BioC 2.13: CHECK report for NetSAM on moscato1
This page was generated on 2014-04-05 09:51:23 -0700 (Sat, 05 Apr 2014).
NetSAM 1.2.1 Jing Wang
Snapshot Date: 2014-04-04 16:20:29 -0700 (Fri, 04 Apr 2014) | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_13/madman/Rpacks/NetSAM | Last Changed Rev: 86582 / Revision: 88450 | Last Changed Date: 2014-02-19 09:11:46 -0800 (Wed, 19 Feb 2014) |
| zin1 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | OK | OK | |
moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | [ OK ] | OK |
perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | OK |
Summary
Package: NetSAM
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Version: 1.2.1
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Command: rm -rf NetSAM.buildbin-libdir && mkdir NetSAM.buildbin-libdir && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=NetSAM.buildbin-libdir NetSAM_1.2.1.tar.gz >NetSAM-install.out 2>&1 && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD check --library=NetSAM.buildbin-libdir --install="check:NetSAM-install.out" --force-multiarch --no-vignettes --timings NetSAM_1.2.1.tar.gz && mv NetSAM.buildbin-libdir/* NetSAM.Rcheck/ && rmdir NetSAM.buildbin-libdir
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StartedAt: 2014-04-05 05:28:24 -0700 (Sat, 05 Apr 2014)
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EndedAt: 2014-04-05 05:29:58 -0700 (Sat, 05 Apr 2014)
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EllapsedTime: 94.6 seconds
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RetCode: 0
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Status: OK
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CheckDir: NetSAM.Rcheck
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Warnings: 0
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Command output
* using log directory 'D:/biocbld/bbs-2.13-bioc/meat/NetSAM.Rcheck'
* using R version 3.0.3 (2014-03-06)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'NetSAM/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'NetSAM' version '1.2.1'
* 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 'NetSAM' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
'methods'
A package should be listed in only one of these fields.
* 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 ... NOTE
'library' or 'require' call to 'methods' which was already attached by Depends.
Please remove these calls from your code.
Package in Depends field not imported from: 'igraph'
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
':::' call which should be '::': 'igraph:::degree'
See the note in ?`:::` about the use of this operator.
See the information on DESCRIPTION files in the chapter 'Creating R
packages' of the 'Writing R Extensions' manual.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
File 'NetSAM/R/zzz.R':
.onLoad calls:
cat("******************************************\n")
cat("* *\n")
cat("* Welcome to use NetSAM ! *\n")
cat("* *\n")
cat("******************************************\n")
require(methods)
Package startup functions should not change the search path.
Package startup functions should use 'packageStartupMessage' to
generate messages.
See section 'Good practice' in '?.onAttach'.
* 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 installed files from 'inst/doc' ... NOTE
The following files should probably not be installed:
'underscore.sty'
Consider the use of a .Rinstignore file: see 'Writing R Extensions',
or move the vignette sources from 'inst/doc' to 'vignettes'.
* checking for old-style vignette sources ... NOTE
Vignette sources only in 'inst/doc':
'NetSAM.Rnw'
A 'vignettes' directory will be required as from R 3.1.0
* checking examples ...
** running examples for arch 'i386' ... [8s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
NetSAM 6.42 0.06 6.52
** running examples for arch 'x64' ... [10s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
NetSAM 7.99 0.03 8.14
* checking for unstated dependencies in tests ... OK
* checking tests ...
** running tests for arch 'i386'
Running 'runTests.R' [9s]
[9s] OK
** running tests for arch 'x64'
Running 'runTests.R' [10s]
[10s] 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
NOTE: There were 5 notes.
See
'D:/biocbld/bbs-2.13-bioc/meat/NetSAM.Rcheck/00check.log'
for details.
NetSAM.Rcheck/00install.out:
install for i386
* installing *source* package 'NetSAM' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
******************************************
* *
* Welcome to use NetSAM ! *
* *
******************************************
install for x64
* installing *source* package 'NetSAM' ...
** testing if installed package can be loaded
******************************************
* *
* Welcome to use NetSAM ! *
* *
******************************************
* MD5 sums
packaged installation of 'NetSAM' as NetSAM_1.2.1.zip
* DONE (NetSAM)
NetSAM.Rcheck/examples_i386/NetSAM-Ex.timings:
name | user | system | elapsed
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NetSAM | 6.42 | 0.06 | 6.52 |
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NetSAM.Rcheck/examples_x64/NetSAM-Ex.timings:
name | user | system | elapsed
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NetSAM | 7.99 | 0.03 | 8.14 |
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