CHECK report for RNAdecay on tokay1
This page was generated on 2019-04-13 11:29:15 -0400 (Sat, 13 Apr 2019).
RNAdecay 1.2.1
Reed Sorenson
| Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019) |
| URL: https://git.bioconductor.org/packages/RNAdecay |
| Branch: RELEASE_3_8 |
| Last Commit: 575aadd |
| Last Changed Date: 2019-01-04 13:47:05 -0400 (Fri, 04 Jan 2019) |
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | OK | |  |
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | ERROR | |
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
Summary
Command output
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###
### Running command:
###
### C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:RNAdecay.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings RNAdecay_1.2.1.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.8-bioc/meat/RNAdecay.Rcheck'
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'RNAdecay/DESCRIPTION' ... OK
* this is package 'RNAdecay' version '1.2.1'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
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 whether package 'RNAdecay' can be installed ... OK
* checking installed package size ... NOTE
installed size is 154.0Mb
sub-directories of 1Mb or more:
data 2.7Mb
libs 151.1Mb
* 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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
decay_plot: no visible binding for global variable 'text'
decay_plot: no visible binding for global variable 'x'
decay_plot: no visible binding for global variable 'y'
decay_plot: no visible binding for global variable 't.decay'
decay_plot: no visible binding for global variable 'value'
decay_plot: no visible binding for global variable 'treatment'
Undefined global functions or variables:
t.decay text treatment value x y
Consider adding
importFrom("graphics", "text")
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 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 for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking include directives in Makefiles ... OK
* checking compiled code ... NOTE
Note: information on .o files for i386 is not available
Note: information on .o files for x64 is not available
File 'C:/Users/biocbuild/bbs-3.8-bioc/R/library/RNAdecay/libs/i386/general_Exp_1sse.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
Found 'printf', possibly from 'printf' (C)
File 'C:/Users/biocbuild/bbs-3.8-bioc/R/library/RNAdecay/libs/i386/general_Exp_2sse.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
Found 'printf', possibly from 'printf' (C)
File 'C:/Users/biocbuild/bbs-3.8-bioc/R/library/RNAdecay/libs/i386/general_Exp_3sse.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
Found 'printf', possibly from 'printf' (C)
File 'C:/Users/biocbuild/bbs-3.8-bioc/R/library/RNAdecay/libs/i386/general_Exp_4sse.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
Found 'printf', possibly from 'printf' (C)
File 'C:/Users/biocbuild/bbs-3.8-bioc/R/library/RNAdecay/libs/i386/general_dExp_1sse.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
Found 'printf', possibly from 'printf' (C)
File 'C:/Users/biocbuild/bbs-3.8-bioc/R/library/RNAdecay/libs/i386/general_dExp_2sse.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
Found 'printf', possibly from 'printf' (C)
File 'C:/Users/biocbuild/bbs-3.8-bioc/R/library/RNAdecay/libs/i386/general_dExp_3sse.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
Found 'printf', possibly from 'printf' (C)
File 'C:/Users/biocbuild/bbs-3.8-bioc/R/library/RNAdecay/libs/i386/general_dExp_4sse.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)
Found 'printf', possibly from 'printf' (C)
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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* 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
'C:/Users/biocbuild/bbs-3.8-bioc/meat/RNAdecay.Rcheck/00check.log'
for details.
Installation output
RNAdecay.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.8/bioc/src/contrib/RNAdecay_1.2.1.tar.gz && rm -rf RNAdecay.buildbin-libdir && mkdir RNAdecay.buildbin-libdir && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=RNAdecay.buildbin-libdir RNAdecay_1.2.1.tar.gz && C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD INSTALL RNAdecay_1.2.1.zip && rm RNAdecay_1.2.1.tar.gz RNAdecay_1.2.1.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
37 2724k 37 1024k 0 0 21.0M 0 --:--:-- --:--:-- --:--:-- 22.2M
100 2724k 100 2724k 0 0 27.9M 0 --:--:-- --:--:-- --:--:-- 28.9M
install for i386
* installing *source* package 'RNAdecay' ...
** libs
running 'src/Makefile.win' ...
C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/Rscript --vanilla -e "TMB::compile('general_dExp_1sse.cpp',safebounds=FALSE,safeunload=FALSE)"
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/TMB/include -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/RCPPEI˜1/include -DTMB_LIB_INIT=R_init_general_dExp_1sse -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c general_dExp_1sse.cpp -o general_dExp_1sse.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o general_dExp_1sse.dll tmp.def general_dExp_1sse.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR
[1] 0
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.2.16
Current Matrix version is 1.2.17
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/Rscript --vanilla -e "TMB::compile('general_Exp_1sse.cpp',safebounds=FALSE,safeunload=FALSE)"
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/TMB/include -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/RCPPEI˜1/include -DTMB_LIB_INIT=R_init_general_Exp_1sse -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c general_Exp_1sse.cpp -o general_Exp_1sse.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o general_Exp_1sse.dll tmp.def general_Exp_1sse.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR
[1] 0
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.2.16
Current Matrix version is 1.2.17
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/Rscript --vanilla -e "TMB::compile('general_dExp_2sse.cpp',safebounds=FALSE,safeunload=FALSE)"
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/TMB/include -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/RCPPEI˜1/include -DTMB_LIB_INIT=R_init_general_dExp_2sse -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c general_dExp_2sse.cpp -o general_dExp_2sse.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o general_dExp_2sse.dll tmp.def general_dExp_2sse.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR
[1] 0
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.2.16
Current Matrix version is 1.2.17
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/Rscript --vanilla -e "TMB::compile('general_Exp_2sse.cpp',safebounds=FALSE,safeunload=FALSE)"
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/TMB/include -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/RCPPEI˜1/include -DTMB_LIB_INIT=R_init_general_Exp_2sse -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c general_Exp_2sse.cpp -o general_Exp_2sse.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o general_Exp_2sse.dll tmp.def general_Exp_2sse.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR
[1] 0
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.2.16
Current Matrix version is 1.2.17
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/Rscript --vanilla -e "TMB::compile('general_dExp_3sse.cpp',safebounds=FALSE,safeunload=FALSE)"
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/TMB/include -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/RCPPEI˜1/include -DTMB_LIB_INIT=R_init_general_dExp_3sse -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c general_dExp_3sse.cpp -o general_dExp_3sse.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o general_dExp_3sse.dll tmp.def general_dExp_3sse.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR
[1] 0
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.2.16
Current Matrix version is 1.2.17
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/Rscript --vanilla -e "TMB::compile('general_Exp_3sse.cpp',safebounds=FALSE,safeunload=FALSE)"
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/TMB/include -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/RCPPEI˜1/include -DTMB_LIB_INIT=R_init_general_Exp_3sse -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c general_Exp_3sse.cpp -o general_Exp_3sse.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o general_Exp_3sse.dll tmp.def general_Exp_3sse.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR
[1] 0
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.2.16
Current Matrix version is 1.2.17
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/Rscript --vanilla -e "TMB::compile('general_dExp_4sse.cpp',safebounds=FALSE,safeunload=FALSE)"
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/TMB/include -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/RCPPEI˜1/include -DTMB_LIB_INIT=R_init_general_dExp_4sse -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c general_dExp_4sse.cpp -o general_dExp_4sse.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o general_dExp_4sse.dll tmp.def general_dExp_4sse.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR
[1] 0
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.2.16
Current Matrix version is 1.2.17
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/Rscript --vanilla -e "TMB::compile('general_Exp_4sse.cpp',safebounds=FALSE,safeunload=FALSE)"
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/TMB/include -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/RCPPEI˜1/include -DTMB_LIB_INIT=R_init_general_Exp_4sse -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c general_Exp_4sse.cpp -o general_Exp_4sse.o
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o general_Exp_4sse.dll tmp.def general_Exp_4sse.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/i386 -lR
[1] 0
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.2.16
Current Matrix version is 1.2.17
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
installing to C:/Users/biocbuild/bbs-3.8-bioc/meat/RNAdecay.buildbin-libdir/RNAdecay/libs/i386
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'RNAdecay'
finding HTML links ... done
RPMs html
a_high html
aic html
cols html
comb_cv html
const_decay html
constraint_fun_list_maker html
decay_data html
decay_plot html
fit_var html
group_map html
groupings html
log_lik html
mod_optimization html
models html
n_par html
plain_theme html
results html
sse_null_decaying_decay html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'RNAdecay' ...
** libs
running 'src/Makefile.win' ...
C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/Rscript --vanilla -e "TMB::compile('general_dExp_1sse.cpp',safebounds=FALSE,safeunload=FALSE)"
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/TMB/include -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/RCPPEI˜1/include -DTMB_LIB_INIT=R_init_general_dExp_1sse -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c general_dExp_1sse.cpp -o general_dExp_1sse.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o general_dExp_1sse.dll tmp.def general_dExp_1sse.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR
[1] 0
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.2.16
Current Matrix version is 1.2.17
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/Rscript --vanilla -e "TMB::compile('general_Exp_1sse.cpp',safebounds=FALSE,safeunload=FALSE)"
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/TMB/include -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/RCPPEI˜1/include -DTMB_LIB_INIT=R_init_general_Exp_1sse -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c general_Exp_1sse.cpp -o general_Exp_1sse.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o general_Exp_1sse.dll tmp.def general_Exp_1sse.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR
[1] 0
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.2.16
Current Matrix version is 1.2.17
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/Rscript --vanilla -e "TMB::compile('general_dExp_2sse.cpp',safebounds=FALSE,safeunload=FALSE)"
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/TMB/include -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/RCPPEI˜1/include -DTMB_LIB_INIT=R_init_general_dExp_2sse -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c general_dExp_2sse.cpp -o general_dExp_2sse.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o general_dExp_2sse.dll tmp.def general_dExp_2sse.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR
[1] 0
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.2.16
Current Matrix version is 1.2.17
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/Rscript --vanilla -e "TMB::compile('general_Exp_2sse.cpp',safebounds=FALSE,safeunload=FALSE)"
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/TMB/include -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/RCPPEI˜1/include -DTMB_LIB_INIT=R_init_general_Exp_2sse -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c general_Exp_2sse.cpp -o general_Exp_2sse.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o general_Exp_2sse.dll tmp.def general_Exp_2sse.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR
[1] 0
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.2.16
Current Matrix version is 1.2.17
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/Rscript --vanilla -e "TMB::compile('general_dExp_3sse.cpp',safebounds=FALSE,safeunload=FALSE)"
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/TMB/include -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/RCPPEI˜1/include -DTMB_LIB_INIT=R_init_general_dExp_3sse -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c general_dExp_3sse.cpp -o general_dExp_3sse.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o general_dExp_3sse.dll tmp.def general_dExp_3sse.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR
[1] 0
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.2.16
Current Matrix version is 1.2.17
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/Rscript --vanilla -e "TMB::compile('general_Exp_3sse.cpp',safebounds=FALSE,safeunload=FALSE)"
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/TMB/include -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/RCPPEI˜1/include -DTMB_LIB_INIT=R_init_general_Exp_3sse -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c general_Exp_3sse.cpp -o general_Exp_3sse.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o general_Exp_3sse.dll tmp.def general_Exp_3sse.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR
[1] 0
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.2.16
Current Matrix version is 1.2.17
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/Rscript --vanilla -e "TMB::compile('general_dExp_4sse.cpp',safebounds=FALSE,safeunload=FALSE)"
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/TMB/include -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/RCPPEI˜1/include -DTMB_LIB_INIT=R_init_general_dExp_4sse -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c general_dExp_4sse.cpp -o general_dExp_4sse.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o general_dExp_4sse.dll tmp.def general_dExp_4sse.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR
[1] 0
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.2.16
Current Matrix version is 1.2.17
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/Rscript --vanilla -e "TMB::compile('general_Exp_4sse.cpp',safebounds=FALSE,safeunload=FALSE)"
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/include" -DNDEBUG -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/TMB/include -IC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/library/RCPPEI˜1/include -DTMB_LIB_INIT=R_init_general_Exp_4sse -I"C:/extsoft/include" -O2 -Wall -mtune=generic -c general_Exp_4sse.cpp -o general_Exp_4sse.o
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o general_Exp_4sse.dll tmp.def general_Exp_4sse.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.8-B/R/bin/x64 -lR
[1] 0
Warning message:
In checkMatrixPackageVersion() : Package version inconsistency detected.
TMB was built with Matrix version 1.2.16
Current Matrix version is 1.2.17
Please re-install 'TMB' from source using install.packages('TMB', type = 'source') or ask CRAN for a binary version of 'TMB' matching CRAN's 'Matrix' package
installing to C:/Users/biocbuild/bbs-3.8-bioc/meat/RNAdecay.buildbin-libdir/RNAdecay/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'RNAdecay' as RNAdecay_1.2.1.zip
* DONE (RNAdecay)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.8-bioc/R/library'
package 'RNAdecay' successfully unpacked and MD5 sums checked
In R CMD INSTALL
Tests output
Example timings
|
RNAdecay.Rcheck/examples_i386/RNAdecay-Ex.timings
|
RNAdecay.Rcheck/examples_x64/RNAdecay-Ex.timings
|