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Package 86/462HostnameOS / ArchBUILDCHECKBUILD BIN
ChemmineR 2.5.0
ChemmineR Team
Snapshot Date: 2011-05-09 07:20:56 -0700 (Mon, 09 May 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ChemmineR
Last Changed Rev: 54802 / Revision: 55359
Last Changed Date: 2011-04-13 15:36:43 -0700 (Wed, 13 Apr 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK [ OK ]
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: ChemmineR
Version: 2.5.0
Command: /home/biocbuild/bbs-2.9-bioc/R/bin/R CMD check --no-vignettes --timings ChemmineR_2.5.0.tar.gz
StartedAt: 2011-05-09 11:55:49 -0700 (Mon, 09 May 2011)
EndedAt: 2011-05-09 11:58:14 -0700 (Mon, 09 May 2011)
EllapsedTime: 145.2 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 2.14.0 Under development (unstable) (2011-04-18 r55504)
* 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 ‘2.5.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space 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 new generic function for "plot" in "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-class17.105 0.06817.252
APset-class17.013 0.05617.290
SDF-class0.0800.0080.085
SDF2apcmp0.0280.0000.029
SDFset-class0.9360.0080.947
SDFset2SDF0.2840.0080.291
SDFset2list0.1000.0080.106
SDFstr-class0.4360.0000.437
ap16.889 0.00416.965
apset0.0080.0000.011
apset2descdb17.169 0.04017.373
atomblock0.3440.0120.361
atomcount0.4360.0000.453
atomprop0.0040.0000.005
bondblock0.3480.0080.357
cid2.0200.0002.049
cluster.sizestat0.8000.0080.807
cluster.visualize0.9400.0080.947
cmp.cluster1.9040.0081.938
cmp.duplicated0.0600.0040.066
cmp.parse0.0360.0000.036
cmp.parse1000
cmp.search1.0160.0081.049
cmp.similarity0.0320.0000.034
conMA0.0800.0080.088
datablock0.6640.0080.703
datablock2ma0.0480.0000.051
db.explain0.0640.0040.069
db.subset0.0080.0000.008
fp2bit0.9210.0320.951
fpSim0.9160.0320.952
getIds000
grepSDFset0.0880.0000.093
header0.3680.0000.369
makeUnique0.0440.0000.045
plotStruc0.3720.0000.371
pubchemFPencoding0.0040.0000.004
read.SDFset0.8840.0000.885
read.SDFstr1.3760.0001.376
sdf.subset000
sdf.visualize0.0320.0000.030
sdf2ap17.521 0.05217.723
sdf2list0.0360.0000.038
sdf2smiles000
sdf2str0.0360.0000.041
sdfid0.0440.0040.049
sdfsample0.1000.0000.099
sdfstr2list0.9200.1921.142
searchSim000
searchString000
smiles2sdf000
validSDF0.1240.0000.123
view3.5040.0083.570
write.SDF0.4600.0000.458