"’: no definition for class “IntegerList”
Creating a generic function for ‘stack’ from package ‘utils’ in package ‘IRanges’
in method for ‘!’ with signature ‘"CompressedList"’: no definition for class “CompressedList”
in method for ‘match’ with signature ‘"CompressedList","list"’: no definition for class “CompressedList”
in method for ‘match’ with signature ‘"CompressedList","vector"’: no definition for class “CompressedList”
in method for ‘duplicated’ with signature ‘"CompressedList"’: no definition for class “CompressedList”
in method for ‘unique’ with signature ‘"CompressedList"’: no definition for class “CompressedList”
in method for ‘is.na’ with signature ‘"CompressedList"’: no definition for class “CompressedList”
Creating a generic function for ‘mean’ from package ‘base’ in package ‘IRanges’
Creating a generic function for ‘which.max’ from package ‘base’ in package ‘IRanges’
Creating a generic function for ‘which.min’ from package ‘base’ in package ‘IRanges’
Creating a generic function for ‘split’ from package ‘base’ in package ‘IRanges’
Creating a generic function for ‘split<-’ from package ‘base’ in package ‘IRanges’
Creating a generic function for ‘drop’ from package ‘base’ in package ‘IRanges’
Creating a generic function for ‘which’ from package ‘base’ in package ‘IRanges’
Creating a generic function for ‘diff’ from package ‘base’ in package ‘IRanges’
Creating a generic function for ‘var’ from package ‘stats’ in package ‘IRanges’
Creating a generic function for ‘cov’ from package ‘stats’ in package ‘IRanges’
Creating a generic function for ‘cor’ from package ‘stats’ in package ‘IRanges’
Creating a generic function for ‘sd’ from package ‘stats’ in package ‘IRanges’
Creating a generic function for ‘median’ from package ‘stats’ in package ‘IRanges’
Creating a generic function for ‘quantile’ from package ‘stats’ in package ‘IRanges’
Creating a generic function for ‘mad’ from package ‘stats’ in package ‘IRanges’
Creating a generic function for ‘IQR’ from package ‘stats’ in package ‘IRanges’
Creating a generic function for ‘smoothEnds’ from package ‘stats’ in package ‘IRanges’
Creating a generic function for ‘runmed’ from package ‘stats’ in package ‘IRanges’
Creating a generic function for ‘nchar’ from package ‘base’ in package ‘IRanges’
Creating a generic function for ‘chartr’ from package ‘base’ in package ‘IRanges’
Creating a generic function for ‘tolower’ from package ‘base’ in package ‘IRanges’
Creating a generic function for ‘toupper’ from package ‘base’ in package ‘IRanges’
Creating a generic function for ‘sub’ from package ‘base’ in package ‘IRanges’
Creating a generic function for ‘gsub’ from package ‘base’ in package ‘IRanges’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (IRanges)

IRanges.Rcheck/IRanges-Ex.timings:

nameusersystemelapsed
AtomicList-class0.4330.0060.440
CompressedList-class0.0180.0000.019
DataFrame-utils0.1880.0020.542
FilterRules-class0.1270.0020.136
GappedRanges-class0.1580.0030.166
Grouping-class0.0800.0040.085
Hits-class-leftovers0.0700.0020.077
IRanges-class2.4720.0752.560
IRanges-constructor0.0400.0020.041
IRanges-utils2.1280.0722.214
IRangesList-class0.0550.0010.056
IntervalForest-class0.0410.0000.042
IntervalTree-class0.0580.0140.073
List-class-leftovers0.0370.0000.037
MaskCollection-class0.1250.0030.128
RDApplyParams-class0.6890.0040.694
RangedData-class1.5380.0151.554
RangedDataList-class0.0390.0000.039
RangedSelection-class0.0290.0010.030
Ranges-class0.1090.0040.113
Ranges-comparison0.1100.0040.115
RangesList-class0.0960.0030.099
Rle-class-leftovers0.0070.0010.007
RleViews-class0.0870.0020.090
RleViewsList-class0.0730.0010.075
Views-class0.0840.0010.086
ViewsList-class0.0010.0010.001
coverage-methods0.2440.0100.254
expand-methods0.1970.0020.198
extractList0.1280.0020.129
findOverlaps-methods0.3730.0050.379
inter-range-methods1.3010.0181.318
intra-range-methods0.3690.0080.376
mapCoords-methods0.0000.0010.000
multisplit0.0230.0000.024
nearest-methods0.0450.0010.045
read.Mask0.0550.0030.059
reverse-methods0.1300.0020.132
setops-methods0.3370.0080.346
slice-methods0.0210.0000.021
view-summarization-methods0.0200.0010.021