* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘bedr’ ...
** this is package ‘bedr’ version ‘1.1.3’
** package ‘bedr’ successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package ‘bedr’
    finding HTML links ... done
    adjust.coordinates                      html  
    bed2index                               html  
    bed2vcf                                 html  
    bedr                                    html  
    bedr.join.multiple.region               html  
    bedr.join.region                        html  
    bedr.merge.region                       html  
    bedr.plot.region                        html  
    bedr.setup                              html  
    bedr.snm.region                         html  
    bedr.sort.region                        html  
    bedr.subtract.region                    html  
    catv                                    html  
    check.binary                            html  
    cluster.region                          html  
    convert2bed                             html  
    create.tmp.bed.file                     html  
    determine.input                         html  
    df2list                                 html  
    download.datasets                       html  
    flank.region                            html  
    get.bedpe.id                            html  
    get.chr.length                          html  
    get.example.regions                     html  
    get.fasta                               html  
    get.random.regions                      html  
    get.strand                              html  
    grow.region                             html  
    in.region                               html  
    in.region2                              html  
    index2bed                               html  
    is.merged.region                        html  
    is.sorted.region                        html  
    is.valid.ref                            html  
    is.valid.region                         html  
    is.valid.seq                            html  
    jaccard                                 html  
    modifyList2                             html  
    order.region                            html  
    permute.region                          html  
    process.input                           html  
    query.ucsc                              html  
    read.vcf                                html  
    reldist                                 html  
    size.region                             html  
    strsplit2matrix                         html  
    tabix                                   html  
    table2venn                              html  
    test.region.similarity                  html  
    vcf2bed                                 html  
    vcf2bedpe                               html  
    write.vcf                               html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (bedr)