Back to Multiple platform build/check report for BioC 3.11 |
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This page was generated on 2020-10-17 11:56:02 -0400 (Sat, 17 Oct 2020).
TO THE DEVELOPERS/MAINTAINERS OF THE XVector PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1898/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
XVector 0.28.0 Hervé Pagès
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | [ OK ] | OK | WARNINGS | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | NA | |||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK |
Package: XVector |
Version: 0.28.0 |
Command: /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD INSTALL XVector |
StartedAt: 2020-10-16 16:08:01 -0400 (Fri, 16 Oct 2020) |
EndedAt: 2020-10-16 16:08:18 -0400 (Fri, 16 Oct 2020) |
EllapsedTime: 16.2 seconds |
RetCode: 0 |
Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD INSTALL XVector ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.11-bioc/R/library’ * installing *source* package ‘XVector’ ... ** using staged installation ** libs gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c IRanges_stubs.c -o IRanges_stubs.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c Ocopy_byteblocks.c -o Ocopy_byteblocks.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c RDS_random_access.c -o RDS_random_access.o RDS_random_access.c: In function ‘RDS_extract_subarray’: RDS_random_access.c:796:18: warning: unused variable ‘ans’ [-Wunused-variable] SEXP subscript, ans; ^~~ RDS_random_access.c:793:11: warning: variable ‘x_type’ set but not used [-Wunused-but-set-variable] SEXPTYPE x_type; ^~~~~~ gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c R_init_XVector.c -o R_init_XVector.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c S4Vectors_stubs.c -o S4Vectors_stubs.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c SharedDouble_class.c -o SharedDouble_class.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c SharedInteger_class.c -o SharedInteger_class.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c SharedRaw_class.c -o SharedRaw_class.o SharedRaw_class.c: In function ‘SharedRaw_read_complexes_from_subscript’: SharedRaw_class.c:396:13: warning: variable ‘src_tag’ set but not used [-Wunused-but-set-variable] SEXP dest, src_tag; ^~~~~~~ gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c SharedVector_class.c -o SharedVector_class.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c XDouble_class.c -o XDouble_class.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c XInteger_class.c -o XInteger_class.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c XRawList_comparison.c -o XRawList_comparison.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c XRaw_class.c -o XRaw_class.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c XVectorList_class.c -o XVectorList_class.o XVectorList_class.c: In function ‘_new_XRawList_from_CharAEAE’: XVectorList_class.c:459:3: warning: ‘lkup_length’ may be used uninitialized in this function [-Wmaybe-uninitialized] _Ocopy_bytes_to_i1i2_with_lkup(0, dest.length - 1, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ (char *) dest.ptr, dest.length, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ src->elts, CharAE_get_nelt(src), ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ lkup0, lkup_length); ~~~~~~~~~~~~~~~~~~~ gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c XVector_class.c -o XVector_class.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c io_utils.c -o io_utils.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c slice_methods.c -o slice_methods.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c vector_copy.c -o vector_copy.o gcc -I"/home/biocbuild/bbs-3.11-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.11-bioc/R/library/S4Vectors/include' -I'/home/biocbuild/bbs-3.11-bioc/R/library/IRanges/include' -I/usr/local/include -fpic -g -O2 -Wall -c view_summarization_methods.c -o view_summarization_methods.o view_summarization_methods.c: In function ‘get_which_min_from_Ints_holder’: view_summarization_methods.c:219:31: warning: ‘cur_min’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (which_min == NA_INTEGER || x < cur_min) { ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ view_summarization_methods.c: In function ‘get_which_min_from_Doubles_holder’: view_summarization_methods.c:246:31: warning: ‘cur_min’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (which_min == NA_INTEGER || x < cur_min) { ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ view_summarization_methods.c: In function ‘get_which_max_from_Ints_holder’: view_summarization_methods.c:269:31: warning: ‘cur_max’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (which_max == NA_INTEGER || x > cur_max) { ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ view_summarization_methods.c: In function ‘get_which_max_from_Doubles_holder’: view_summarization_methods.c:296:31: warning: ‘cur_max’ may be used uninitialized in this function [-Wmaybe-uninitialized] if (which_max == NA_INTEGER || x > cur_max) { ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ gcc -shared -L/home/biocbuild/bbs-3.11-bioc/R/lib -L/usr/local/lib -o XVector.so IRanges_stubs.o Ocopy_byteblocks.o RDS_random_access.o R_init_XVector.o S4Vectors_stubs.o SharedDouble_class.o SharedInteger_class.o SharedRaw_class.o SharedVector_class.o XDouble_class.o XInteger_class.o XRawList_comparison.o XRaw_class.o XVectorList_class.o XVector_class.o io_utils.o slice_methods.o vector_copy.o view_summarization_methods.o -lz -L/home/biocbuild/bbs-3.11-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.11-bioc/R/library/00LOCK-XVector/00new/XVector/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** 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 (XVector)