Back to Multiple platform build/check report for BioC 3.6 |
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This page was generated on 2018-04-12 13:40:26 -0400 (Thu, 12 Apr 2018).
Package 691/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
immunoClust 1.10.0 Till Soerensen
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | OK | ![]() | ||||||
tokay1 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | OK | OK | ![]() | ||||||
veracruz1 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | [ OK ] | OK | ![]() |
Package: immunoClust |
Version: 1.10.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings immunoClust_1.10.0.tar.gz |
StartedAt: 2018-04-12 05:12:40 -0400 (Thu, 12 Apr 2018) |
EndedAt: 2018-04-12 05:17:27 -0400 (Thu, 12 Apr 2018) |
EllapsedTime: 287.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: immunoClust.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings immunoClust_1.10.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.6-bioc/meat/immunoClust.Rcheck’ * using R version 3.4.4 (2018-03-15) * using platform: x86_64-apple-darwin15.6.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘immunoClust/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘immunoClust’ version ‘1.10.0’ * 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 ‘immunoClust’ can be installed ... OK * 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 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 shell scripts ... 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 ... OK * checking sizes of PDF files under ‘inst/doc’ ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU or elapsed time > 5s user system elapsed dat.fcs 91.482 0.504 93.393 cell.process 87.644 0.420 89.315 cell.SubClustering 12.221 0.070 12.448 * 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: 1 NOTE See ‘/Users/biocbuild/bbs-3.6-bioc/meat/immunoClust.Rcheck/00check.log’ for details.
immunoClust.Rcheck/00install.out
* installing *source* package ‘immunoClust’ ... checking for pkg-config... /usr/local/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for GSL... yes configure: creating ./config.status config.status: creating src/Makevars ** libs clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c R_meta.cpp -o R_meta.o clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c R_model.cpp -o R_model.o clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c dist_mvn.cpp -o dist_mvn.o clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c em_meta.cpp -o em_meta.o clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c em_mvn.cpp -o em_mvn.o em_mvn.cpp:595:18: warning: unused variable 'status' [-Wunused-variable] int i, k, p, q, status = 0; ^ 1 warning generated. clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c em_mvt.cpp -o em_mvt.o clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c hc_meta.cpp -o hc_meta.o clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c hc_mvn.cpp -o hc_mvn.o clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c immunoClust.c -o immunoClust.o clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c meta_gpa.cpp -o meta_gpa.o clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c meta_norm.cpp -o meta_norm.o clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c meta_scale.cpp -o meta_scale.o clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c normalize.cpp -o normalize.o clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c sub_mvn.cpp -o sub_mvn.o In file included from sub_mvn.cpp:10: ./sub_mvn.h:21:16: warning: private field 'W' is not used [-Wunused-private-field] const double* W; ^ 1 warning generated. clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c util.cpp -o util.o clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c vs_htrans.cpp -o vs_htrans.o clang++ -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o immunoClust.so R_meta.o R_model.o dist_mvn.o em_meta.o em_mvn.o em_mvt.o hc_meta.o hc_mvn.o immunoClust.o meta_gpa.o meta_norm.o meta_scale.o normalize.o sub_mvn.o util.o vs_htrans.o -L/usr/local/lib -lgsl -lgslcblas -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Users/biocbuild/bbs-3.6-bioc/meat/immunoClust.Rcheck/immunoClust/libs ** R ** data ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (immunoClust)
immunoClust.Rcheck/immunoClust-Ex.timings
name | user | system | elapsed | |
cell.ClustData | 1.649 | 0.018 | 1.695 | |
cell.EM | 1.104 | 0.012 | 1.127 | |
cell.FitModel | 1.087 | 0.013 | 1.107 | |
cell.ME | 0.734 | 0.007 | 0.765 | |
cell.SubClustering | 12.221 | 0.070 | 12.448 | |
cell.hclust | 0.005 | 0.001 | 0.006 | |
cell.process | 87.644 | 0.420 | 89.315 | |
cell.removed | 0.015 | 0.003 | 0.019 | |
dat.exp | 1.205 | 0.005 | 1.248 | |
dat.fcs | 91.482 | 0.504 | 93.393 | |
dat.meta | 0.134 | 0.002 | 0.139 | |
immunoClust.object | 0.006 | 0.001 | 0.007 | |
meta.ME | 0.067 | 0.002 | 0.070 | |
meta.SubClustering | 0.123 | 0.005 | 0.129 | |
meta.clustering | 1.189 | 0.005 | 1.238 | |
meta.export | 1.140 | 0.005 | 1.154 | |
meta.exprs | 0.015 | 0.006 | 0.021 | |
meta.hclust | 0.005 | 0.002 | 0.006 | |
meta.normalize | 0.003 | 0.001 | 0.004 | |
meta.plot | 2.585 | 0.049 | 2.683 | |
meta.process | 1.125 | 0.004 | 1.150 | |
meta.regnorm | 0.007 | 0.002 | 0.010 | |
plot.immunoClust | 0.631 | 0.013 | 0.665 | |
splom.immunoClust | 0.995 | 0.016 | 1.035 | |
trans.ApplyToData | 0.061 | 0.002 | 0.062 | |
trans.FitToData | 0.232 | 0.008 | 0.240 | |