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Package 89/514HostnameOS / ArchBUILDCHECKBUILD BIN
ChemmineR 2.6.1
ChemmineR Team
Snapshot Date: 2012-03-23 18:21:46 -0700 (Fri, 23 Mar 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_9/madman/Rpacks/ChemmineR
Last Changed Rev: 61528 / Revision: 64395
Last Changed Date: 2011-12-21 20:50:07 -0800 (Wed, 21 Dec 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK [ OK ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: ChemmineR
Version: 2.6.1
Command: /home/biocbuild/bbs-2.9-bioc/R/bin/R CMD check --no-vignettes --timings ChemmineR_2.6.1.tar.gz
StartedAt: 2012-03-23 23:41:21 -0700 (Fri, 23 Mar 2012)
EndedAt: 2012-03-23 23:43:25 -0700 (Fri, 23 Mar 2012)
EllapsedTime: 123.3 seconds
RetCode: 0
Status:  OK 
CheckDir: ChemmineR.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/ChemmineR.Rcheck’
* using R version 2.14.2 (2012-02-29)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ChemmineR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ChemmineR’ version ‘2.6.1’
* 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 whether package ‘ChemmineR’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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 for unstated 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
.data.frame.to.str: no visible binding for global variable ‘string’
.gen_atom_pair: no visible global function definition for
  ‘Descriptors_get_len’
.gen_atom_pair: no visible global function definition for
  ‘Descriptors_get_descriptor’
.parse: no visible global function definition for ‘Descriptors’
.parse: no visible global function definition for
  ‘Descriptors_parse_sdf’
cmp.parse: no visible global function definition for ‘batch_parse’
cmp.parse1: no visible global function definition for
  ‘delete_Descriptors’
datablock2ma: no visible binding for global variable ‘sdfset’
sdf_to_desc: no visible global function definition for
  ‘delete_Descriptors’
sdfs_to_desc: no visible global function definition for ‘batch_parse’
* 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 examples ... OK
* checking for unstated dependencies in vignettes ... NOTE
‘library’ or ‘require’ calls not declared from:
  ‘gplots’ ‘scatterplot3d’
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

ChemmineR.Rcheck/00install.out:

* installing *source* package ‘ChemmineR’ ...
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for ‘plot’ from package ‘graphics’ in package ‘ChemmineR’
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘ChemmineR.Rnw’ 
** testing if installed package can be loaded

* DONE (ChemmineR)

ChemmineR.Rcheck/ChemmineR-Ex.timings:

nameusersystemelapsed
AP-class12.256 0.07612.538
APset-class12.149 0.04812.292
SDF-class0.0760.0000.077
SDF2apcmp0.0280.0000.026
SDFset-class0.8040.0200.822
SDFset2SDF0.1560.0160.171
SDFset2list0.0760.0280.104
SDFstr-class0.4400.0000.438
ap11.901 0.02412.029
apset0.0040.0040.012
apset2descdb12.097 0.08012.410
atomblock0.3800.0120.395
atomcount0.4400.0040.478
atomprop0.0040.0000.005
atomsubset0.0480.0040.050
bondblock0.4200.0000.444
bonds0.0600.0040.071
cid1.3320.0001.375
cluster.sizestat0.7920.0040.814
cluster.visualize0.9760.0081.004
cmp.cluster1.8200.0121.862
cmp.duplicated0.0680.0000.069
cmp.parse0.0400.0000.041
cmp.parse1000
cmp.search0.9560.0040.967
cmp.similarity0.0320.0000.030
conMA0.0800.0080.088
datablock0.6920.0000.694
datablock2ma0.0560.0000.056
db.explain0.0760.0000.077
db.subset0.0040.0000.007
fp2bit0.9160.0360.992
fpSim0.880.020.90
getIds0.0000.0000.001
grepSDFset0.0760.0000.078
groups0.2040.0040.209
header0.2400.0000.271
makeUnique0.0480.0000.049
plotStruc0.4200.0000.423
pubchemFPencoding0.0000.0040.004
read.SDFset0.8560.0040.867
read.SDFstr1.2680.0041.273
rings0.7730.0040.775
sdf.subset000
sdf.visualize0.0240.0040.027
sdf2ap12.452 0.06412.531
sdf2list0.0320.0080.040
sdf2smiles000
sdf2str0.0400.0080.045
sdfid0.0360.0000.038
sdfsample0.0720.0000.074
sdfstr2list0.8440.2561.103
searchSim000
searchString0.0000.0000.001
smiles2sdf000
validSDF0.0440.0000.045
view2.4530.0122.489
write.SDF0.3440.0000.344