Mock Version: 1.1.41
ENTER do(['bash', '--login', '-c', 'rpmbuild -bs --target x86_64 --nodeps builddir/build/SPECS/R-IRanges.spec'], False, '/var/lib/mock/epel-6-x86_64-mockbuilder-1722/root/', None, 0, True, False, 500, 135, None, False, {'LANG': 'en_US.UTF-8', 'TERM': 'vt100', 'SHELL': '/bin/bash', 'CCACHE_DIR': '/tmp/ccache', 'HOSTNAME': 'mock', 'PROMPT_COMMAND': 'echo -n "<mock-chroot>"', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'HOME': '/builddir', 'CCACHE_UMASK': '002'}, logger=<mockbuild.trace_decorator.getLog object at 0x1d142d0>)
Executing command: ['bash', '--login', '-c', 'rpmbuild -bs --target x86_64 --nodeps builddir/build/SPECS/R-IRanges.spec'] with env {'LANG': 'en_US.UTF-8', 'TERM': 'vt100', 'SHELL': '/bin/bash', 'CCACHE_DIR': '/tmp/ccache', 'HOSTNAME': 'mock', 'PROMPT_COMMAND': 'echo -n "<mock-chroot>"', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'HOME': '/builddir', 'CCACHE_UMASK': '002'}
warning: Could not canonicalize hostname: i-0001442e
Building target platforms: x86_64
Building for target x86_64
Wrote: /builddir/build/SRPMS/R-IRanges-1.22.9-2.el6.src.rpm
Child return code was: 0
LEAVE do --> 

ENTER do(['bash', '--login', '-c', 'rpmbuild -bb --target x86_64 --nodeps  builddir/build/SPECS/R-IRanges.spec'], False, '/var/lib/mock/epel-6-x86_64-mockbuilder-1722/root/', None, 0, True, False, 500, 135, None, False, {'LANG': 'en_US.UTF-8', 'TERM': 'vt100', 'SHELL': '/bin/bash', 'CCACHE_DIR': '/tmp/ccache', 'HOSTNAME': 'mock', 'PROMPT_COMMAND': 'echo -n "<mock-chroot>"', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'HOME': '/builddir', 'CCACHE_UMASK': '002'}, logger=<mockbuild.trace_decorator.getLog object at 0x1d142d0>)
Executing command: ['bash', '--login', '-c', 'rpmbuild -bb --target x86_64 --nodeps  builddir/build/SPECS/R-IRanges.spec'] with env {'LANG': 'en_US.UTF-8', 'TERM': 'vt100', 'SHELL': '/bin/bash', 'CCACHE_DIR': '/tmp/ccache', 'HOSTNAME': 'mock', 'PROMPT_COMMAND': 'echo -n "<mock-chroot>"', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'HOME': '/builddir', 'CCACHE_UMASK': '002'}
Building target platforms: x86_64
Building for target x86_64
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.GddtZg
+ umask 022
+ cd /builddir/build/BUILD
+ LANG=C
+ export LANG
+ unset DISPLAY
+ cd /builddir/build/BUILD
+ rm -rf IRanges
+ /bin/mkdir -p IRanges
+ cd IRanges
+ /usr/bin/gzip -dc /builddir/build/SOURCES/IRanges_1.22.9.tar.gz
+ /bin/tar -xf -
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ /bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.REIS1v
+ umask 022
+ cd /builddir/build/BUILD
+ cd IRanges
+ LANG=C
+ export LANG
+ unset DISPLAY
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.yASJxL
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/R-IRanges-1.22.9-2.el6.x86_64 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/R-IRanges-1.22.9-2.el6.x86_64
++ dirname /builddir/build/BUILDROOT/R-IRanges-1.22.9-2.el6.x86_64
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/R-IRanges-1.22.9-2.el6.x86_64
+ cd IRanges
+ LANG=C
+ export LANG
+ unset DISPLAY
+ rm -rf /builddir/build/BUILDROOT/R-IRanges-1.22.9-2.el6.x86_64
+ mkdir -p /builddir/build/BUILDROOT/R-IRanges-1.22.9-2.el6.x86_64/usr/lib64/R/library
+ R CMD INSTALL IRanges -l /builddir/build/BUILDROOT/R-IRanges-1.22.9-2.el6.x86_64/usr/lib64/R/library
* installing *source* package 'IRanges' ...
** libs
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c AEbufs.c -o AEbufs.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c CompressedIRangesList_class.c -o CompressedIRangesList_class.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c CompressedList_class.c -o CompressedList_class.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c DataFrame_class.c -o DataFrame_class.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c GappedRanges_class.c -o GappedRanges_class.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c Grouping_class.c -o Grouping_class.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c Hits_class.c -o Hits_class.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c IRanges_class.c -o IRanges_class.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c IRanges_constructor.c -o IRanges_constructor.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c IntervalTree.c -o IntervalTree.o
IntervalTree.c: In function '_IntegerIntervalForest_overlap':
IntervalTree.c:378: warning: 'result_inds' may be used uninitialized in this function
IntervalTree.c: In function '_IntegerIntervalTree_overlap':
IntervalTree.c:346: warning: 'result_inds' may be used uninitialized in this function
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c R_init_IRanges.c -o R_init_IRanges.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c RangedData_class.c -o RangedData_class.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c Ranges_class.c -o Ranges_class.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c Ranges_comparison.c -o Ranges_comparison.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c RleViews_utils.c -o RleViews_utils.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c Rle_class.c -o Rle_class.o
Rle_class.c: In function 'compute_int_runs':
Rle_class.c:29: warning: 'val0' may be used uninitialized in this function
Rle_class.c: In function 'compute_CHARSXP_runs':
Rle_class.c:122: warning: 'val0' may be used uninitialized in this function
Rle_class.c: In function 'compute_Rcomplex_runs':
Rle_class.c:88: warning: 'val0.i' may be used uninitialized in this function
Rle_class.c:88: warning: 'val0.r' may be used uninitialized in this function
Rle_class.c: In function 'compute_double_runs':
Rle_class.c:57: warning: 'val0' may be used uninitialized in this function
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c Rle_utils.c -o Rle_utils.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c SEXP_utils.c -o SEXP_utils.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c SimpleList_class.c -o SimpleList_class.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c SimpleRangesList_class.c -o SimpleRangesList_class.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c Vector_class.c -o Vector_class.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c anyMissing.c -o anyMissing.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c common.c -o common.o
common.c: In function 'firstWordInFile':
common.c:1787: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c compact_bitvector.c -o compact_bitvector.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c coverage_methods.c -o coverage_methods.o
coverage_methods.c: In function 'compute_coverage_from_IRanges_holder':
coverage_methods.c:417: warning: 'x_end' may be used uninitialized in this function
coverage_methods.c:417: note: 'x_end' was declared here
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c dlist.c -o dlist.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c errabort.c -o errabort.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c hash_utils.c -o hash_utils.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c int_utils.c -o int_utils.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c inter_range_methods.c -o inter_range_methods.o
inter_range_methods.c: In function 'reduce_ranges':
inter_range_methods.c:114: warning: 'append_or_drop' may be used uninitialized in this function
inter_range_methods.c:114: warning: 'max_end' may be used uninitialized in this function
inter_range_methods.c:114: warning: 'gapwidth' may be used uninitialized in this function
inter_range_methods.c:114: warning: 'delta' may be used uninitialized in this function
inter_range_methods.c:115: warning: 'revmap_elt' may be used uninitialized in this function
inter_range_methods.c: In function 'Ranges_reduce':
inter_range_methods.c:194: warning: 'ans_inframe_start' may be used uninitialized in this function
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c localmem.c -o localmem.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c memalloc.c -o memalloc.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c rbTree.c -o rbTree.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c safe_arithm.c -o safe_arithm.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c sort_utils.c -o sort_utils.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c str_utils.c -o str_utils.o
gcc -m64 -std=gnu99 -I/usr/include/R -DNDEBUG  -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic  -c ucsc_handlers.c -o ucsc_handlers.o
gcc -m64 -std=gnu99 -shared -L/usr/local/lib64 -o IRanges.so AEbufs.o CompressedIRangesList_class.o CompressedList_class.o DataFrame_class.o GappedRanges_class.o Grouping_class.o Hits_class.o IRanges_class.o IRanges_constructor.o IntervalTree.o R_init_IRanges.o RangedData_class.o Ranges_class.o Ranges_comparison.o RleViews_utils.o Rle_class.o Rle_utils.o SEXP_utils.o SimpleList_class.o SimpleRangesList_class.o Vector_class.o anyMissing.o common.o compact_bitvector.o coverage_methods.o dlist.o errabort.o hash_utils.o int_utils.o inter_range_methods.o localmem.o memalloc.o rbTree.o safe_arithm.o sort_utils.o str_utils.o ucsc_handlers.o -L/usr/lib64/R/lib -lR
installing to /builddir/build/BUILDROOT/R-IRanges-1.22.9-2.el6.x86_64/usr/lib64/R/library/IRanges/libs
** R
** inst
** preparing package for lazy loading
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 'subset' from package 'base' in package 'IRanges'
Creating a generic function for 'with' from package 'base' in package 'IRanges'
Creating a generic function for 'aggregate' from package 'stats' in package 'IRanges'
Creating a generic function for '%in%' from package 'base' in package 'IRanges'
Creating a new generic function for 'findMatches' in package 'IRanges'
Creating a generic function for 'as.list' from package 'base' in package 'IRanges'
Creating a generic function for 'stack' from package 'utils' in package 'IRanges'
Creating a generic function for 'within' from package 'base' in package 'IRanges'
Creating a generic function for 'start' from package 'stats' in package 'IRanges'
Creating a generic function for 'end' from package 'stats' in package 'IRanges'
Creating a generic function for 'as.matrix' from package 'base' in package 'IRanges'
Creating a generic function for 'na.omit' from package 'stats' in package 'IRanges'
Creating a generic function for 'na.exclude' from package 'stats' in package 'IRanges'
Creating a generic function for 'complete.cases' from package 'stats' in package 'IRanges'
Creating a generic function for 'merge' from package 'base' in package 'IRanges'
Creating a generic function for 'by' from package 'base' in package 'IRanges'
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 'as.factor' from package 'base' in package 'IRanges'
Creating a generic function for 'which' from package 'base' in package 'IRanges'
Creating a generic function for 'ifelse' 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 '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 'substr' from package 'base' in package 'IRanges'
Creating a generic function for 'substring' 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'
Creating a generic function for 'levels' from package 'base' in package 'IRanges'
Creating a generic function for 'droplevels' from package 'base' in package 'IRanges'
Creating a generic function for 'split' from package 'base' in package 'IRanges'
Creating a generic function for 'unsplit' 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 'quantile' from package 'stats' in package 'IRanges'
Creating a generic function for 'rownames<-' from package 'base' in package 'IRanges'
Creating a generic function for 'colnames<-' from package 'base' in package 'IRanges'
Creating a generic function for 'as.table' from package 'base' in package 'IRanges'
Creating a generic function for 't' from package 'base' in package 'IRanges'
** help
*** installing help indices
  converting help for package 'IRanges'
    finding HTML links ... done
    Annotated-class                         html  
    AtomicList-class                        html  
    DataFrame-class                         html  
    DataFrameList-class                     html  
    DataTable-API                           html  
    DataTable-stats                         html  
    FilterMatrix-class                      html  
    FilterRules-class                       html  
    GappedRanges-class                      html  
    Grouping-class                          html  
    Hits-class                              html  
    HitsList-class                          html  
    IRanges-class                           html  
    IRanges-constructor                     html  
    IRanges-internals                       html  
    IRanges-utils                           html  
    IRangesList-class                       html  
    IntervalForest-class                    html  
    IntervalTree-class                      html  
    List-class                              html  
    MaskCollection-class                    html  
    RDApplyParams-class                     html  
    RangedData-class                        html  
    RangedDataList-class                    html  
    RangedSelection-class                   html  
    Ranges-class                            html  
    Ranges-comparison                       html  
    RangesList-class                        html  
    RangesMapping-class                     html  
    Rle-class                               html  
    RleViews-class                          html  
    RleViewsList-class                      html  
    SimpleList-class                        html  
    Vector-class                            html  
    Vector-comparison                       html  
    Views-class                             html  
    ViewsList-class                         html  
    classNameForDisplay-methods             html  
    coverage-methods                        html  
    endoapply                               html  
    expand-methods                          html  
    extractList                             html  
Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/extractList.Rd:156: missing file link 'unsplit'
    findOverlaps-methods                    html  
    funprog-methods                         html  
Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/funprog-methods.Rd:16: missing file link 'Reduce'
Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/funprog-methods.Rd:33: missing file link 'Reduce'
Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/funprog-methods.Rd:52: missing file link 'Reduce'
    inter-range-methods                     html  
    intra-range-methods                     html  
    isConstant                              html  
    multisplit                              html  
    nearest-methods                         html  
    read.Mask                               html  
    reverse-methods                         html  
    runstat                                 html  
    score                                   html  
    seqapply                                html  
    setops-methods                          html  
Rd warning: /builddir/build/BUILD/IRanges/IRanges/man/setops-methods.Rd:109: missing file link 'union'
    slice-methods                           html  
    str-utils                               html  
    updateObject-methods                    html  
    view-summarization-methods              html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (IRanges)
+ test -d IRanges/src
+ cd IRanges/src
+ rm -f AEbufs.o CompressedIRangesList_class.o CompressedList_class.o DataFrame_class.o GappedRanges_class.o Grouping_class.o Hits_class.o IRanges_class.o IRanges_constructor.o IntervalTree.o R_init_IRanges.o RangedData_class.o Ranges_class.o Ranges_comparison.o RleViews_utils.o Rle_class.o Rle_utils.o SEXP_utils.o SimpleList_class.o SimpleRangesList_class.o Vector_class.o anyMissing.o common.o compact_bitvector.o coverage_methods.o dlist.o errabort.o hash_utils.o int_utils.o inter_range_methods.o localmem.o memalloc.o rbTree.o safe_arithm.o sort_utils.o str_utils.o ucsc_handlers.o IRanges.so
+ rm -rf /builddir/build/BUILDROOT/R-IRanges-1.22.9-2.el6.x86_64/usr/lib64/R/library/R.css
+ /usr/lib/rpm/find-debuginfo.sh --strict-build-id /builddir/build/BUILD/IRanges
extracting debug info from /builddir/build/BUILDROOT/R-IRanges-1.22.9-2.el6.x86_64/usr/lib64/R/library/IRanges/libs/IRanges.so
817 blocks
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/redhat/brp-strip-comment-note /usr/bin/strip /usr/bin/objdump
+ /usr/lib/rpm/brp-python-bytecompile
+ /usr/lib/rpm/redhat/brp-python-hardlink
+ /usr/lib/rpm/redhat/brp-java-repack-jars
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.PPcVam
+ umask 022
+ cd /builddir/build/BUILD
+ cd IRanges
+ unset DISPLAY
+ exit 0
Processing files: R-IRanges-1.22.9-2.el6.x86_64
Provides: IRanges.so()(64bit)
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: libR.so()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) rtld(GNU_HASH)
Processing files: R-IRanges-devel-1.22.9-2.el6.x86_64
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: R-IRanges-debuginfo-1.22.9-2.el6.x86_64
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/R-IRanges-1.22.9-2.el6.x86_64
warning: Could not canonicalize hostname: i-0001442e
Wrote: /builddir/build/RPMS/R-IRanges-1.22.9-2.el6.x86_64.rpm
Wrote: /builddir/build/RPMS/R-IRanges-devel-1.22.9-2.el6.x86_64.rpm
Wrote: /builddir/build/RPMS/R-IRanges-debuginfo-1.22.9-2.el6.x86_64.rpm
Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.FS9m7R
+ umask 022
+ cd /builddir/build/BUILD
+ cd IRanges
+ rm -rf /builddir/build/BUILDROOT/R-IRanges-1.22.9-2.el6.x86_64
+ exit 0
Child return code was: 0
LEAVE do -->