ASMap

Package: ASMap
Type: Package
Title: Linkage Map Construction using the MSTmap Algorithm
Version: 0.4-7
Date: 2016-06-24
Author: Julian Taylor <julian.taylor@adelaide.edu.au>, David Butler
<david.butler@daff.qld.gov.au>.
Maintainer: Julian Taylor <julian.taylor@adelaide.edu.au>
Suggests: knitr
VignetteBuilder: knitr
Depends: R (>= 2.10), qtl, gtools, fields, RColorBrewer, lattice
Description: Functions for Accurate and Speedy linkage map construction, manipulation and diagnosis of Doubled Haploid, Backcross and Recombinant Inbred 'R/qtl' objects. This includes extremely fast linkage map clustering and optimal marker ordering using 'MSTmap' (see Wu et al.,2008).
License: GPL (>= 2)
NeedsCompilation: yes
Packaged: 2016-06-24 04:44:58 UTC; julian.taylor
Repository: CRAN
Date/Publication: 2016-06-24 09:53:21

Install log

* installing to library '/home/ddbj/local/lib64/R/library'
* installing *source* package 'ASMap' ...
** package 'ASMap' successfully unpacked and MD5 sums checked
** libs
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c MSTOpt.cpp -o MSTOpt.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c genetic_map_DH.cpp -o genetic_map_DH.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c genetic_map_RIL.cpp -o genetic_map_RIL.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c is_number.cpp -o is_number.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c linkage_group_DH.cpp -o linkage_group_DH.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c linkage_group_RIL.cpp -o linkage_group_RIL.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c mst.cpp -o mst.o
g++ -I/home/ddbj/local/lib64/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -c sexp.cpp -o sexp.o
g++ -shared -L/home/ddbj/local/lib64/R/lib -L/usr/local/lib64 -o ASMap.so MSTOpt.o genetic_map_DH.o genetic_map_RIL.o is_number.o linkage_group_DH.o linkage_group_RIL.o mst.o sexp.o -L/home/ddbj/local/lib64/R/lib -lR
installing to /home/ddbj/local/lib64/R/library/ASMap/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'ASMap'
    finding HTML links ... done
    ASMap-internal                          html  
    ASMap-package                           html  
Rd warning: /tmp/RtmpJ8ne8a/R.INSTALL63e434e2a9b9/ASMap/man/ASMap-package.Rd:89: missing file link 'qtl-package'
    alignCross                              html  
    finding level-2 HTML links ... done

    breakCross                              html  
    combineMap                              html  
    fixClones                               html  
    genClones                               html  
    heatMap                                 html  
    mapBC                                   html  
    mapBCu                                  html  
    mapDH                                   html  
    mapDHf                                  html  
    mapF2                                   html  
    mergeCross                              html  
    mstmap.cross                            html  
    mstmap.data.frame                       html  
    pp.init                                 html  
    profileGen                              html  
    profileMark                             html  
    pullCross                               html  
    pushCross                               html  
    quickEst                                html  
    statGen                                 html  
    statMark                                html  
    subsetCross                             html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (ASMap)
Making 'packages.html' ... done