Elena Grassi
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/MatrixRider |
| Branch: RELEASE_3_10 |
| Last Commit: 5a13d6f |
| Last Changed Date: 2019-10-29 13:09:12 -0400 (Tue, 29 Oct 2019) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:09:48 -0400 (Wed, 15 Apr 2020).
| Package 963/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| MatrixRider 1.18.0 Elena Grassi
| 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: MatrixRider |
| Version: 1.18.0 |
| Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:MatrixRider.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings MatrixRider_1.18.0.tar.gz |
| StartedAt: 2020-04-15 02:51:27 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 02:56:04 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 276.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: MatrixRider.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:MatrixRider.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings MatrixRider_1.18.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/MatrixRider.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 ‘MatrixRider/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘MatrixRider’ version ‘1.18.0’ * 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 ‘MatrixRider’ 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 ... 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 compiled code ... NOTE Note: information on .o files is not available * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘runTests.R’ 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 ‘/home/biocbuild/bbs-3.10-bioc/meat/MatrixRider.Rcheck/00check.log’ for details.
MatrixRider.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL MatrixRider ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/library’ * installing *source* package ‘MatrixRider’ ... ** using staged installation ** libs gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/S4Vectors/include" -I/usr/local/include -fpic -g -O2 -Wall -c Biostring_stubs.c -o Biostring_stubs.o gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/S4Vectors/include" -I/usr/local/include -fpic -g -O2 -Wall -c CuTest.c -o CuTest.o gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/S4Vectors/include" -I/usr/local/include -fpic -g -O2 -Wall -c R_init_MatrixRider.c -o R_init_MatrixRider.o gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/S4Vectors/include" -I/usr/local/include -fpic -g -O2 -Wall -c RunCuTest.c -o RunCuTest.o gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/S4Vectors/include" -I/usr/local/include -fpic -g -O2 -Wall -c XVector_stubs.c -o XVector_stubs.o gcc -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.10-bioc/R/library/IRanges/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/XVector/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Biostrings/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/S4Vectors/include" -I/usr/local/include -fpic -g -O2 -Wall -c matrix_rider.c -o matrix_rider.o gcc -shared -L/home/biocbuild/bbs-3.10-bioc/R/lib -L/usr/local/lib -o MatrixRider.so Biostring_stubs.o CuTest.o R_init_MatrixRider.o RunCuTest.o XVector_stubs.o matrix_rider.o -L/home/biocbuild/bbs-3.10-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.10-bioc/R/library/00LOCK-MatrixRider/00new/MatrixRider/libs ** R ** inst ** byte-compile and prepare package for lazy loading No methods found in package ‘IRanges’ for request: ‘score’ when loading ‘TFBSTools’ ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location No methods found in package ‘IRanges’ for request: ‘score’ when loading ‘TFBSTools’ ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location No methods found in package ‘IRanges’ for request: ‘score’ when loading ‘TFBSTools’ ** testing if installed package keeps a record of temporary installation path * DONE (MatrixRider)
MatrixRider.Rcheck/tests/runTests.Rout
R version 3.6.3 (2020-02-29) -- "Holding the Windsock"
Copyright (C) 2020 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
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Type 'contributors()' for more information and
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> BiocGenerics:::testPackage("MatrixRider")
No methods found in package 'IRanges' for request: 'score' when loading 'TFBSTools'
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, basename, cbind, colnames, dirname, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
tapply, union, unique, unsplit, which, which.max, which.min
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: 'S4Vectors'
The following object is masked from 'package:base':
expand.grid
Loading required package: IRanges
Loading required package: XVector
Attaching package: 'Biostrings'
The following object is masked from 'package:base':
strsplit
RUNIT TEST PROTOCOL -- Wed Apr 15 02:56:02 2020
***********************************************
Number of test functions: 6
Number of errors: 0
Number of failures: 0
1 Test Suite :
MatrixRider RUnit Tests - 6 test functions, 0 errors, 0 failures
Number of test functions: 6
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
19.216 0.548 19.975
MatrixRider.Rcheck/MatrixRider-Ex.timings
| name | user | system | elapsed | |
| MatrixRider-package | 0.188 | 0.004 | 0.298 | |
| getSeqOccupancy-method | 0.232 | 0.000 | 0.233 | |