iontree 1.5.0
Mingshu Cao
| Snapshot Date: 2013-03-24 17:01:43 -0700 (Sun, 24 Mar 2013) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/iontree | | Last Changed Rev: 70052 / Revision: 74774 | | Last Changed Date: 2012-10-01 15:43:56 -0700 (Mon, 01 Oct 2012) |
| george2 | Linux (Ubuntu 12.04.1 LTS) / x86_64 | OK | OK | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | OK |
| petty | Mac OS X Leopard (10.5.8) / i386 | OK | [ OK ] | OK |
* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/iontree.Rcheck'
* using R Under development (unstable) (2013-02-26 r62077)
* using platform: x86_64-apple-darwin9.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'iontree/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'iontree' version '1.5.0'
* 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 ... NOTE
Found the following hidden files and directories:
.BBSoptions
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'iontree' can be installed ... [6s/5s] OK
* checking installed package size ... OK
* checking package 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 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 ... OK
* checking Rd files ... NOTE
prepare_Rd: buildIonTree.Rd:18-19: Dropping empty section \details
prepare_Rd: buildIonTree.Rd:20-26: Dropping empty section \value
prepare_Rd: buildIonTree.Rd:27-29: Dropping empty section \references
prepare_Rd: buildIonTree.Rd:37-39: Dropping empty section \seealso
prepare_Rd: createDB.Rd:19-20: Dropping empty section \details
prepare_Rd: createDB.Rd:30-32: Dropping empty section \note
prepare_Rd: createDB.Rd:24-26: Dropping empty section \references
prepare_Rd: createDB.Rd:34-36: Dropping empty section \seealso
prepare_Rd: distMS2.Rd:18-19: Dropping empty section \details
prepare_Rd: distMS2.Rd:20-22: Dropping empty section \value
prepare_Rd: distMS2.Rd:29-31: Dropping empty section \note
prepare_Rd: distMS2.Rd:32-34: Dropping empty section \seealso
prepare_Rd: distMS2.Rd:35-36: Dropping empty section \examples
prepare_Rd: formatSpec.Rd:18-19: Dropping empty section \details
prepare_Rd: formatSpec.Rd:20-22: Dropping empty section \value
prepare_Rd: formatSpec.Rd:29-31: Dropping empty section \note
prepare_Rd: formatSpec.Rd:23-25: Dropping empty section \references
prepare_Rd: formatSpec.Rd:35-37: Dropping empty section \seealso
prepare_Rd: getMSnRaw.Rd:22-23: Dropping empty section \details
prepare_Rd: getMSnRaw.Rd:29-31: Dropping empty section \references
prepare_Rd: getMSnRaw.Rd:39-41: Dropping empty section \seealso
prepare_Rd: getMSnRaw.Rd:42-43: Dropping empty section \examples
prepare_Rd: getMetaInfo.Rd:17-18: Dropping empty section \details
prepare_Rd: getMetaInfo.Rd:19-25: Dropping empty section \value
prepare_Rd: getMetaInfo.Rd:32-34: Dropping empty section \note
prepare_Rd: getMetaInfo.Rd:26-28: Dropping empty section \references
prepare_Rd: getMetaInfo.Rd:36-38: Dropping empty section \seealso
prepare_Rd: getMetaInfo.Rd:39-40: Dropping empty section \examples
prepare_Rd: hasMS2.Rd:18-19: Dropping empty section \details
prepare_Rd: hasMS2.Rd:28-29: Dropping empty section \note
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prepare_Rd: hasMS2.Rd:31-32: Dropping empty section \seealso
prepare_Rd: hasMS2.Rd:33-34: Dropping empty section \examples
prepare_Rd: iontree-class.Rd:30-32: Dropping empty section \references
prepare_Rd: iontree-class.Rd:40-41: Dropping empty section \seealso
prepare_Rd: iontree-package.Rd:32-33: Dropping empty section \seealso
prepare_Rd: iontree-package.Rd:34-35: Dropping empty section \examples
prepare_Rd: metaDataImport.Rd:17-19: Dropping empty section \details
prepare_Rd: metaDataImport.Rd:20-21: Dropping empty section \value
prepare_Rd: metaDataImport.Rd:22-24: Dropping empty section \references
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prepare_Rd: mzImport.Rd:18-19: Dropping empty section \details
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prepare_Rd: plotSpectrum.Rd:26-28: Dropping empty section \details
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prepare_Rd: plotSpectrum.Rd:45-47: Dropping empty section \seealso
prepare_Rd: plotSpectrum.Rd:48-49: Dropping empty section \examples
prepare_Rd: rs2iontree.Rd:16-17: Dropping empty section \details
prepare_Rd: rs2iontree.Rd:27-28: Dropping empty section \note
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prepare_Rd: rs2iontree.Rd:33-34: Dropping empty section \examples
prepare_Rd: saveMSnRaw.Rd:17-19: Dropping empty section \details
prepare_Rd: saveMSnRaw.Rd:20-26: Dropping empty section \value
prepare_Rd: saveMSnRaw.Rd:33-35: Dropping empty section \note
prepare_Rd: saveMSnRaw.Rd:27-29: Dropping empty section \references
prepare_Rd: saveMSnRaw.Rd:36-38: Dropping empty section \seealso
prepare_Rd: searchMS2.Rd:23-25: Dropping empty section \details
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prepare_Rd: topIons.Rd:17-19: Dropping empty section \details
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* 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 sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... [3s/3s] 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK
NOTE: There were 2 notes.
See
'/Users/biocbuild/bbs-2.12-bioc/meat/iontree.Rcheck/00check.log'
for details.
* installing *source* package 'iontree' ...
** R
** inst
** preparing package for lazy loading
Warning: replacing previous import 'show' when loading 'rJava'
Creating a generic function for 'plot' from package 'graphics' in package 'iontree'
** help
*** installing help indices
** building package indices
** installing vignettes
'iontree_doc.Rnw'
** testing if installed package can be loaded
Warning: replacing previous import 'show' when loading 'rJava'
* DONE (iontree)