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Last data update: 2014.03.03

NPflow

Package: NPflow
Type: Package
Title: Bayesian Nonparametrics for Automatic Gating of Flow-Cytometry
Data
Version: 0.10.1
Date: 2016-05-03
Authors@R: c(person("Boris P.", "Hejblum", role = c("aut", "cre"),
email = "bhejblum@hsph.harvard.edu"),
person("Chariff", "Alkhassim", role = c("aut"),
email = "chariff.alkhassim@isped.fr"),
person("Francois", "Caron", role = c("aut"),
email = "francois.caron@stats.ox.ac.uk")
)
Maintainer: Boris P. Hejblum <bhejblum@hsph.harvard.edu>
LinkingTo: Rcpp, RcppArmadillo
Depends: R (>= 3.1), Rcpp (>= 0.12.4), truncnorm
Imports: graphics, stats, grDevices, ellipse, fastcluster, gplots,
ggplot2, pheatmap, reshape2
Suggests: foreach, parallel, doParallel, microbenchmark
Description: Dirichlet process mixture of multivariate normal, skew normal or skew t-distributions
modeling oriented towards flow-cytometry data pre-processing applications.
License: LGPL-3 | file LICENSE
BugReports: https://github.com/borishejblum/NPflow/issues
RoxygenNote: 5.0.1
NeedsCompilation: yes
Packaged: 2016-05-03 14:09:37 UTC; borishejblum
Author: Boris P. Hejblum [aut, cre],
Chariff Alkhassim [aut],
Francois Caron [aut]
Repository: CRAN
Date/Publication: 2016-05-03 18:35:17

● 50 images, 68 functions, 0 datasets
● Reverse Depends: 0

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'NPflow' ...
** package 'NPflow' successfully unpacked and MD5 sums checked
** libs
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c FmeasureC.cpp -o FmeasureC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c NuMatParC.cpp -o NuMatParC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c RcppExports.cpp -o RcppExports.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c TraceEpsC.cpp -o TraceEpsC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c lgamma_mvC.cpp -o lgamma_mvC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c mmNiWpdfC.cpp -o mmNiWpdfC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c mmsNiWpdfC.cpp -o mmsNiWpdfC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c mmvnpdfC.cpp -o mmvnpdfC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c mmvsnpdfC.cpp -o mmvsnpdfC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c mmvstpdfC.cpp -o mmvstpdfC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c mmvtpdfC.cpp -o mmvtpdfC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c mvnlikC.cpp -o mvnlikC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c mvnpdfC.cpp -o mvnpdfC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c mvsnlikC.cpp -o mvsnlikC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c mvstlikC.cpp -o mvstlikC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c sampleClassC.cpp -o sampleClassC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c similarityMatC.cpp -o similarityMatC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c similarityMat_nocostC.cpp -o similarityMat_nocostC.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include"   -fpic  -g -O2  -c vclust2mcoclustC.cpp -o vclust2mcoclustC.o
g++ -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o NPflow.so FmeasureC.o NuMatParC.o RcppExports.o TraceEpsC.o lgamma_mvC.o mmNiWpdfC.o mmsNiWpdfC.o mmvnpdfC.o mmvsnpdfC.o mmvstpdfC.o mmvtpdfC.o mvnlikC.o mvnpdfC.o mvsnlikC.o mvstlikC.o sampleClassC.o similarityMatC.o similarityMat_nocostC.o vclust2mcoclustC.o -L/home/ddbj/local/lib64/R/lib -lRlapack -L/home/ddbj/local/lib64/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/NPflow/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'NPflow'
    finding HTML links ... done
    DPMGibbsN                               html  
    DPMGibbsN_SeqPrior                      html  
    DPMGibbsN_parallel                      html  
    DPMGibbsSkewN                           html  
    DPMGibbsSkewN_parallel                  html  
    DPMGibbsSkewT                           html  
    DPMGibbsSkewT_SeqPrior                  html  
    DPMGibbsSkewT_SeqPrior_parallel         html  
    DPMGibbsSkewT_parallel                  html  
    DPMpost                                 html  
    Flimited                                html  
    FmeasureC                               html  
    FmeasureC_no0                           html  
    Fmeasure_costC                          html  
    MAP_sNiW_mmEM                           html  
    MLE_NiW_mmEM                            html  
    MLE_gamma                               html  
    MLE_sNiW                                html  
    MLE_sNiW_mmEM                           html  
    NPflow-package                          html  
    NuMatParC                               html  
    burn.DPMMclust                          html  
    cluster_est_Fmeasure                    html  
    cluster_est_Mbinder_norm                html  
    cluster_est_binder                      html  
    cluster_est_pear                        html  
    cytoScatter                             html  
Rd warning: /tmp/RtmpObNieP/R.INSTALL30381b939984/NPflow/man/cytoScatter.Rd:26: missing file link '+.gg'
    evalClustLoss                           html  
    invwishrnd                              html  
    lgamma_mv                               html  
    methods.summaryDPMMclust                html  
Rd warning: /tmp/RtmpObNieP/R.INSTALL30381b939984/NPflow/man/methods.summaryDPMMclust.Rd:26: missing file link '+.gg'
    mmNiWpdf                                html  
    mmNiWpdfC                               html  
    mmsNiWlogpdf                            html  
    mmsNiWpdfC                              html  
    mmvnpdfC                                html  
    mmvsnpdfC                               html  
    mmvstpdfC                               html  
    mmvtpdfC                                html  
    mvnlikC                                 html  
    mvnpdf                                  html  
    mvnpdfC                                 html  
    mvsnlikC                                html  
    mvsnpdf                                 html  
    mvstlikC                                html  
    mvstpdf                                 html  
    mvtpdf                                  html  
    plot_ConvDPM                            html  
    plot_DPM                                html  
Rd warning: /tmp/RtmpObNieP/R.INSTALL30381b939984/NPflow/man/plot_DPM.Rd:43: missing file link '+.gg'
    plot_DPMsn                              html  
Rd warning: /tmp/RtmpObNieP/R.INSTALL30381b939984/NPflow/man/plot_DPMsn.Rd:30: missing file link '+.gg'
    plot_DPMst                              html  
Rd warning: /tmp/RtmpObNieP/R.INSTALL30381b939984/NPflow/man/plot_DPMst.Rd:30: missing file link '+.gg'
    postProcess.DPMMclust                   html  
    priormix                                html  
    rCRP                                    html  
    rNNiW                                   html  
    rNiW                                    html  
    sampleClassC                            html  
    sample_alpha                            html  
    similarityMat                           html  
    similarityMatC                          html  
    similarityMat_nocostC                   html  
    summary.DPMMclust                       html  
    traceEpsC                               html  
    update_SS                               html  
    update_SSsn                             html  
    update_SSst                             html  
    vclust2mcoclustC                        html  
    wishrnd                                 html  
** building package indices
** testing if installed package can be loaded
* DONE (NPflow)
Making 'packages.html' ... done