Charles Warden
| Snapshot Date: 2024-04-15 14:00:16 -0400 (Mon, 15 Apr 2024) |
| git_url: https://git.bioconductor.org/packages/COHCAP |
| git_branch: devel |
| git_last_commit: 2941069 |
| git_last_commit_date: 2023-10-24 09:57:09 -0400 (Tue, 24 Oct 2023) |
| Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-04-16 11:40:41 -0400 (Tue, 16 Apr 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4739 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-03-16 r86144 ucrt) -- "Unsuffered Consequences" | 4472 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4500 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-03-19 r86153) -- "Unsuffered Consequences" | 4458 |
| 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 409/2280 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| COHCAP 1.49.0 (landing page) Charles Warden
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
| kjohnson3 | macOS 13.6.5 Ventura / arm64 | see weekly results here | ||||||||||||
|
To the developers/maintainers of the COHCAP package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/COHCAP.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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: COHCAP |
| Version: 1.49.0 |
| Command: /home/biocbuild/R/R-4.4-devel-2024.03.20/bin/R CMD check --install=check:COHCAP.install-out.txt --library=/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library --no-vignettes --timings COHCAP_1.49.0.tar.gz |
| StartedAt: 2024-04-16 03:56:50 -0000 (Tue, 16 Apr 2024) |
| EndedAt: 2024-04-16 03:57:31 -0000 (Tue, 16 Apr 2024) |
| EllapsedTime: 41.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: COHCAP.Rcheck |
| Warnings: 0 |
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### Running command:
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### /home/biocbuild/R/R-4.4-devel-2024.03.20/bin/R CMD check --install=check:COHCAP.install-out.txt --library=/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library --no-vignettes --timings COHCAP_1.49.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/COHCAP.Rcheck’
* using R Under development (unstable) (2024-03-19 r86153)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
gcc (GCC) 10.3.1
GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘COHCAP/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘COHCAP’ version ‘1.49.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘COHCAP’ can be installed ... OK
* used C++ compiler: ‘g++ (GCC) 10.3.1’
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
COHCAP.annotate: no visible binding for global variable
‘COHCAP.450k.UCSC’
COHCAP.annotate: no visible binding for global variable
‘COHCAP.450k.HMM’
COHCAP.annotate: no visible binding for global variable ‘COHCAP.27k’
COHCAP.integrate.avg.by.island: no visible binding for global variable
‘na.rm’
cor.test.est: no visible binding for global variable ‘na.rm’
cor.test.pvalue: no visible binding for global variable ‘na.rm’
Undefined global functions or variables:
COHCAP.27k COHCAP.450k.HMM COHCAP.450k.UCSC na.rm
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 3 NOTEs
See
‘/home/biocbuild/bbs-3.19-bioc/meat/COHCAP.Rcheck/00check.log’
for details.
COHCAP.Rcheck/00install.out
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###
### Running command:
###
### /home/biocbuild/R/R-4.4-devel-2024.03.20/bin/R CMD INSTALL COHCAP
###
##############################################################################
##############################################################################
* installing to library ‘/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library’
* installing *source* package ‘COHCAP’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (GCC) 10.3.1’
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c Rcpp_BH_ANOVA.cpp -o Rcpp_BH_ANOVA.o
In file included from /home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/distributions/fisher_f.hpp:12,
from Rcpp_BH_ANOVA.cpp:4:
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp: In instantiation of ‘boost::math::detail::ibeta_fraction2_t<T>::result_type boost::math::detail::ibeta_fraction2_t<T>::operator()() [with T = long double; boost::math::detail::ibeta_fraction2_t<T>::result_type = std::pair<long double, long double>]’:
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/tools/fraction.hpp:123:20: required from ‘typename boost::math::tools::detail::fraction_traits<Gen>::result_type boost::math::tools::continued_fraction_b(Gen&, const U&, uintmax_t&) [with Gen = boost::math::detail::ibeta_fraction2_t<long double>; U = long double; typename boost::math::tools::detail::fraction_traits<Gen>::result_type = long double; uintmax_t = long unsigned int]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/tools/fraction.hpp:156:31: required from ‘typename boost::math::tools::detail::fraction_traits<Gen>::result_type boost::math::tools::continued_fraction_b(Gen&, const U&) [with Gen = boost::math::detail::ibeta_fraction2_t<long double>; U = long double; typename boost::math::tools::detail::fraction_traits<Gen>::result_type = long double]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp:830:54: required from ‘T boost::math::detail::ibeta_fraction2(T, T, T, T, const Policy&, bool, T*) [with T = long double; Policy = boost::math::policies::policy<boost::math::policies::promote_float<false>, boost::math::policies::promote_double<false>, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp:1472:36: required from ‘T boost::math::detail::ibeta_imp(T, T, T, const Policy&, bool, bool, T*) [with T = long double; Policy = boost::math::policies::policy<boost::math::policies::promote_float<false>, boost::math::policies::promote_double<false>, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp:1509:20: required from ‘T boost::math::detail::ibeta_imp(T, T, T, const Policy&, bool, bool) [with T = long double; Policy = boost::math::policies::policy<boost::math::policies::promote_float<false>, boost::math::policies::promote_double<false>, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp:1686:93: required from ‘boost::math::tools::promote_args_t<RT1, RT2, A> boost::math::ibetac(RT1, RT2, RT3, const Policy&) [with RT1 = double; RT2 = double; RT3 = double; Policy = boost::math::policies::policy<boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>; boost::math::tools::promote_args_t<RT1, RT2, A> = double]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/distributions/fisher_f.hpp:165:28: required from ‘RealType boost::math::cdf(const boost::math::fisher_f_distribution<RealType, Policy>&, const RealType&) [with RealType = double; Policy = boost::math::policies::policy<boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]’
Rcpp_BH_ANOVA.cpp:50:35: required from here
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp:793:16: note: parameter passing for argument of type ‘std::pair<long double, long double>’ when C++17 is enabled changed to match C++14 in GCC 10.1
793 | result_type operator()()
| ^~~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c Rcpp_BH_linear_regression.cpp -o Rcpp_BH_linear_regression.o
In file included from /home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/distributions/students_t.hpp:16,
from Rcpp_BH_linear_regression.cpp:4:
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp: In instantiation of ‘boost::math::detail::ibeta_fraction2_t<T>::result_type boost::math::detail::ibeta_fraction2_t<T>::operator()() [with T = long double; boost::math::detail::ibeta_fraction2_t<T>::result_type = std::pair<long double, long double>]’:
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/tools/fraction.hpp:123:20: required from ‘typename boost::math::tools::detail::fraction_traits<Gen>::result_type boost::math::tools::continued_fraction_b(Gen&, const U&, uintmax_t&) [with Gen = boost::math::detail::ibeta_fraction2_t<long double>; U = long double; typename boost::math::tools::detail::fraction_traits<Gen>::result_type = long double; uintmax_t = long unsigned int]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/tools/fraction.hpp:156:31: required from ‘typename boost::math::tools::detail::fraction_traits<Gen>::result_type boost::math::tools::continued_fraction_b(Gen&, const U&) [with Gen = boost::math::detail::ibeta_fraction2_t<long double>; U = long double; typename boost::math::tools::detail::fraction_traits<Gen>::result_type = long double]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp:830:54: required from ‘T boost::math::detail::ibeta_fraction2(T, T, T, T, const Policy&, bool, T*) [with T = long double; Policy = boost::math::policies::policy<boost::math::policies::promote_float<false>, boost::math::policies::promote_double<false>, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp:1472:36: required from ‘T boost::math::detail::ibeta_imp(T, T, T, const Policy&, bool, bool, T*) [with T = long double; Policy = boost::math::policies::policy<boost::math::policies::promote_float<false>, boost::math::policies::promote_double<false>, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp:1509:20: required from ‘T boost::math::detail::ibeta_imp(T, T, T, const Policy&, bool, bool) [with T = long double; Policy = boost::math::policies::policy<boost::math::policies::promote_float<false>, boost::math::policies::promote_double<false>, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp:1686:93: required from ‘boost::math::tools::promote_args_t<RT1, RT2, A> boost::math::ibetac(RT1, RT2, RT3, const Policy&) [with RT1 = double; RT2 = double; RT3 = double; Policy = boost::math::policies::policy<boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>; boost::math::tools::promote_args_t<RT1, RT2, A> = double]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/distributions/students_t.hpp:200:29: required from ‘RealType boost::math::cdf(const boost::math::students_t_distribution<RealType, Policy>&, const RealType&) [with RealType = double; Policy = boost::math::policies::policy<boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]’
Rcpp_BH_linear_regression.cpp:74:44: required from here
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp:793:16: note: parameter passing for argument of type ‘std::pair<long double, long double>’ when C++17 is enabled changed to match C++14 in GCC 10.1
793 | result_type operator()()
| ^~~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -c Rcpp_BH_ttest.cpp -o Rcpp_BH_ttest.o
In file included from /home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/distributions/students_t.hpp:16,
from Rcpp_BH_ttest.cpp:4:
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp: In instantiation of ‘boost::math::detail::ibeta_fraction2_t<T>::result_type boost::math::detail::ibeta_fraction2_t<T>::operator()() [with T = long double; boost::math::detail::ibeta_fraction2_t<T>::result_type = std::pair<long double, long double>]’:
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/tools/fraction.hpp:123:20: required from ‘typename boost::math::tools::detail::fraction_traits<Gen>::result_type boost::math::tools::continued_fraction_b(Gen&, const U&, uintmax_t&) [with Gen = boost::math::detail::ibeta_fraction2_t<long double>; U = long double; typename boost::math::tools::detail::fraction_traits<Gen>::result_type = long double; uintmax_t = long unsigned int]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/tools/fraction.hpp:156:31: required from ‘typename boost::math::tools::detail::fraction_traits<Gen>::result_type boost::math::tools::continued_fraction_b(Gen&, const U&) [with Gen = boost::math::detail::ibeta_fraction2_t<long double>; U = long double; typename boost::math::tools::detail::fraction_traits<Gen>::result_type = long double]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp:830:54: required from ‘T boost::math::detail::ibeta_fraction2(T, T, T, T, const Policy&, bool, T*) [with T = long double; Policy = boost::math::policies::policy<boost::math::policies::promote_float<false>, boost::math::policies::promote_double<false>, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp:1472:36: required from ‘T boost::math::detail::ibeta_imp(T, T, T, const Policy&, bool, bool, T*) [with T = long double; Policy = boost::math::policies::policy<boost::math::policies::promote_float<false>, boost::math::policies::promote_double<false>, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp:1509:20: required from ‘T boost::math::detail::ibeta_imp(T, T, T, const Policy&, bool, bool) [with T = long double; Policy = boost::math::policies::policy<boost::math::policies::promote_float<false>, boost::math::policies::promote_double<false>, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp:1686:93: required from ‘boost::math::tools::promote_args_t<RT1, RT2, A> boost::math::ibetac(RT1, RT2, RT3, const Policy&) [with RT1 = double; RT2 = double; RT3 = double; Policy = boost::math::policies::policy<boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>; boost::math::tools::promote_args_t<RT1, RT2, A> = double]’
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/distributions/students_t.hpp:200:29: required from ‘RealType boost::math::cdf(const boost::math::students_t_distribution<RealType, Policy>&, const RealType&) [with RealType = double; Policy = boost::math::policies::policy<boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy, boost::math::policies::default_policy>]’
Rcpp_BH_ttest.cpp:29:39: required from here
/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/BH/include/boost/math/special_functions/beta.hpp:793:16: note: parameter passing for argument of type ‘std::pair<long double, long double>’ when C++17 is enabled changed to match C++14 in GCC 10.1
793 | result_type operator()()
| ^~~~~~~~
g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-4.4-devel-2024.03.20/lib -L/usr/local/lib -o COHCAP.so RcppExports.o Rcpp_BH_ANOVA.o Rcpp_BH_linear_regression.o Rcpp_BH_ttest.o -L/home/biocbuild/R/R-4.4-devel-2024.03.20/lib -lR
installing to /home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/00LOCK-COHCAP/00new/COHCAP/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 (COHCAP)
COHCAP.Rcheck/COHCAP-Ex.timings
| name | user | system | elapsed | |
| COHCAP.BSSeq.preprocess | 0.021 | 0.000 | 0.025 | |
| COHCAP.BSSeq_V2.methyl.table | 0.015 | 0.000 | 0.017 | |
| COHCAP.annotate | 1.310 | 0.032 | 1.347 | |
| COHCAP.avg.by.island | 2.061 | 0.086 | 2.156 | |
| COHCAP.avg.by.site | 1.948 | 0.016 | 1.967 | |
| COHCAP.denovo | 1.870 | 0.012 | 1.885 | |
| COHCAP.integrate.avg.by.island | 1.764 | 0.029 | 1.798 | |
| COHCAP.integrate.avg.by.site | 1.709 | 0.015 | 1.730 | |
| COHCAP.qc | 0.957 | 0.004 | 0.963 | |
| COHCAP.reformatFinalReport | 0.008 | 0.000 | 0.010 | |
| COHCAP.site | 1.803 | 0.024 | 1.829 | |