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Diff for /OpenXM/src/R/r-packages/note.txt between version 1.4 and 1.10

version 1.4, 2015/04/02 00:11:32 version 1.10, 2019/11/16 11:03:43
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 $OpenXM: OpenXM/src/R/r-packages/note.txt,v 1.3 2015/03/24 07:49:06 takayama Exp $  $OpenXM: OpenXM/src/R/r-packages/note.txt,v 1.9 2017/03/22 00:42:56 takayama Exp $
   
 See also OpenXM/src/hgm/note.txt  See also OpenXM/src/hgm/note.txt
   
   * R package build, reference pages.
   https://cran.r-project.org/bin/macosx/tools/
   * Example
     Edit files in src/hgm
     cd R/r-packages
     make rsync
     R CMD INSTALL hgm
     Start R and library(hgm)
     hgm.ncso3()
   
 * C source codes.  * C source codes.
  C sources and headers should be developed and edited in the directory   C sources and headers should be developed and edited in the directory
  OpenXM/src/hgm in order to provide a standalone mode without R   OpenXM/src/hgm in order to provide a standalone mode without R
Line 28  See also OpenXM/src/hgm/note.txt
Line 38  See also OpenXM/src/hgm/note.txt
     R CMD INSTALL hgm      R CMD INSTALL hgm
         R          R
         library(hgm)          library(hgm)
         You can check hgm.so3nc by hand.          You can check hgm.ncso3 by hand.
     R CMD REMOVE hgm      R CMD REMOVE hgm
         It is used to remove the test library.          It is used to remove the test library.
   
Line 39  See also OpenXM/src/hgm/note.txt
Line 49  See also OpenXM/src/hgm/note.txt
    or     or
     R CMD build --binary hgm  (perhaps, obsolete style)      R CMD build --binary hgm  (perhaps, obsolete style)
   
   (5) make copy-web-hgm
      hgm_x.yz.tar.gz
      [cran submit package] search ==> http://cran.r-project.org/submit.html
   
 * Notes.  * Notes.
     library.dynam()   shows a list of shared libraries loaded.      library.dynam()   shows a list of shared libraries loaded.
     dyn.load("hgm.so") can be used to load shared library by hand.      dyn.load("hgm.so") can be used to load shared library by hand.
Line 63  cat >>~/.valgrindrc
Line 77  cat >>~/.valgrindrc
 --track-origins=yes  --track-origins=yes
 ctrl-D  ctrl-D
   
   make clean
 R CMD check hgm --use-valgrind  R CMD check hgm --use-valgrind
 more hgm.Rcheck/hgm-Ex.Rout  more hgm.Rcheck/hgm-Ex.Rout
 Example of an error (Note that there is no error message in *.log)  Example of an error (Note that there is no error message in *.log)
Line 77  Example of an error (Note that there is no error messa
Line 92  Example of an error (Note that there is no error messa
 As to details, search "valgrind" in R-exts.pdf  As to details, search "valgrind" in R-exts.pdf
   
 * R CMD check hgm --use-gct  * R CMD check hgm --use-gct
   
   * Note on building R package: @s/2015/04/05-hgm-r-package-memo.txt
   
   ;;
   2016.02.15  testdata.
   c<-hgm.p2wishart(m=4,n1=50,n2=100,beta=c(1,2,4,8),q0=0.5,q=30,autoplot=1);
     output is wrong.
   c<-hgm.p2wishart(m=4,n1=50,n2=100,beta=c(1,2,4,8),q0=0.5,q=30,err=c(1e-30,1e-10),mode=c(1,1,0))
     output is correct.
   c<-hgm.p2wishart(m=4,n1=50,n2=100,beta=c(1,2,4,8),q0=0.5,q=30,err=c(1e-30,1e-10),autoplot=1)
     crashed, but by commented out todo in mh.c, it works. See @s/2016/02
   
   ;;
   http://kbroman.org/pkg_primer/pages/cran.html
   
   R CMD check hgm --as-cran
   
   
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