Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-04-09 13:25:24 -0400 (Tue, 09 Apr 2019).
Package 1096/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
NuPoP 1.33.0 Ji-Ping Wang
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||
celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |||||||
merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK |
Package: NuPoP |
Version: 1.33.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:NuPoP.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings NuPoP_1.33.0.tar.gz |
StartedAt: 2019-04-09 02:34:13 -0400 (Tue, 09 Apr 2019) |
EndedAt: 2019-04-09 02:35:07 -0400 (Tue, 09 Apr 2019) |
EllapsedTime: 53.7 seconds |
RetCode: 0 |
Status: OK |
CheckDir: NuPoP.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:NuPoP.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings NuPoP_1.33.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/NuPoP.Rcheck’ * using R Under development (unstable) (2018-11-27 r75683) * using platform: x86_64-apple-darwin15.6.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘NuPoP/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘NuPoP’ version ‘1.33.0’ * 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 ‘NuPoP’ can be installed ... OK * checking installed package size ... NOTE installed size is 5.9Mb sub-directories of 1Mb or more: extdata 4.9Mb * 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 plotNuPoP: no visible global function definition for ‘par’ plotNuPoP: no visible global function definition for ‘plot’ plotNuPoP: no visible global function definition for ‘title’ plotNuPoP: no visible global function definition for ‘polygon’ plotNuPoP: no visible global function definition for ‘points’ readNuPoP: no visible global function definition for ‘read.table’ Undefined global functions or variables: par plot points polygon read.table title Consider adding importFrom("graphics", "par", "plot", "points", "polygon", "title") importFrom("utils", "read.table") 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 R/sysdata.rda ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... NOTE Note: information on .o files is not available File ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library/NuPoP/libs/NuPoP.so’: Found ‘__gfortran_st_close’, possibly from ‘close’ (Fortran) Found ‘__gfortran_st_open’, possibly from ‘open’ (Fortran) Found ‘__gfortran_st_read’, possibly from ‘read’ (Fortran) Found ‘__gfortran_st_write’, possibly from ‘write’ (Fortran), ‘print’ (Fortran) Compiled code should not call entry points which might terminate R nor write to stdout/stderr instead of to the console, nor use Fortran I/O nor system RNGs. The detected symbols are linked into the code but might come from libraries and not actually be called. See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual. * checking sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU or elapsed time > 5s user system elapsed NuPoP-package 7.635 0.116 7.838 predNuPoP 7.131 0.091 7.284 readNuPoP 6.436 0.069 6.539 * 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: 3 NOTEs See ‘/Users/biocbuild/bbs-3.9-bioc/meat/NuPoP.Rcheck/00check.log’ for details.
NuPoP.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL NuPoP ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’ * installing *source* package ‘NuPoP’ ... ** libs gfortran -fPIC -Wall -g -O2 -c vtbfb.f90 -o vtbfb.o vtbfb.f90:13:32: character*80 seqName,out1,out2; character*2 tpc 1 Warning: Unused variable ‘out2’ declared at (1) [-Wunused-variable] gfortran -fPIC -Wall -g -O2 -c vtbfbNL4.f90 -o vtbfbNL4.o vtbfbNL4.f90:257:106: if(d>=3) temp=temp*tranL2(w(t-d+1),w(t-d+2),w(t-d+3))*tranL2(c(z-t+1),c(z-t+2),c(z-t+3))/r(t-d+2) 1 Warning: Nonconforming tab character at (1) [-Wtabs] vtbfbNL4.f90:272:13: end if 1 Warning: Nonconforming tab character at (1) [-Wtabs] vtbfbNL4.f90:301:107: if(d>=3) temp=temp*tranL2(w(t-d+1),w(t-d+2),w(t-d+3))*tranL2(c(z-t+1),c(z-t+2),c(z-t+3))/ra(t-d+2) 1 Warning: Nonconforming tab character at (1) [-Wtabs] vtbfbNL4.f90:314:23: tempL=tempL+temp 1 Warning: Nonconforming tab character at (1) [-Wtabs] vtbfbNL4.f90:335:87: if(z-t>=3) rb(t)=rb(t)*tranL2(w(t+1),w(t+2),w(t+3))*tranL2(c(1),c(2),c(3))/rb(t+2) 1 Warning: Nonconforming tab character at (1) [-Wtabs] vtbfbNL4.f90:364:105: if(d>=3) temp=temp*tranL2(w(t+1),w(t+2),w(t+3))*tranL2(c(z-t-d+1),c(z-t-d+2),c(z-t-d+3))/rb(t+2) 1 Warning: Nonconforming tab character at (1) [-Wtabs] vtbfbNL4.f90:15:32: character*80 seqName,out1,out2; character*2 tpc 1 Warning: Unused variable ‘out2’ declared at (1) [-Wunused-variable] gfortran -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 NuPoP.so vtbfb.o vtbfbNL4.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Library/Frameworks/R.framework/Versions/3.6/Resources/library/NuPoP/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 * DONE (NuPoP)
NuPoP.Rcheck/NuPoP-Ex.timings
name | user | system | elapsed | |
NuPoP-package | 7.635 | 0.116 | 7.838 | |
plotNuPoP | 0.073 | 0.005 | 0.079 | |
predNuPoP | 7.131 | 0.091 | 7.284 | |
readNuPoP | 6.436 | 0.069 | 6.539 | |