Back to Multiple platform build/check report for BioC 3.10 |
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This page was generated on 2020-04-15 12:08:15 -0400 (Wed, 15 Apr 2020).
Package 592/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
flowMatch 1.22.0 Ariful Azad
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | [ OK ] | |||||||
tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||
merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: flowMatch |
Version: 1.22.0 |
Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:flowMatch.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings flowMatch_1.22.0.tar.gz |
StartedAt: 2020-04-15 01:59:21 -0400 (Wed, 15 Apr 2020) |
EndedAt: 2020-04-15 02:01:20 -0400 (Wed, 15 Apr 2020) |
EllapsedTime: 119.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: flowMatch.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:flowMatch.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings flowMatch_1.22.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/flowMatch.Rcheck’ * using R version 3.6.3 (2020-02-29) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘flowMatch/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘flowMatch’ version ‘1.22.0’ * 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 ‘flowMatch’ can be installed ... OK * 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 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 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 ClusteredSample: no visible global function definition for ‘cov’ ellipse: no visible global function definition for ‘qchisq’ ellipse: no visible global function definition for ‘lines’ limitcalc: no visible global function definition for ‘qchisq’ plot.cluster.contours: no visible global function definition for ‘par’ plot.cluster.contours: no visible global function definition for ‘plot.new’ plot.cluster.contours: no visible global function definition for ‘mtext’ template.tree,Template: no visible global function definition for ‘as.dendrogram’ Undefined global functions or variables: as.dendrogram cov lines mtext par plot.new qchisq Consider adding importFrom("graphics", "lines", "mtext", "par", "plot.new") importFrom("stats", "as.dendrogram", "cov", "qchisq") to your NAMESPACE file. * 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 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 compiled code ... NOTE Note: information on .o files is not available * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU or elapsed time > 5s user system elapsed create.template 12.212 0.020 12.324 Template-class 11.328 0.012 11.386 flowMatch-package 9.820 0.012 9.959 MetaCluster-class 9.316 0.028 9.406 template.tree 9.080 0.016 9.183 ClusterMatch-class 5.484 0.028 5.517 match.clusters 5.400 0.008 5.469 * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See ‘/home/biocbuild/bbs-3.10-bioc/meat/flowMatch.Rcheck/00check.log’ for details.
flowMatch.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL flowMatch ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/library’ * installing *source* package ‘flowMatch’ ... ** using staged installation ** libs g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c BipartiteGraph.cpp -o BipartiteGraph.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c MinWghtEdgCoverBipartite.cpp -o MinWghtEdgCoverBipartite.o MinWghtEdgCoverBipartite.cpp: In function ‘void update_height(mclust&, std::vector<std::vector<templatePair> >, std::vector<std::vector<BipartiteGraph> >, double)’: MinWghtEdgCoverBipartite.cpp:271:16: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int i=0; i<tree.height.size(); i++) ~^~~~~~~~~~~~~~~~~~~ MinWghtEdgCoverBipartite.cpp: In function ‘void computeDegConsistencyNew(std::vector<std::vector<templatePair> >&, std::vector<std::vector<BipartiteGraph> >&, double, double)’: MinWghtEdgCoverBipartite.cpp:487:10: warning: variable ‘delta_cx_cy’ set but not used [-Wunused-but-set-variable] int delta_cx_cy = 0; ^~~~~~~~~~~ g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c flowMatch.cpp -o flowMatch.o flowMatch.cpp: In function ‘Rcpp::List computeMEC(Rcpp::NumericMatrix, double)’: flowMatch.cpp:43:16: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int i=0; i<mec.sCoverVecVec.size(); i++) ~^~~~~~~~~~~~~~~~~~~~~~~~ flowMatch.cpp:45:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int j=0; j<mec.sCoverVecVec[i].size(); j++) ~^~~~~~~~~~~~~~~~~~~~~~~~~~~ flowMatch.cpp:53:16: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int i=0; i<mec.tCoverVecVec.size(); i++) ~^~~~~~~~~~~~~~~~~~~~~~~~ flowMatch.cpp:55:17: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int j=0; j<mec.tCoverVecVec[i].size(); j++) ~^~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.10-bioc/R/lib -L/usr/local/lib -o flowMatch.so BipartiteGraph.o MinWghtEdgCoverBipartite.o flowMatch.o -L/home/biocbuild/bbs-3.10-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.10-bioc/R/library/00LOCK-flowMatch/00new/flowMatch/libs ** R ** 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 (flowMatch)
flowMatch.Rcheck/flowMatch-Ex.timings
name | user | system | elapsed | |
Cluster-class | 0.704 | 0.008 | 0.790 | |
ClusterMatch-class | 5.484 | 0.028 | 5.517 | |
ClusteredSample-class | 1.588 | 0.060 | 1.651 | |
MetaCluster-class | 9.316 | 0.028 | 9.406 | |
Template-class | 11.328 | 0.012 | 11.386 | |
create.template | 12.212 | 0.020 | 12.324 | |
dist.cluster | 0.668 | 0.004 | 0.719 | |
dist.matrix | 1.272 | 0.004 | 1.284 | |
dist.sample | 1.116 | 0.000 | 1.120 | |
dist.template | 4.592 | 0.000 | 4.642 | |
flowMatch-package | 9.820 | 0.012 | 9.959 | |
mahalanobis.dist | 0.660 | 0.008 | 0.673 | |
match.clusters | 5.400 | 0.008 | 5.469 | |
symmetric.KL | 0.692 | 0.004 | 0.698 | |
template.tree | 9.080 | 0.016 | 9.183 | |