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This page was generated on 2022-04-13 12:06:45 -0400 (Wed, 13 Apr 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.3 (2022-03-10) -- "One Push-Up" 4324
tokay2Windows Server 2012 R2 Standardx644.1.3 (2022-03-10) -- "One Push-Up" 4077
machv2macOS 10.14.6 Mojavex86_644.1.3 (2022-03-10) -- "One Push-Up" 4137
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INSTALL results for IRanges on tokay2


To the developers/maintainers of the IRanges package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/IRanges.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
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raw results

Package 954/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
IRanges 2.28.0  (landing page)
Bioconductor Package Maintainer
Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022)
git_url: https://git.bioconductor.org/packages/IRanges
git_branch: RELEASE_3_14
git_last_commit: d85ee90
git_last_commit_date: 2021-10-26 11:46:29 -0400 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

Summary

Package: IRanges
Version: 2.28.0
Command: C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/IRanges_2.28.0.tar.gz && rm -rf IRanges.buildbin-libdir && mkdir IRanges.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=IRanges.buildbin-libdir IRanges_2.28.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL IRanges_2.28.0.zip && rm IRanges_2.28.0.tar.gz IRanges_2.28.0.zip
StartedAt: 2022-04-12 04:30:21 -0400 (Tue, 12 Apr 2022)
EndedAt: 2022-04-12 04:36:23 -0400 (Tue, 12 Apr 2022)
EllapsedTime: 361.5 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/IRanges_2.28.0.tar.gz && rm -rf IRanges.buildbin-libdir && mkdir IRanges.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=IRanges.buildbin-libdir IRanges_2.28.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL IRanges_2.28.0.zip && rm IRanges_2.28.0.tar.gz IRanges_2.28.0.zip
###
##############################################################################
##############################################################################


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install for i386

* installing *source* package 'IRanges' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c CompressedAtomicList_utils.c -o CompressedAtomicList_utils.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c CompressedIRangesList_class.c -o CompressedIRangesList_class.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c CompressedList_class.c -o CompressedList_class.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c Grouping_class.c -o Grouping_class.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c IPosRanges_comparison.c -o IPosRanges_comparison.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c IRanges_class.c -o IRanges_class.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c IRanges_constructor.c -o IRanges_constructor.o
IRanges_constructor.c: In function 'solve_range':
IRanges_constructor.c:43:22: warning: unknown conversion type character 'l' in format [-Wformat=]
      "the 'width' (%lld) inferred from the "
                      ^
IRanges_constructor.c:43:6: warning: too many arguments for format [-Wformat-extra-args]
      "the 'width' (%lld) inferred from the "
      ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
IRanges_constructor.c:66:22: warning: unknown conversion type character 'l' in format [-Wformat=]
      "the 'start' (%lld) inferred from the "
                      ^
IRanges_constructor.c:66:6: warning: too many arguments for format [-Wformat-extra-args]
      "the 'start' (%lld) inferred from the "
      ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
IRanges_constructor.c:86:20: warning: unknown conversion type character 'l' in format [-Wformat=]
      "the 'end' (%lld) inferred from the "
                    ^
IRanges_constructor.c:86:6: warning: too many arguments for format [-Wformat-extra-args]
      "the 'end' (%lld) inferred from the "
      ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
IRanges_constructor.c:98:5: warning: unknown conversion type character 'l' in format [-Wformat=]
     "the supplied 'width' (%d) doesn't match "
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
IRanges_constructor.c:100:27: note: format string is defined here
     "'start' and 'end' (%lld)", width, tmp);
                           ^
IRanges_constructor.c:98:5: warning: too many arguments for format [-Wformat-extra-args]
     "the supplied 'width' (%d) doesn't match "
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c NCList.c -o NCList.o
NCList.c:1173:13: warning: 'NCList_get_y_overlaps_rec' defined but not used [-Wunused-function]
 static void NCList_get_y_overlaps_rec(const NCList *x_nclist,
             ^~~~~~~~~~~~~~~~~~~~~~~~~
NCList.c:202:22: warning: 'next_top_down' defined but not used [-Wunused-function]
 static const NCList *next_top_down(const NCList *nclist)
                      ^~~~~~~~~~~~~
NCList.c: In function 'C_print_NCListAsINTSXP':
NCList.c:674:23: warning: '%d' directive writing between 1 and 11 bytes into a region of size 8 [-Wformat-overflow=]
   sprintf(format, "%c0%d%c", '%', max_digits, 'd');
                       ^~
NCList.c:674:19: note: directive argument in the range [-2147483647, 2147483647]
   sprintf(format, "%c0%d%c", '%', max_digits, 'd');
                   ^~~~~~~~~
NCList.c:674:3: note: 'sprintf' output between 5 and 15 bytes into a destination of size 10
   sprintf(format, "%c0%d%c", '%', max_digits, 'd');
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
NCList.c: In function 'C_find_overlaps_in_groups_NCList':
NCList.c:1546:7: warning: 'ans' may be used uninitialized in this function [-Wmaybe-uninitialized]
  SEXP ans;
       ^~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c R_init_IRanges.c -o R_init_IRanges.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c Ranges_class.c -o Ranges_class.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c RleViews_utils.c -o RleViews_utils.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c S4Vectors_stubs.c -o S4Vectors_stubs.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c SimpleIRangesList_class.c -o SimpleIRangesList_class.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c coverage_methods.c -o coverage_methods.o
coverage_methods.c: In function 'compute_coverage_from_IRanges_holder':
coverage_methods.c:579:28: warning: 'x_end' may be used uninitialized in this function [-Wmaybe-uninitialized]
  if (*out_ranges_are_tiles && x_end != cvg_len)
      ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
coverage_methods.c:495:21: note: 'x_end' was declared here
      i, j, x_start, x_end, shift_elt, tmp;
                     ^~~~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c extractListFragments.c -o extractListFragments.o
extractListFragments.c: In function 'C_find_partition_overlaps':
extractListFragments.c:66:5: warning: 'split_partitions_buf' may be used uninitialized in this function [-Wmaybe-uninitialized]
     IntAE_insert_at(split_partitions_buf,
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
      IntAE_get_nelt(split_partitions_buf),
      ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
      q_prev_end);
      ~~~~~~~~~~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c inter_range_methods.c -o inter_range_methods.o
C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o IRanges.dll tmp.def CompressedAtomicList_utils.o CompressedIRangesList_class.o CompressedList_class.o Grouping_class.o IPosRanges_comparison.o IRanges_class.o IRanges_constructor.o NCList.o R_init_IRanges.o Ranges_class.o RleViews_utils.o S4Vectors_stubs.o SimpleIRangesList_class.o coverage_methods.o extractListFragments.o inter_range_methods.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/IRanges.buildbin-libdir/00LOCK-IRanges/00new/IRanges/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
Creating a generic function for 'drop' from package 'base' in package 'IRanges'
Creating a generic function for 'runmed' from package 'stats' in package 'IRanges'
Creating a generic function for 'chartr' from package 'base' in package 'IRanges'
Creating a generic function for 'toupper' from package 'base' in package 'IRanges'
Creating a generic function for 'tolower' 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'
Creating a generic function for 'startsWith' from package 'base' in package 'IRanges'
Creating a generic function for 'endsWith' from package 'base' in package 'IRanges'
Creating a generic function for 'smoothEnds' from package 'stats' in package 'IRanges'
Creating a new generic function for 'windows' in package 'IRanges'
** help
*** installing help indices
  converting help for package 'IRanges'
    finding HTML links ... done
    AtomicList-class                        html  
    finding level-2 HTML links ... done

    AtomicList-utils                        html  
    CompressedHitsList-class                html  
    CompressedList-class                    html  
    DataFrameList-class                     html  
REDIRECT:topic	 Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/IRanges.buildbin-libdir/00LOCK-IRanges/00new/IRanges/help/ROWNAMES+2CDataFrameList-method.html
REDIRECT:topic	 Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/IRanges.buildbin-libdir/00LOCK-IRanges/00new/IRanges/help/nrow+2CDataFrameList-method.html
    Grouping-class                          html  
    Hits-class-leftovers                    html  
    IPos-class                              html  
    IPosRanges-class                        html  
    IPosRanges-comparison                   html  
    IRanges-class                           html  
    IRanges-constructor                     html  
    IRanges-internals                       html  
    IRanges-utils                           html  
    IRangesList-class                       html  
REDIRECT:topic	 Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/IRanges.buildbin-libdir/00LOCK-IRanges/00new/IRanges/help/coerce+2CList+2CCompressedIRangesList-method.html
REDIRECT:topic	 Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/IRanges.buildbin-libdir/00LOCK-IRanges/00new/IRanges/help/coerce+2CList+2CSimpleIRangesList-method.html
REDIRECT:topic	 Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/IRanges.buildbin-libdir/00LOCK-IRanges/00new/IRanges/help/coerce+2CList+2CIRangesList-method.html
    IntegerRanges-class                     html  
    IntegerRangesList-class                 html  
    MaskCollection-class                    html  
    NCList-class                            html  
    RangedSelection-class                   html  
    Rle-class-leftovers                     html  
    RleViews-class                          html  
    RleViewsList-class                      html  
    Vector-class-leftovers                  html  
REDIRECT:topic	 Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/IRanges.buildbin-libdir/00LOCK-IRanges/00new/IRanges/help/window+3C-+2Cvector-method.html
REDIRECT:topic	 Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/IRanges.buildbin-libdir/00LOCK-IRanges/00new/IRanges/help/window+3C-.vector.html
    Views-class                             html  
    ViewsList-class                         html  
    coverage-methods                        html  
    extractList                             html  
    extractListFragments                    html  
    findOverlaps-methods                    html  
    inter-range-methods                     html  
    intra-range-methods                     html  
Rd warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpmMy0qG/R.INSTALL170021ce350f/IRanges/man/intra-range-methods.Rd:94: missing link 'RangesList'
Rd warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpmMy0qG/R.INSTALL170021ce350f/IRanges/man/intra-range-methods.Rd:102: missing link 'RangesList'
Rd warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpmMy0qG/R.INSTALL170021ce350f/IRanges/man/intra-range-methods.Rd:123: missing link 'RangesList'
Rd warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpmMy0qG/R.INSTALL170021ce350f/IRanges/man/intra-range-methods.Rd:136: missing link 'RangesList'
Rd warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpmMy0qG/R.INSTALL170021ce350f/IRanges/man/intra-range-methods.Rd:146: missing link 'RangesList'
Rd warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpmMy0qG/R.INSTALL170021ce350f/IRanges/man/intra-range-methods.Rd:160: missing link 'RangesList'
Rd warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpmMy0qG/R.INSTALL170021ce350f/IRanges/man/intra-range-methods.Rd:188: missing link 'RangesList'
Rd warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpmMy0qG/R.INSTALL170021ce350f/IRanges/man/intra-range-methods.Rd:297: missing link 'RangesList'
    multisplit                              html  
    nearest-methods                         html  
    range-squeezers                         html  
    read.Mask                               html  
    reverse-methods                         html  
    seqapply                                html  
    setops-methods                          html  
    slice-methods                           html  
    view-summarization-methods              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

install for x64

* installing *source* package 'IRanges' ...
** libs
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c CompressedAtomicList_utils.c -o CompressedAtomicList_utils.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c CompressedIRangesList_class.c -o CompressedIRangesList_class.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c CompressedList_class.c -o CompressedList_class.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c Grouping_class.c -o Grouping_class.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c IPosRanges_comparison.c -o IPosRanges_comparison.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c IRanges_class.c -o IRanges_class.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c IRanges_constructor.c -o IRanges_constructor.o
IRanges_constructor.c: In function 'solve_range':
IRanges_constructor.c:43:22: warning: unknown conversion type character 'l' in format [-Wformat=]
      "the 'width' (%lld) inferred from the "
                      ^
IRanges_constructor.c:43:6: warning: too many arguments for format [-Wformat-extra-args]
      "the 'width' (%lld) inferred from the "
      ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
IRanges_constructor.c:66:22: warning: unknown conversion type character 'l' in format [-Wformat=]
      "the 'start' (%lld) inferred from the "
                      ^
IRanges_constructor.c:66:6: warning: too many arguments for format [-Wformat-extra-args]
      "the 'start' (%lld) inferred from the "
      ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
IRanges_constructor.c:86:20: warning: unknown conversion type character 'l' in format [-Wformat=]
      "the 'end' (%lld) inferred from the "
                    ^
IRanges_constructor.c:86:6: warning: too many arguments for format [-Wformat-extra-args]
      "the 'end' (%lld) inferred from the "
      ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
IRanges_constructor.c:98:5: warning: unknown conversion type character 'l' in format [-Wformat=]
     "the supplied 'width' (%d) doesn't match "
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
IRanges_constructor.c:100:27: note: format string is defined here
     "'start' and 'end' (%lld)", width, tmp);
                           ^
IRanges_constructor.c:98:5: warning: too many arguments for format [-Wformat-extra-args]
     "the supplied 'width' (%d) doesn't match "
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c NCList.c -o NCList.o
NCList.c:1173:13: warning: 'NCList_get_y_overlaps_rec' defined but not used [-Wunused-function]
 static void NCList_get_y_overlaps_rec(const NCList *x_nclist,
             ^~~~~~~~~~~~~~~~~~~~~~~~~
NCList.c:202:22: warning: 'next_top_down' defined but not used [-Wunused-function]
 static const NCList *next_top_down(const NCList *nclist)
                      ^~~~~~~~~~~~~
NCList.c: In function 'C_print_NCListAsINTSXP':
NCList.c:674:23: warning: '%d' directive writing between 1 and 11 bytes into a region of size 8 [-Wformat-overflow=]
   sprintf(format, "%c0%d%c", '%', max_digits, 'd');
                       ^~
NCList.c:674:19: note: directive argument in the range [-2147483647, 2147483647]
   sprintf(format, "%c0%d%c", '%', max_digits, 'd');
                   ^~~~~~~~~
NCList.c:674:3: note: 'sprintf' output between 5 and 15 bytes into a destination of size 10
   sprintf(format, "%c0%d%c", '%', max_digits, 'd');
   ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c R_init_IRanges.c -o R_init_IRanges.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c Ranges_class.c -o Ranges_class.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c RleViews_utils.c -o RleViews_utils.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c S4Vectors_stubs.c -o S4Vectors_stubs.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c SimpleIRangesList_class.c -o SimpleIRangesList_class.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c coverage_methods.c -o coverage_methods.o
coverage_methods.c: In function 'compute_coverage_from_IRanges_holder':
coverage_methods.c:579:28: warning: 'x_end' may be used uninitialized in this function [-Wmaybe-uninitialized]
  if (*out_ranges_are_tiles && x_end != cvg_len)
      ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
coverage_methods.c:495:21: note: 'x_end' was declared here
      i, j, x_start, x_end, shift_elt, tmp;
                     ^~~~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c extractListFragments.c -o extractListFragments.o
extractListFragments.c: In function 'C_find_partition_overlaps':
extractListFragments.c:66:5: warning: 'split_partitions_buf' may be used uninitialized in this function [-Wmaybe-uninitialized]
     IntAE_insert_at(split_partitions_buf,
     ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
      IntAE_get_nelt(split_partitions_buf),
      ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
      q_prev_end);
      ~~~~~~~~~~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG  -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/S4Vectors/include'   -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c inter_range_methods.c -o inter_range_methods.o
C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o IRanges.dll tmp.def CompressedAtomicList_utils.o CompressedIRangesList_class.o CompressedList_class.o Grouping_class.o IPosRanges_comparison.o IRanges_class.o IRanges_constructor.o NCList.o R_init_IRanges.o Ranges_class.o RleViews_utils.o S4Vectors_stubs.o SimpleIRangesList_class.o coverage_methods.o extractListFragments.o inter_range_methods.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/IRanges.buildbin-libdir/IRanges/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'IRanges' as IRanges_2.28.0.zip
* DONE (IRanges)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'IRanges' successfully unpacked and MD5 sums checked