ncdfFlow

Package: ncdfFlow
Title: ncdfFlow: A package that provides HDF5 based storage for flow
cytometry data.
Version: 2.18.0
Author: Mike Jiang,Greg Finak,N. Gopalakrishnan
Description: Provides HDF5 storage based methods and functions for
manipulation of flow cytometry data.
Maintainer: Mike Jiang <wjiang2@fhcrc.org>
Depends: R (>= 2.14.0), flowCore (>= 1.37.15), flowViz, RcppArmadillo,
methods, BH
Imports: Biobase, BiocGenerics, flowCore, flowViz, zlibbioc
Suggests: testthat, parallel
License: Artistic-2.0
SystemRequirements: hdf5 (>= 1.8.0)
biocViews: FlowCytometry
Packaged: 2016-05-04 04:18:33 UTC; biocbuild
LinkingTo: Rcpp,RcppArmadillo,BH
NeedsCompilation: yes

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'ncdfFlow' ...
configure: No directory was specified for --with-hdf5. Trying to find hdf5 using pkg-config.
checking for pkg-config... /usr/bin/pkg-config
checking for h5cc... /usr/bin/h5cc
configure: PKG_CPPFLAGS = -I/usr/include/hdf5/serial 
configure: PKG_LIBS = -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5
configure: creating ./config.status
config.status: creating src/Makevars
** libs
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/include/hdf5/serial  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include" -I"/home/ddbj/local/lib64/R/library/BH/include"   -fpic  -g -O2  -c RcppExports.cpp -o RcppExports.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/include/hdf5/serial  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include" -I"/home/ddbj/local/lib64/R/library/BH/include"   -fpic  -g -O2  -c bitOps.cpp -o bitOps.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/include/hdf5/serial  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include" -I"/home/ddbj/local/lib64/R/library/BH/include"   -fpic  -g -O2  -c hdfFlow.c -o hdfFlow.o
gcc -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/include/hdf5/serial  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include" -I"/home/ddbj/local/lib64/R/library/BH/include"   -fpic  -g -O2  -c init.c -o init.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG -I/usr/include/hdf5/serial  -I/usr/local/include -I"/home/ddbj/local/lib64/R/library/Rcpp/include" -I"/home/ddbj/local/lib64/R/library/RcppArmadillo/include" -I"/home/ddbj/local/lib64/R/library/BH/include"   -fpic  -g -O2  -c readFrame.cpp -o readFrame.o
g++ -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o ncdfFlow.so RcppExports.o bitOps.o hdfFlow.o init.o readFrame.o -L/usr/lib/x86_64-linux-gnu/hdf5/serial -lhdf5 -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/ncdfFlow/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'ncdfFlow'
    finding HTML links ... done
    Indices                                 html  
    as.flowSet                              html  
    clone.ncdfFlowSet                       html  
    extractFlowFrame                        html  
    finding level-2 HTML links ... done

    flowSet-accessor                        html  
    getFileName                             html  
    lapply-methods                          html  
    ncdfFlow                                html  
    ncdfFlowList-class                      html  
    ncdfFlowSet-Subset                      html  
    ncdfFlowSet-class                       html  
    ncdfFlowSet-constructor                 html  
    ncdfFlowSet-split                       html  
    ncfsApply-ncdfFlowSet-method            html  
    plot                                    html  
    rbind2-method                           html  
    read.ncdfFlowSet                        html  
    replacement-method-for-ncdfFlowSet      html  
    save_ncfs                               html  
    subset-functions                        html  
    subset-methods                          html  
    unlink-ncdfFlowSet-method               html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (ncdfFlow)
Making 'packages.html' ... done