ProCoNA

Package: ProCoNA
Type: Package
Title: Protein co-expression network analysis (ProCoNA).
Version: 1.10.0
Date: 2013-04-28
Author: David L Gibbs
Maintainer: David L Gibbs <gibbsd@ohsu.edu>
Description: Protein co-expression network construction using peptide
level data, with statisical analysis. (Journal of Clinical
Bioinformatics 2013, 3:11 doi:10.1186/2043-9113-3-11)
License: GPL (>= 2)
LazyLoad: yes
Depends: R (>= 2.10), methods, WGCNA, MSnbase, flashClust
Imports: BiocGenerics, GOstats
Suggests: RUnit
biocViews: GraphAndNetwork, Software, Proteomics
NeedsCompilation: no
Packaged: 2016-05-04 05:06:32 UTC; biocbuild

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'ProCoNA' ...
** R
** data
** inst
** preparing package for lazy loading
==========================================================================
*
*  Package WGCNA 1.51 loaded.
*
*    Important note: It appears that your system supports multi-threading,
*    but it is not enabled within WGCNA in R. 
*    To allow multi-threading within WGCNA with all available cores, use 
*
*          allowWGCNAThreads()
*
*    within R. Use disableWGCNAThreads() to disable threading if necessary.
*    Alternatively, set the following environment variable on your system:
*
*          ALLOW_WGCNA_THREADS=<number_of_processors>
*
*    for example 
*
*          ALLOW_WGCNA_THREADS=4
*
*    To set the environment variable in linux bash shell, type 
*
*           export ALLOW_WGCNA_THREADS=4
*
*     before running R. Other operating systems or shells will
*     have a similar command to achieve the same aim.
*
==========================================================================


** help
*** installing help indices
  converting help for package 'ProCoNA'
    finding HTML links ... done
    MMvsPS                                  html  
    MMvsPSallModules                        html  
    ProCoNA_Data                            html  
    accessors                               html  
    bootstrapProconaNetwork                 html  
    buildProconaNetwork                     html  
    c2i                                     html  
    compareNetworksWithFishersExactTest     html  
    compareNetworksWithFishersExactTestProcona
                                            html  
    corBootstrap                            html  
    correlationWithPhenotypesHeatMap        html  
    getFisherMatrix                         html  
    getPeptideNAs                           html  
    goStatTest                              html  
    hclust                                  html  
    i2c                                     html  
    i2col                                   html  
    moduleMemberCorrelations                html  
    modulePhenotypeCorrelations             html  
    orderMatrixIndex                        html  
    peptideConnectivityTest                 html  
    peptideCorrelationTest                  html  
    plotNet                                 html  
    ppiPermTest                             html  
    printNet                                html  
    procona-package                         html  
    proconaNet-class                        html  
    proconaVersionFun                       html  
    runningStats                            html  
    subsetModCors                           html  
    subsetPeptideData                       html  
    toPermTest                              html  
    utri                                    html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
==========================================================================
*
*  Package WGCNA 1.51 loaded.
*
*    Important note: It appears that your system supports multi-threading,
*    but it is not enabled within WGCNA in R. 
*    To allow multi-threading within WGCNA with all available cores, use 
*
*          allowWGCNAThreads()
*
*    within R. Use disableWGCNAThreads() to disable threading if necessary.
*    Alternatively, set the following environment variable on your system:
*
*          ALLOW_WGCNA_THREADS=<number_of_processors>
*
*    for example 
*
*          ALLOW_WGCNA_THREADS=4
*
*    To set the environment variable in linux bash shell, type 
*
*           export ALLOW_WGCNA_THREADS=4
*
*     before running R. Other operating systems or shells will
*     have a similar command to achieve the same aim.
*
==========================================================================


* DONE (ProCoNA)
Making 'packages.html' ... done