Jiaxing Lin
| Snapshot Date: 2025-11-17 13:40 -0500 (Mon, 17 Nov 2025) |
| git_url: https://git.bioconductor.org/packages/bcSeq |
| git_branch: devel |
| git_last_commit: 7bf3e3b |
| git_last_commit_date: 2025-10-29 10:42:17 -0500 (Wed, 29 Oct 2025) |
| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2025-11-18 11:38 -0500 (Tue, 18 Nov 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" | 4826 |
| lconway | macOS 12.7.6 Monterey | x86_64 | R Under development (unstable) (2025-10-21 r88958) -- "Unsuffered Consequences" | 4561 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" | 4562 |
| 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 | ||||
| Package 155/2325 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| bcSeq 1.33.0 (landing page) Jiaxing Lin
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| lconway | macOS 12.7.6 Monterey / x86_64 | OK | ERROR | skipped | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | WARNINGS | OK | | ||||||||
|
To the developers/maintainers of the bcSeq package: - 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 Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: bcSeq |
| Version: 1.33.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL bcSeq |
| StartedAt: 2025-11-17 15:16:56 -0500 (Mon, 17 Nov 2025) |
| EndedAt: 2025-11-17 15:17:45 -0500 (Mon, 17 Nov 2025) |
| EllapsedTime: 48.1 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL bcSeq
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library’
* installing *source* package ‘bcSeq’ ...
** this is package ‘bcSeq’ version ‘1.33.0’
** using staged installation
** libs
using C compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++11
using SDK: ‘MacOSX11.3.1.sdk’
clang++ -arch x86_64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Matrix/include' -I/opt/R/x86_64/include -pthread -fPIC -falign-functions=64 -Wall -g -O2 -c CRISPR_matching.cpp -o CRISPR_matching.o
In file included from CRISPR_matching.cpp:3:
In file included from ./helper/count.h:6:
./helper/fastqCheck.h:54:26: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
sequence.push_back(move(line));
^
std::
./helper/fastqCheck.h:55:30: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
sequence_ids.push_back(move(id));
^
std::
./helper/fastqCheck.h:56:28: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
phredScore.push_back(move(phred));
^
std::
In file included from CRISPR_matching.cpp:3:
./helper/count.h:37:25: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
library.push_back(move(line));
^
std::
./helper/count.h:38:29: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
library_ids.push_back(move(id));
^
std::
./helper/count.h:72:25: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
library.push_back(move(line));
^
std::
./helper/count.h:73:29: warning: unqualified call to 'std::move' [-Wunqualified-std-cast-call]
library_ids.push_back(move(id));
^
std::
7 warnings generated.
clang++ -arch x86_64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Matrix/include' -I/opt/R/x86_64/include -pthread -fPIC -falign-functions=64 -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o
clang++ -arch x86_64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Matrix/include' -I/opt/R/x86_64/include -pthread -fPIC -falign-functions=64 -Wall -g -O2 -c Trie_edit.cpp -o Trie_edit.o
clang++ -arch x86_64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Matrix/include' -I/opt/R/x86_64/include -pthread -fPIC -falign-functions=64 -Wall -g -O2 -c Trie_hamming.cpp -o Trie_hamming.o
clang++ -arch x86_64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Matrix/include' -I/opt/R/x86_64/include -pthread -fPIC -falign-functions=64 -Wall -g -O2 -c Trie_util.cpp -o Trie_util.o
clang++ -arch x86_64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Matrix/include' -I/opt/R/x86_64/include -pthread -fPIC -falign-functions=64 -Wall -g -O2 -c alignment.cpp -o alignment.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Matrix/include' -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c init.c -o init.o
clang++ -arch x86_64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Matrix/include' -I/opt/R/x86_64/include -pthread -fPIC -falign-functions=64 -Wall -g -O2 -c trimRead.cpp -o trimRead.o
clang++ -arch x86_64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/library/Matrix/include' -I/opt/R/x86_64/include -pthread -fPIC -falign-functions=64 -Wall -g -O2 -c uniqueBar.cpp -o uniqueBar.o
clang++ -arch x86_64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/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 -F/Library/Frameworks/R.framework/.. -framework R
installing to /Library/Frameworks/R.framework/Versions/4.6-x86_64/Resources/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)