[med-svn] [r-bioc-genomicranges] 02/04: Update upstream source from tag 'upstream/1.30.0'

[Andreas Tille]

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tille pushed a commit to branch master
in repository r-bioc-genomicranges.

commit 409b1f67d0154c3ac1b0a6dbb7e3f716276c6cae
Merge: c9daa6e 68b3305
Author: Andreas Tille <tille at debian.org>
Date:   Wed Nov 8 15:00:35 2017 +0100

    Update upstream source from tag 'upstream/1.30.0'
    
    Update to upstream version '1.30.0'
    with Debian dir 908a4c1fab85509d1947e03f2047f6109643f1c0

 DESCRIPTION                                 |  10 +-
 NAMESPACE                                   |  37 ++-
 NEWS                                        |  59 ++++-
 R/GNCList-class.R                           |   2 +-
 R/GPos-class.R                              | 391 ++++++++++------------------
 R/GRanges-class.R                           |  84 +++---
 R/GRangesList-class.R                       |  19 +-
 R/GenomicRanges-class.R                     |  30 +--
 R/GenomicRanges-comparison.R                |   8 +-
 R/RangedData-methods.R                      |   7 -
 R/findOverlaps-methods.R                    |  92 ++++---
 R/genomic-range-squeezers.R                 |  28 ++
 R/inter-range-methods.R                     |   5 +-
 R/intra-range-methods.R                     |  13 +-
 R/nearest-methods.R                         |  34 ++-
 R/range-squeezers.R                         |  49 ----
 R/setops-methods.R                          |   6 +-
 R/strand-utils.R                            |  28 +-
 build/vignette.rds                          | Bin 697 -> 698 bytes
 inst/doc/ExtendingGenomicRanges.pdf         | Bin 103036 -> 140031 bytes
 inst/doc/GRanges_and_GRangesList_slides.pdf | Bin 250940 -> 250940 bytes
 inst/doc/GenomicRangesHOWTOs.pdf            | Bin 195126 -> 234135 bytes
 inst/doc/GenomicRangesIntroduction.Rnw      |   3 +-
 inst/doc/GenomicRangesIntroduction.pdf      | Bin 159556 -> 189468 bytes
 inst/doc/Ten_things_slides.pdf              | Bin 138327 -> 138321 bytes
 inst/unitTests/test_GNCList-class.R         |  20 +-
 man/GPos-class.Rd                           | 104 ++++----
 man/GRanges-class.Rd                        | 350 ++++++++++++-------------
 man/GRangesList-class.Rd                    |   2 +
 man/GenomicRanges-comparison.Rd             |  73 +++---
 man/findOverlaps-methods.Rd                 |   6 +-
 man/genomic-range-squeezers.Rd              |  94 +++++++
 man/intra-range-methods.Rd                  |   1 -
 man/makeGRangesFromDataFrame.Rd             |  10 +-
 man/range-squeezers.Rd                      | 114 --------
 vignettes/GenomicRangesIntroduction.Rnw     |   3 +-
 36 files changed, 809 insertions(+), 873 deletions(-)

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