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### Running command:
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###   /home/hpages/bbs-3.18-bioc/R/bin/R CMD INSTALL IRanges
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* installing to library ‘/home/hpages/bbs-3.18-bioc-testing/Rlibs’
* installing *source* package ‘IRanges’ ...
** using staged installation
** libs
using C compiler: ‘gcc (Ubuntu 12.2.0-17ubuntu1) 12.2.0’
gcc -I"/home/hpages/bbs-3.18-bioc/R/include" -DNDEBUG  -I'/home/hpages/bbs-3.18-bioc-testing/Rlibs/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c CompressedAtomicList_utils.c -o CompressedAtomicList_utils.o
gcc -I"/home/hpages/bbs-3.18-bioc/R/include" -DNDEBUG  -I'/home/hpages/bbs-3.18-bioc-testing/Rlibs/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c CompressedIRangesList_class.c -o CompressedIRangesList_class.o
gcc -I"/home/hpages/bbs-3.18-bioc/R/include" -DNDEBUG  -I'/home/hpages/bbs-3.18-bioc-testing/Rlibs/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c CompressedList_class.c -o CompressedList_class.o
gcc -I"/home/hpages/bbs-3.18-bioc/R/include" -DNDEBUG  -I'/home/hpages/bbs-3.18-bioc-testing/Rlibs/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c Grouping_class.c -o Grouping_class.o
gcc -I"/home/hpages/bbs-3.18-bioc/R/include" -DNDEBUG  -I'/home/hpages/bbs-3.18-bioc-testing/Rlibs/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c IPosRanges_comparison.c -o IPosRanges_comparison.o
gcc -I"/home/hpages/bbs-3.18-bioc/R/include" -DNDEBUG  -I'/home/hpages/bbs-3.18-bioc-testing/Rlibs/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c IRanges_class.c -o IRanges_class.o
gcc -I"/home/hpages/bbs-3.18-bioc/R/include" -DNDEBUG  -I'/home/hpages/bbs-3.18-bioc-testing/Rlibs/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c IRanges_constructor.c -o IRanges_constructor.o
gcc -I"/home/hpages/bbs-3.18-bioc/R/include" -DNDEBUG  -I'/home/hpages/bbs-3.18-bioc-testing/Rlibs/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c NCList.c -o NCList.o
NCList.c:1173:13: warning: ‘NCList_get_y_overlaps_rec’ defined but not used [-Wunused-function]
 1173 | 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]
  202 | static const NCList *next_top_down(const NCList *nclist)
      |                      ^~~~~~~~~~~~~
gcc -I"/home/hpages/bbs-3.18-bioc/R/include" -DNDEBUG  -I'/home/hpages/bbs-3.18-bioc-testing/Rlibs/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c R_init_IRanges.c -o R_init_IRanges.o
gcc -I"/home/hpages/bbs-3.18-bioc/R/include" -DNDEBUG  -I'/home/hpages/bbs-3.18-bioc-testing/Rlibs/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c Ranges_class.c -o Ranges_class.o
gcc -I"/home/hpages/bbs-3.18-bioc/R/include" -DNDEBUG  -I'/home/hpages/bbs-3.18-bioc-testing/Rlibs/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c RleViews_utils.c -o RleViews_utils.o
gcc -I"/home/hpages/bbs-3.18-bioc/R/include" -DNDEBUG  -I'/home/hpages/bbs-3.18-bioc-testing/Rlibs/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c S4Vectors_stubs.c -o S4Vectors_stubs.o
gcc -I"/home/hpages/bbs-3.18-bioc/R/include" -DNDEBUG  -I'/home/hpages/bbs-3.18-bioc-testing/Rlibs/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c SimpleIRangesList_class.c -o SimpleIRangesList_class.o
gcc -I"/home/hpages/bbs-3.18-bioc/R/include" -DNDEBUG  -I'/home/hpages/bbs-3.18-bioc-testing/Rlibs/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c coverage_methods.c -o coverage_methods.o
In function ‘shift_and_clip_ranges’,
    inlined from ‘compute_coverage_from_IRanges_holder’ at coverage_methods.c:609:12:
coverage_methods.c:579:35: warning: ‘x_end’ may be used uninitialized [-Wmaybe-uninitialized]
  579 |         if (*out_ranges_are_tiles && x_end != cvg_len)
      |             ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~
coverage_methods.c: In function ‘compute_coverage_from_IRanges_holder’:
coverage_methods.c:495:28: note: ‘x_end’ was declared here
  495 |             i, j, x_start, x_end, shift_elt, tmp;
      |                            ^~~~~
gcc -I"/home/hpages/bbs-3.18-bioc/R/include" -DNDEBUG  -I'/home/hpages/bbs-3.18-bioc-testing/Rlibs/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c extractListFragments.c -o extractListFragments.o
extractListFragments.c: In function ‘C_find_partition_overlaps’:
extractListFragments.c:66:33: warning: ‘split_partitions_buf’ may be used uninitialized [-Wmaybe-uninitialized]
   66 |                                 IntAE_insert_at(split_partitions_buf,
      |                                 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   67 |                                         IntAE_get_nelt(split_partitions_buf),
      |                                         ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
   68 |                                         q_prev_end);
      |                                         ~~~~~~~~~~~
extractListFragments.c:35:16: note: ‘split_partitions_buf’ was declared here
   35 |         IntAE *split_partitions_buf;
      |                ^~~~~~~~~~~~~~~~~~~~
gcc -I"/home/hpages/bbs-3.18-bioc/R/include" -DNDEBUG  -I'/home/hpages/bbs-3.18-bioc-testing/Rlibs/S4Vectors/include' -I/usr/local/include    -fpic  -g -O2  -Wall -c inter_range_methods.c -o inter_range_methods.o
gcc -shared -L/usr/local/lib -o IRanges.so 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
installing to /home/hpages/bbs-3.18-bioc-testing/Rlibs/00LOCK-IRanges/00new/IRanges/libs
** 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’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (IRanges)