Back to Using R 4.1.3 to BUILD/CHECK a small subset of 3.18 packages |
This page was generated on 2024-03-08 16:41:48 -0500 (Fri, 08 Mar 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 655 |
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 74/118 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | |||||||
microRNA 1.60.0 (landing page) "James F. Reid"
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ||||||||
To the developers/maintainers of the microRNA package: - 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: microRNA |
Version: 1.60.0 |
Command: /home/hpages/bbs-3.18-bioc-R41/R/bin/R CMD check --install=check:microRNA.install-out.txt --library=/home/hpages/bbs-3.18-bioc-R41/R/site-library --timings microRNA_1.60.0.tar.gz |
StartedAt: 2024-03-08 16:10:53 -0500 (Fri, 08 Mar 2024) |
EndedAt: 2024-03-08 16:12:09 -0500 (Fri, 08 Mar 2024) |
EllapsedTime: 76.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: microRNA.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/hpages/bbs-3.18-bioc-R41/R/bin/R CMD check --install=check:microRNA.install-out.txt --library=/home/hpages/bbs-3.18-bioc-R41/R/site-library --timings microRNA_1.60.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/hpages/bbs-3.18-bioc-R41/meat/microRNA.Rcheck’ * using R version 4.1.3 (2022-03-10) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * checking for file ‘microRNA/DESCRIPTION’ ... OK * this is package ‘microRNA’ version ‘1.60.0’ * 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 ‘microRNA’ can be installed ... OK * checking installed package size ... NOTE installed size is 7.6Mb sub-directories of 1Mb or more: data 5.4Mb extdata 2.0Mb * checking package directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R 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 ... OK * 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... NOTE Note: information on .o files is not available * checking examples ... OK * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See ‘/home/hpages/bbs-3.18-bioc-R41/meat/microRNA.Rcheck/00check.log’ for details.
microRNA.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/hpages/bbs-3.18-bioc-R41/R/bin/R CMD INSTALL microRNA ### ############################################################################## ############################################################################## * installing to library ‘/home/hpages/bbs-3.18-bioc-R41/R/site-library’ * installing *source* package ‘microRNA’ ... ** using staged installation ** libs g++ -std=gnu++14 -I"/home/hpages/bbs-3.18-bioc-R41/R/include" -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c longest_common_substring.cpp -o longest_common_substring.o longest_common_substring.cpp: In function ‘SEXPREC* longest_common_substring(SEXP)’: longest_common_substring.cpp:55:15: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘__gnu_cxx::__alloc_traits<std::allocator<int>, int>::value_type’ {aka ‘int’} [-Wsign-compare] 55 | if (i == len[index] - 1) { // ignore null termination character | ~~^~~~~~~~~~~~~~~~~ g++ -std=gnu++14 -shared -L/home/hpages/bbs-3.18-bioc-R41/R/lib -L/usr/local/lib -o microRNA.so longest_common_substring.o -L/home/hpages/bbs-3.18-bioc-R41/R/lib -lR installing to /home/hpages/bbs-3.18-bioc-R41/R/site-library/00LOCK-microRNA/00new/microRNA/libs ** R ** data ** 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 (microRNA)
microRNA.Rcheck/microRNA-Ex.timings
name | user | system | elapsed | |
RNA2DNA | 0.000 | 0.000 | 0.001 | |
get_selfhyb_subseq | 0.032 | 0.000 | 0.031 | |
hsSeqs | 0.003 | 0.000 | 0.003 | |
hsTargets | 0.383 | 0.016 | 0.400 | |
matchSeeds | 3.111 | 0.040 | 3.152 | |
mmSeqs | 0.002 | 0.000 | 0.002 | |
mmTargets | 1.955 | 0.035 | 1.991 | |
s3utr | 0.004 | 0.000 | 0.004 | |
seedRegions | 0.000 | 0.003 | 0.002 | |