- miniCRANを使えばオフラインインストールは簡単らしい。→うまくかない。
https://cran.r-project.org/web/packages/miniCRAN/vignettes/miniCRAN-introduction.html
https://blog.recyclebin.jp/archives/4587
install.packages("devtools")
https://stackoverflow.com/questions/45318188/getting-error-in-function-igraph-write-graph-graphml-while-installing-igrap
install.packages("miniCRAN")
- そこで、以下根性で一つ一つ（ポイントはＲ程度の古い版のpackageをひたすら使うことR3.0.2だと2012年くらい）
- ソースを集める
wget https://cran.r-project.org/src/contrib/rstan_2.17.3.tar.gz wget https://cran.r-project.org/src/contrib/ggplot2_2.2.1.tar.gz wget https://cran.r-project.org/src/contrib/StanHeaders_2.17.2.tar.gz wget https://cran.r-project.org/src/contrib/inline_0.3.14.tar.gz wget https://cran.r-project.org/src/contrib/gridExtra_2.3.tar.gz wget https://cran.r-project.org/src/contrib/Rcpp_0.12.15.tar.gz wget https://cran.r-project.org/src/contrib/gtable_0.2.0.tar.gz
-
- Rのバージョンの問題で最新なのはだめなので(R3.0.2)、古いバージョンをダウンロード
wget https://cran.r-project.org/src/contrib/Archive/ggplot2/ggplot2_0.9.3.1.tar.gz
-
- ggplot用のライブラリのソースを取得
wget https://cran.r-project.org/src/contrib/digest_0.6.15.tar.gz # wget https://cran.r-project.org/src/contrib/plyr_1.8.4.tar.gz # wget https://cran.r-project.org/src/contrib/reshape2_1.4.3.tar.gz # wget https://cran.r-project.org/src/contrib/scales_0.5.0.tar.gz # R3,0.2 用に古いバージョンが必要 wget https://cran.r-project.org/src/contrib/Archive/plyr/plyr_1.7.1.tar.gz wget https://cran.r-project.org/src/contrib/Archive/reshape2/reshape2_1.2.1.tar.gz wget https://cran.r-project.org/src/contrib/stringr_1.2.0.tar.gz wget http://www.mini.pw.edu.pl/~gagolews/stringi/icudt55l.zip wget https://cran.r-project.org/src/contrib/magrittr_1.5.tar.gz wget https://cran.r-project.org/web/packages/magrittr/index.html wget https://cran.r-project.org/src/contrib/magrittr_1.5.tar.gz wget https://cran.r-project.org/src/contrib/RColorBrewer_1.1-2.tar.gz wget https://cran.r-project.org/src/contrib/dichromat_2.0-0.tar.gz wget https://cran.r-project.org/src/contrib/munsell_0.4.3.tar.gz wget https://cran.r-project.org/src/contrib/labeling_0.3.tar.gz wget https://cran.r-project.org/src/contrib/R6_2.2.2.tar.gz wget https://cran.r-project.org/src/contrib/viridisLite_0.3.0.tar.gz wget https://cran.r-project.org/src/contrib/Archive/digest/digest_0.6.1.tar.gz
- ソースを送り込む
scp ggplot*.tar.gz xxx@yyy: scp ggplot*.tar.gz xxx@yy: scp ggplot*.tar.gz xxx@yy: scp Stan*.tar.gz xxx@yy: scp inline*.tar.gz xxx@yy: scp gridExtra*.tar.gz xxx@yy: scp gRcpp*.tar.gz xxx@yy: scp Rcpp*.tar.gz xxx@yy: scp gtable*.tar.gz xxx@yy: scp stringr*.tar.gz xxx@yy: scp stringi* xxx@yy: scp icudt55l.zip* xxx@yy: scp magrittr_1.5.tar.gz xxx@yy; scp reshape2_1.2.1.tar.gz xxx@yy: scp stringer*.tar.gz xxx@yy: scp stringr*.tar.gz xxx@yy: scp stringr*.tar.gz xxx@yy: scp stringi*.tar.gz xxx@yy: scp icudt551.zip xxx@yy: scp icudt55l.zip xxx@yy: scp icudt55l.zip xxx@yy: scp magrittr_1.5.tar.gz xxx@yy: scp RColorBrewer.tar.gz xxx@yy: scp RColorBrewer*.tar.gz xxx@yy: scp dichromat*.tar.gz xxx@yy: scp munsell*.tar.gz xxx@yy: scp labeling*.tar.gz xxx@yy: scp Rcpp*.tar.gz xxx@yy: scp R6*.tar.gz xxx@yy: scp viridisLite*.tar.gz xxx@yy: scp dichromat*.tar.gz xxx@yy: scp colorspace*.tar.gz xxx@yy: scp digest*.tar.gz xxx@yy: scp digest*.tar.gz xxx@yy:
ERROR: dependency ‘gtable’ is not available for package ‘gridExtra’
‘digest’, ‘gtable’, ‘plyr’, ‘reshape2’, ‘scales’
-
- gplot2関連
scp dige*.tar.gz xxx@yyy: scp plyr*.tar.gz xxx@yyy: scp reshape2*.tar.gz xxx@yyy: scp scales*.tar.gz xxx@yyy:
- リモートのＲの画面で
install.packages("inline_0.3.14.tar.gz",repos=NULL,type="source") install.packages("StanHeaders_2.17.2.tar.gz",repos=NULL,type="source") install.packages("Rcpp_0.12.15.tar.gz",repos=NULL,type="source") install.packages("Rcpp_0.12.15.tar.gz",repos=NULL,type="source") install.packages("gtable_0.2.0.tar.gz", repos = NULL, type = "source") install.packages("gridExtra_2.3.tar.gz", repos = NULL, type = "source")
ggplotは古い版をつかっている
install.packages("plyr_1.7.1.tar.gz", repos = NULL, type = "source") install.packages("stringi_1.1.6.tar.gz", repos = NULL, type = "source") install.packages("stringi_1.1.6.tar.gz", repos = NULL, type = "source",configure.vars="ICUDT_DIR=[dir]") install.packages("magrittr_1.5.tar.gz", repos = NULL, type = "source") install.packages("stringr_1.2.0.tar.gz", repos = NULL, type = "source") install.packages("reshape2_1.2.1.tar.gz", repos = NULL, type = "source") install.packages("gtable_0.2.0.tar.gz", repos = NULL, type = "source") install.packages("RColorBrewer_1.1-2.tar.gz", repos = NULL, type = "source") install.packages("dichromat_2.0-0.tar.gz ", repos = NULL, type = "source") install.packages("colorspace_1.3-2.tar.gz", repos = NULL, type = "source") install.packages("munsell_0.4.3.tar.gz", repos = NULL, type = "source") install.packages("labeling_0.3.tar.gz", repos = NULL, type = "source") install.packages("R6_2.2.2.tar.gz", repos = NULL, type = "source") install.packages("viridisLite_0.3.0.tar.gz", repos = NULL, type = "source") install.packages("scales_0.5.0.tar.gz", repos = NULL, type = "source") install.packages("digest_0.6.1.tar.gz", repos = NULL, type = "source") #ggplot2.00系ではうまくいかないのでggplot1.00系へ それにともないgrstan2.8.2系 install.packages("proto_1.0.0.tar.gz", repos = NULL, type = "source") install.packages("BH_1.65.0-1.tar.gz", repos = NULL, type = "source") install.packages("Rcpp_0.10.2.tar.gz", repos = NULL, type = "source",INSTALL_opts = c('--no-lock')) install.packages("RcppEigen_0.3.3.4.0.tar.gz", repos = NULL, type = "source") install.packages("Rcpp", dependencies=TRUE, INSTALL_opts = c('--no-lock')) install.packages("Rcpp_0.9.6.tar.gz", repos = NULL, type = "source",INSTALL_opts = c('--no-lock')) install.packages("rstan_2.8.2.tar.gz", repos = NULL, type = "source")
stringi が icudt55l.zip を求めるので、それをアップロードし、ディレクトリを伝える必要がある。
checking whether we can fetch icudt... downloading the ICU data library (icudt)
output path: icu55/data/icudt55l.zip
Error in download.file(paste(href, fname, sep = ""), icudtzipfname, mode = "wb"): unsupported URL scheme
trying URL 'http://www.mini.pw.edu.pl/~gagolews/stringi/icudt55l.zip'
Error in download.file(paste(href, fname, sep = ""), icudtzipfname, mode = "wb"): cannot open URL 'http://www.mini.pw.edu.pl/~gagolews/stringi/icudt55l.zip'
trying URL 'http://www.ibspan.waw.pl/~gagolews/stringi/icudt55l.zip'
-
- gplotの依存関係がわからない場合は、ソース内のdiscription ファイルを確認
Package: ggplot2 Version: 2.0.0 Authors@R: c( person("Hadley", "Wickham", , "hadley@rstudio.com", c("aut", "cre")), person("Winston", "Chang", , "winston@rstudio.com", "aut"), person("RStudio", role = "cph") ) Title: An Implementation of the Grammar of Graphics Description: An implementation of the grammar of graphics in R. It combines the advantages of both base and lattice graphics: conditioning and shared axes are handled automatically, and you can still build up a plot step by step from multiple data sources. It also implements a sophisticated multidimensional conditioning system and a consistent interface to map data to aesthetic attributes. See http://ggplot2.org for more information, documentation and examples. Depends: R (>= 2.14) Imports: digest, grid, gtable (>= 0.1.1), MASS, plyr (>= 1.7.1), reshape2, scales (>= 0.3.0), stats
install.packages("stringi", configure.args="--disable-pkg-config")
> install.packages("scales_0.5.0.tar.gz", repos = NULL, type = "source")
Installing package into ‘/home1/h-wata/R/x86_64-unknown-linux-gnu-library/3.0’
(as ‘lib’ is unspecified)
ERROR: dependencies ‘RColorBrewer’, ‘dichromat’, ‘munsell’, ‘labeling’, ‘R6’, ‘viridisLite’ are not available for package ‘scales’
Imports: methods, stats4, inline, gridExtra (>= 2.0.0), Rcpp (>=
0.11.0)
2 or later, as is the rest of Rcpp.
License: GPL (>= 2)
Depends: Rcpp (>= 0.9.6), Matrix (>= 1.0-1), R(>= 2.14.0)
LazyLoad: yes
LinkingTo: Rcpp
icpc -I/ap1/r/3.0.2/lib64/R/include -DNDEBUG -I/usr/local/include -I"/home1/h-wata/R/x86_64-unknown-linux-gnu-library/3.0/Rcpp/include" -I../inst/include -fpic -O3 -ipo -openmp -xHost -c fastLm.cpp -o fastLm.o
install.packages("RcppEigen_0.3.3.4.0.tar.gz", repos = NULL, type = "source")
../inst/include/Eigen/src/Jacobi/Jacobi.h(456): error: expression must have a constant value
c++ -I/ap1/r/3.0.2/lib64/R/include -DNDEBUG -I/usr/local/include -I"/home1/h-wata/R/x86_64-unknown-linux-gnu-library/3.0/Rcpp/include" -I../inst/include -fpic -O3 -openmp -c fastLm.cpp -o fastLm.o
https://github.com/stan-dev/rstan/wiki/Installing-RStan-on-Mac-or-Linux#configuration
https://stackoverflow.com/questions/1616983/building-r-packages-using-alternate-gcc
インテルコンパイラが悪さしていて、さらに、xHost フラグがわるさしてる
https://stackoverflow.com/questions/43597632/understanding-the-contents-of-the-makevars-file-in-r-macros-variables-r-ma
CRPP0.10.0 じゃないとバグがでるらしい。ＲＣＰＰはインテルコンパイラ
https://support.bioconductor.org/p/49516/
install.packages("Rcpp_0.3.1.tar.gz", repos = NULL, type = "source",INSTALL_opts = c('--no-lock'))
バージョンさげると… インテルコンパイラに戻す必要あり
Error: package ‘Rcpp’ 0.10.0 was found, but >= 0.12.0 is required by ‘rstan’
boostがおかしいとかいわれる
https://github.com/stan-dev/rstan/issues/447#issuecomment-325172186 を参考に
/home1/h-wata/R/x86_64-unknown-linux-gnu-library/3.0/BH/include/boost/phoenix/core/limits.hpp(44): warning #47: incompatible redefinition of macro "BOOST_PHOENIX_NO_VARIADIC_EXPRESSION"
# define BOOST_PHOENIX_NO_VARIADIC_EXPRESSION
out further notice at a future date. Please use a non-deprecated interface with equivalent functionality instead. For a listing of replacement headers and interfaces, consult the file backward_warning.h. To disable this warning use -Wno-deprecated.
#warning \
^
make: *** [lang__grammars__term_grammar_inst.o] Error 2
https://github.com/stan-dev/rstan/issues/210
NeedsCompilation: yes
Imports: methods, stats4, inline, gridExtra (>= 2.0.0), Rcpp (>=
0.11.0)
Depends: R (>= 3.0.2), ggplot2 (>= 1.0.0)
LinkingTo: Rcpp, RcppEigen, BH (>= 1.58), StanHeaders (>= 2.8.0)
Suggests: RUnit, RcppEigen, BH (>= 1.58), StanHeaders (>= 2.8.0),
> install.packages("StanHeaders_2.8.0.tar.gz", repos = NULL, type = "source")
compilation aborted for lang__ast_def.cpp (code 2)
make: *** [lang__ast_def.o] Error 2
