Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2024-12-24 11:46 -0500 (Tue, 24 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4754 |
palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4472 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4426 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4381 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4373 |
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 2212/2274 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
universalmotif 1.25.1 (landing page) Benjamin Jean-Marie Tremblay
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the universalmotif package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/universalmotif.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: universalmotif |
Version: 1.25.1 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:universalmotif.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings universalmotif_1.25.1.tar.gz |
StartedAt: 2024-12-23 21:56:19 -0500 (Mon, 23 Dec 2024) |
EndedAt: 2024-12-23 21:57:20 -0500 (Mon, 23 Dec 2024) |
EllapsedTime: 61.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: universalmotif.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:universalmotif.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings universalmotif_1.25.1.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/universalmotif.Rcheck’ * using R Under development (unstable) (2024-11-20 r87352) * using platform: aarch64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Ventura 13.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘universalmotif/DESCRIPTION’ ... OK * this is package ‘universalmotif’ version ‘1.25.1’ * package encoding: UTF-8 * 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 ‘universalmotif’ can be installed ... OK * used C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’ * used SDK: ‘MacOSX11.3.sdk’ * checking C++ specification ... NOTE Specified C++11: please drop specification unless essential * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ 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 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 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 ... NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: ArabidopsisPromoters.Rd: DNAStringSet add_multifreq.Rd: XStringSet create_motif.Rd: XStringSet, DNAStringSet, RNAStringSet, AAStringSet, BStringSet create_sequences.Rd: XStringSet enrich_motifs.Rd: XStringSet fontDFroboto.Rd: DataFrame-class get_bkg.Rd: XStringSet run_meme.Rd: XStringSet sample_sites.Rd: XStringSet scan_sequences.Rd: XStringSet, DNAString, MaskedXString, DNAStringSet, RNAStringSet sequence_complexity.Rd: XStringSet shuffle_sequences.Rd: XStringSet Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. * 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 line endings in Makefiles ... OK * checking compilation flags in Makevars ... OK * checking for GNU extensions in Makefiles ... OK * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK * checking use of PKG_*FLAGS in Makefiles ... OK * checking compiled code ... NOTE Note: information on .o files is not available * checking sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed convert_motifs 4.795 0.131 5.04 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘spelling.R’ Running ‘testthat.R’ 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 ‘/Users/biocbuild/bbs-3.21-bioc/meat/universalmotif.Rcheck/00check.log’ for details.
universalmotif.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL universalmotif ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’ * installing *source* package ‘universalmotif’ ... ** using staged installation ** libs using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’ using C++11 using SDK: ‘MacOSX11.3.sdk’ clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o In file included from RcppExports.cpp:4: In file included from /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread.h:9: /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] #define R_NO_REMAP ^ <command line>:2:9: note: previous definition is here #define R_NO_REMAP 1 ^ 1 warning generated. clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c add_multifreq.cpp -o add_multifreq.o clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c calc_complexity.cpp -o calc_complexity.o In file included from calc_complexity.cpp:2: In file included from /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread.h:9: /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] #define R_NO_REMAP ^ <command line>:2:9: note: previous definition is here #define R_NO_REMAP 1 ^ 1 warning generated. clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c compare_motifs.cpp -o compare_motifs.o In file included from compare_motifs.cpp:2: In file included from /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread.h:9: /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] #define R_NO_REMAP ^ <command line>:2:9: note: previous definition is here #define R_NO_REMAP 1 ^ 1 warning generated. clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c get_bkg.cpp -o get_bkg.o In file included from get_bkg.cpp:2: In file included from /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread.h:9: /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] #define R_NO_REMAP ^ <command line>:2:9: note: previous definition is here #define R_NO_REMAP 1 ^ 1 warning generated. clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c motif_finder.cpp -o motif_finder.o In file included from motif_finder.cpp:2: In file included from /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread.h:9: /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] #define R_NO_REMAP ^ <command line>:2:9: note: previous definition is here #define R_NO_REMAP 1 ^ 1 warning generated. clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c motif_peaks.cpp -o motif_peaks.o clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c motif_pvalue.cpp -o motif_pvalue.o In file included from motif_pvalue.cpp:2: In file included from /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread.h:9: /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] #define R_NO_REMAP ^ <command line>:2:9: note: previous definition is here #define R_NO_REMAP 1 ^ 1 warning generated. clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c scan_sequences.cpp -o scan_sequences.o In file included from scan_sequences.cpp:2: In file included from /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread.h:9: /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] #define R_NO_REMAP ^ <command line>:2:9: note: previous definition is here #define R_NO_REMAP 1 ^ 1 warning generated. clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c shuffle_sequences.cpp -o shuffle_sequences.o In file included from shuffle_sequences.cpp:2: In file included from /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread.h:9: /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] #define R_NO_REMAP ^ <command line>:2:9: note: previous definition is here #define R_NO_REMAP 1 ^ shuffle_sequences.cpp:104:20: warning: variable 'vertex_ok' set but not used [-Wunused-but-set-variable] int counter = 0, vertex_ok = 0; ^ 2 warnings generated. clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c trim_motifs.cpp -o trim_motifs.o clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c universalmotif-class.cpp -o universalmotif-class.o clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c utils-exported.cpp -o utils-exported.o clang++ -arch arm64 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c utils-internal.cpp -o utils-internal.o In file included from utils-internal.cpp:2: In file included from /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread.h:9: /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/RcppThread/include/RcppThread/RMonitor.hpp:10:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] #define R_NO_REMAP ^ <command line>:2:9: note: previous definition is here #define R_NO_REMAP 1 ^ 1 warning generated. clang++ -arch arm64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o universalmotif.so RcppExports.o add_multifreq.o calc_complexity.o compare_motifs.o get_bkg.o motif_finder.o motif_peaks.o motif_pvalue.o scan_sequences.o shuffle_sequences.o trim_motifs.o universalmotif-class.o utils-exported.o utils-internal.o -lpthread -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation if test -e "/usr/bin/strip" & test -e "/bin/uname" & [[ `uname` == "Linux" ]] ; then /usr/bin/strip --strip-debug universalmotif.so; fi installing to /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/00LOCK-universalmotif/00new/universalmotif/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading in method for ‘convert_motifs’ with signature ‘motifs="MotifList"’: no definition for class “MotifList” in method for ‘convert_motifs’ with signature ‘motifs="TFFMFirst"’: no definition for class “TFFMFirst” in method for ‘convert_motifs’ with signature ‘motifs="PFMatrix"’: no definition for class “PFMatrix” in method for ‘convert_motifs’ with signature ‘motifs="PWMatrix"’: no definition for class “PWMatrix” in method for ‘convert_motifs’ with signature ‘motifs="ICMatrix"’: no definition for class “ICMatrix” in method for ‘convert_motifs’ with signature ‘motifs="XMatrixList"’: no definition for class “XMatrixList” in method for ‘convert_motifs’ with signature ‘motifs="pwm"’: no definition for class “pwm” in method for ‘convert_motifs’ with signature ‘motifs="pcm"’: no definition for class “pcm” in method for ‘convert_motifs’ with signature ‘motifs="pfm"’: no definition for class “pfm” in method for ‘convert_motifs’ with signature ‘motifs="PWM"’: no definition for class “PWM” in method for ‘convert_motifs’ with signature ‘motifs="Motif"’: no definition for class “Motif” ** 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 (universalmotif)
universalmotif.Rcheck/tests/spelling.Rout
R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: aarch64-apple-darwin20 R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > if(requireNamespace('spelling', quietly = TRUE)) + spelling::spell_check_test(vignettes = TRUE, error = FALSE, + skip_on_cran = TRUE) NULL > > proc.time() user system elapsed 0.072 0.020 0.090
universalmotif.Rcheck/tests/testthat.Rout
R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: aarch64-apple-darwin20 R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > if (R.Version()$arch != "i386") { + + library(testthat) + library(universalmotif) + + test_check("universalmotif") + + } else TRUE [ FAIL 0 | WARN 4 | SKIP 0 | PASS 240 ] [ FAIL 0 | WARN 4 | SKIP 0 | PASS 240 ] > > proc.time() user system elapsed 2.828 0.220 3.064
universalmotif.Rcheck/universalmotif-Ex.timings
name | user | system | elapsed | |
add_multifreq | 0.005 | 0.001 | 0.006 | |
compare_motifs | 0.041 | 0.002 | 0.043 | |
convert_motifs | 4.795 | 0.131 | 5.040 | |
convert_type | 0.002 | 0.000 | 0.002 | |
create_motif | 0.098 | 0.009 | 0.108 | |
create_sequences | 0.002 | 0.000 | 0.003 | |
enrich_motifs | 0.350 | 0.018 | 0.374 | |
filter_motifs | 0.005 | 0.001 | 0.006 | |
get_bkg | 0.073 | 0.004 | 0.087 | |
make_DBscores | 0 | 0 | 0 | |
merge_motifs | 0.071 | 0.004 | 0.083 | |
merge_similar | 0 | 0 | 0 | |
motif_peaks | 0.087 | 0.006 | 0.097 | |
motif_pvalue | 0.066 | 0.004 | 0.071 | |
motif_rc | 0.002 | 0.000 | 0.002 | |
motif_tree | 0.117 | 0.012 | 0.129 | |
read_cisbp | 0.002 | 0.000 | 0.001 | |
read_homer | 0.078 | 0.003 | 0.080 | |
read_jaspar | 0.001 | 0.000 | 0.001 | |
read_matrix | 0.002 | 0.001 | 0.002 | |
read_meme | 0.007 | 0.000 | 0.008 | |
read_transfac | 0.003 | 0.000 | 0.003 | |
read_uniprobe | 0.003 | 0.001 | 0.003 | |
run_meme | 0 | 0 | 0 | |
sample_sites | 0.005 | 0.000 | 0.005 | |
scan_sequences | 0.25 | 0.01 | 0.26 | |
sequence_complexity | 0.305 | 0.009 | 0.316 | |
shuffle_sequences | 0.002 | 0.000 | 0.002 | |
switch_alph | 0.000 | 0.000 | 0.001 | |
tidy-motifs | 0 | 0 | 0 | |
trim_motifs | 0.001 | 0.000 | 0.002 | |
universalmotif-class | 0.004 | 0.001 | 0.005 | |
utils-motif | 0.024 | 0.050 | 0.075 | |
utils-sequence | 0.160 | 0.003 | 0.164 | |
view_logo | 0.097 | 0.008 | 0.104 | |
view_motifs | 0.039 | 0.001 | 0.040 | |
write_homer | 0.001 | 0.000 | 0.001 | |
write_jaspar | 0.004 | 0.000 | 0.004 | |
write_matrix | 0.000 | 0.001 | 0.001 | |
write_meme | 0.005 | 0.000 | 0.005 | |
write_transfac | 0.002 | 0.000 | 0.002 | |