Wolfgang Kaisers
| Snapshot Date: 2019-03-10 17:02:02 -0400 (Sun, 10 Mar 2019) |
| URL: https://git.bioconductor.org/packages/spliceSites |
| Branch: master |
| Last Commit: 0035a63 |
| Last Changed Date: 2018-10-30 11:54:32 -0400 (Tue, 30 Oct 2018) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-03-11 11:25:42 -0400 (Mon, 11 Mar 2019).
| Package 1518/1676 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| spliceSites 1.31.0 Wolfgang Kaisers
| malbec2 | Linux (Ubuntu 18.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
| Package: spliceSites |
| Version: 1.31.0 |
| Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:spliceSites.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings spliceSites_1.31.0.tar.gz |
| StartedAt: 2019-03-11 06:19:13 -0400 (Mon, 11 Mar 2019) |
| EndedAt: 2019-03-11 06:22:27 -0400 (Mon, 11 Mar 2019) |
| EllapsedTime: 194.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: spliceSites.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:spliceSites.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings spliceSites_1.31.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/spliceSites.Rcheck' * using R Under development (unstable) (2019-01-10 r75962) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'spliceSites/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'spliceSites' version '1.31.0' * 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 whether package 'spliceSites' 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 * 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 ... 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 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 for i386 is not available Note: information on .o files for x64 is not available File 'C:/Users/biocbuild/bbs-3.9-bioc/R/library/spliceSites/libs/i386/spliceSites.dll': Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran) File 'C:/Users/biocbuild/bbs-3.9-bioc/R/library/spliceSites/libs/x64/spliceSites.dll': Found 'abort', possibly from 'abort' (C), 'runtime' (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 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: 1 NOTE See 'C:/Users/biocbuild/bbs-3.9-bioc/meat/spliceSites.Rcheck/00check.log' for details.
spliceSites.Rcheck/00install.out
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### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/spliceSites_1.31.0.tar.gz && rm -rf spliceSites.buildbin-libdir && mkdir spliceSites.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=spliceSites.buildbin-libdir spliceSites_1.31.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL spliceSites_1.31.0.zip && rm spliceSites_1.31.0.tar.gz spliceSites_1.31.0.zip
###
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install for i386
* installing *source* package 'spliceSites' ...
** libs
C:/Rtools/mingw_32/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG -I"C:/extsoft/include" -O3 -Wall -std=gnu99 -mtune=generic -c spliceSites.c -o spliceSites.o
C:/Rtools/mingw_32/bin/gcc -shared -s -static-libgcc -o spliceSites.dll tmp.def spliceSites.o -lm -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/spliceSites.buildbin-libdir/spliceSites/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'spliceSites'
finding HTML links ... done
SpliceCountSet-class html
aaGapSites-class html
addGeneAligns html
addGenomeData-ExpressionSet html
addGenomeData-gapSites html
addHbond html
addMaxEnt html
alt_X_ranks html
annGapSites-class html
annotate-ExpressionSet html
annotation html
as.data.frame-methods html
c-methods html
cRanges-class html
caRanges-class html
cdRanges-class html
countByGeneName html
dim-methods html
dnaGapSites-class html
dnaRanges html
extractByGeneName html
extractRange html
gapSites-class html
gapSites html
getGapSites html
hbond-class html
head-methods html
initialize-methods html
keyProfiler-class html
lrCodons html
maxEnt-class html
merge-methods html
plotGeneAlignDepth html
rangeByGeneName html
readCuffGeneFpkm html
readExpSet html
readMergedBamGaps html
readTabledBamGaps html
seqlogo html
silic_tryp html
sortTable-methods html
spliceSites-package html
trim html
truncateSeq html
truncate_seq html
trypsinCleave html
uniqueJuncAnn html
write.files html
xCodons html
xJunc html
xJuncStrand html
z[-methods html
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing *source* package 'spliceSites' ...
** libs
C:/Rtools/mingw_64/bin/gcc -I"C:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/include" -DNDEBUG -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mtune=generic -c spliceSites.c -o spliceSites.o
C:/Rtools/mingw_64/bin/gcc -shared -s -static-libgcc -o spliceSites.dll tmp.def spliceSites.o -lm -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.9-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.9-bioc/meat/spliceSites.buildbin-libdir/spliceSites/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'spliceSites' as spliceSites_1.31.0.zip
* DONE (spliceSites)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'spliceSites' successfully unpacked and MD5 sums checked
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spliceSites.Rcheck/examples_i386/spliceSites-Ex.timings
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spliceSites.Rcheck/examples_x64/spliceSites-Ex.timings
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