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Diff for /OpenXM/src/R/r-packages/note.txt between version 1.6 and 1.12

version 1.6, 2016/02/15 07:42:07 version 1.12, 2022/04/06 01:03:42
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 $OpenXM: OpenXM/src/R/r-packages/note.txt,v 1.5 2015/04/05 23:47:46 takayama Exp $  $OpenXM: OpenXM/src/R/r-packages/note.txt,v 1.11 2020/02/06 05:58:17 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()
   
     ??hgm
     ?hgm.ncorthant
   
     remove.packages('hgm')
   
 * 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 43  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 54  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 82  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 88  c<-hgm.p2wishart(m=4,n1=50,n2=100,beta=c(1,2,4,8),q0=0
Line 108  c<-hgm.p2wishart(m=4,n1=50,n2=100,beta=c(1,2,4,8),q0=0
   output is correct.    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)  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    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
   
   
   ;;
   2020.02.06  Installing r-devel
    apt-get install subversion ccache
    apt-get install xorg-dev
    apt-get install libcurl4-openssl-dev
    apt install libpcre2-dev    (2022.04.06  this22/R orange3m)
    pushd ~/this19/R  (for example)
    svn co https://svn.r-project.org/R/trunk r-devel/R
    cd r-devel/R   and follow the INSTALL
    ./configure --without-recommended-packages  --prefix ~/this19/R
    make
    export PATH=~/this19/R/r-devel/R/bin:$PATH
   
   
   Valgrid can be used by
      valgrind ./a.out
   A sample:  main() { int n;  if (n>0) n=0; }
   
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  Added in v.1.12
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