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This page was generated on 2022-01-24 13:04:49 -0500 (Mon, 24 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4329
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4080
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4141
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

INSTALL results for bcSeq on nebbiolo2


To the developers/maintainers of the bcSeq package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/bcSeq.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 130/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
bcSeq 1.16.0  (landing page)
Jiaxing Lin
Snapshot Date: 2022-01-23 01:55:04 -0500 (Sun, 23 Jan 2022)
git_url: https://git.bioconductor.org/packages/bcSeq
git_branch: RELEASE_3_14
git_last_commit: 7c51411
git_last_commit_date: 2021-10-26 12:40:11 -0500 (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    OK    OK  UNNEEDED, same version is already published

Summary

Package: bcSeq
Version: 1.16.0
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL bcSeq
StartedAt: 2022-01-23 03:12:03 -0500 (Sun, 23 Jan 2022)
EndedAt: 2022-01-23 03:12:54 -0500 (Sun, 23 Jan 2022)
EllapsedTime: 51.4 seconds
RetCode: 0
Status:   OK  

Command output

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###
### Running command:
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###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL bcSeq
###
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* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/library’
* installing *source* package ‘bcSeq’ ...
** using staged installation
** libs
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Matrix/include' -I/usr/local/include  -pthread -fpic  -g -O2  -Wall -c CRISPR_matching.cpp -o CRISPR_matching.o
In file included from helper/../structures/Trie.h:16,
                 from helper/count.h:5,
                 from CRISPR_matching.cpp:3:
helper/../structures/NodePool.h: In member function ‘void Pool::resize()’:
helper/../structures/NodePool.h:58:52: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct Node’; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
   58 |     std::memcpy(x, buff.get(), count * sizeof(Node));
      |                                                    ^
In file included from helper/../structures/Trie.h:15,
                 from helper/count.h:5,
                 from CRISPR_matching.cpp:3:
helper/../structures/Node.h:11:8: note: ‘struct Node’ declared here
   11 | struct Node {
      |        ^~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Matrix/include' -I/usr/local/include  -pthread -fpic  -g -O2  -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Matrix/include' -I/usr/local/include  -pthread -fpic  -g -O2  -Wall -c Trie_edit.cpp -o Trie_edit.o
In file included from structures/Trie.h:16,
                 from Trie_edit.cpp:1:
structures/NodePool.h: In member function ‘void Pool::resize()’:
structures/NodePool.h:58:52: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct Node’; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
   58 |     std::memcpy(x, buff.get(), count * sizeof(Node));
      |                                                    ^
In file included from structures/Trie.h:15,
                 from Trie_edit.cpp:1:
structures/Node.h:11:8: note: ‘struct Node’ declared here
   11 | struct Node {
      |        ^~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Matrix/include' -I/usr/local/include  -pthread -fpic  -g -O2  -Wall -c Trie_hamming.cpp -o Trie_hamming.o
In file included from structures/Trie.h:16,
                 from Trie_hamming.cpp:1:
structures/NodePool.h: In member function ‘void Pool::resize()’:
structures/NodePool.h:58:52: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct Node’; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
   58 |     std::memcpy(x, buff.get(), count * sizeof(Node));
      |                                                    ^
In file included from structures/Trie.h:15,
                 from Trie_hamming.cpp:1:
structures/Node.h:11:8: note: ‘struct Node’ declared here
   11 | struct Node {
      |        ^~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Matrix/include' -I/usr/local/include  -pthread -fpic  -g -O2  -Wall -c Trie_util.cpp -o Trie_util.o
In file included from structures/Trie.h:16,
                 from Trie_util.cpp:2:
structures/NodePool.h: In member function ‘void Pool::resize()’:
structures/NodePool.h:58:52: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘struct Node’; use copy-assignment or copy-initialization instead [-Wclass-memaccess]
   58 |     std::memcpy(x, buff.get(), count * sizeof(Node));
      |                                                    ^
In file included from structures/Trie.h:15,
                 from Trie_util.cpp:2:
structures/Node.h:11:8: note: ‘struct Node’ declared here
   11 | struct Node {
      |        ^~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Matrix/include' -I/usr/local/include  -pthread -fpic  -g -O2  -Wall -c alignment.cpp -o alignment.o
gcc -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Matrix/include' -I/usr/local/include   -fpic  -g -O2  -Wall -c init.c -o init.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Matrix/include' -I/usr/local/include  -pthread -fpic  -g -O2  -Wall -c trimRead.cpp -o trimRead.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.14-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'/home/biocbuild/bbs-3.14-bioc/R/library/Matrix/include' -I/usr/local/include  -pthread -fpic  -g -O2  -Wall -c uniqueBar.cpp -o uniqueBar.o
g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.14-bioc/R/lib -L/usr/local/lib -o bcSeq.so CRISPR_matching.o RcppExports.o Trie_edit.o Trie_hamming.o Trie_util.o alignment.o init.o trimRead.o uniqueBar.o -L/home/biocbuild/bbs-3.14-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.14-bioc/R/library/00LOCK-bcSeq/00new/bcSeq/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** 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 (bcSeq)