Ошибка "lib64 / R / include: нет такого файла или каталога" - PullRequest
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Ошибка "lib64 / R / include: нет такого файла или каталога"

0 голосов
/ 07 мая 2020

Я недавно обновился до R версии 4.0.0. Однако после обновления не удается установить новые пакеты, например «R cpp». В сообщении об ошибке говорилось, что «lib64 / R / include: нет такого файла или каталога». Каталог действительно существовал.

Обновленная версия устанавливается в тот же каталог, что и старая версия с помощью параметра --prefix на шаге configure.

Когда я сталкиваюсь с этой проблемой , Я попробовал и нашел:

  1. переустановка R-4.0.0 в тот же каталог после удаления старой версии. Но сообщение об ошибке все еще существует.
  2. некоторые пакеты имеют ту же проблему, включая testthat.
  3. некоторые пакеты не имеют этой проблемы, могут быть успешно установлены, включая tibble.
  4. вернуться к R версии 3.6.1. Rcpp может быть успешно установлен.

Спасибо! 

> BiocManager::install("Rcpp")
Bioconductor version 3.11 (BiocManager 1.30.10), R 4.0.0 (2020-04-24)
Installing package(s) 'Rcpp'
trying URL 'https://cran.rstudio.com/src/contrib/Rcpp_1.0.4.6.tar.gz'
Content type 'application/x-gzip' length 2751467 bytes (2.6 MB)
==================================================
downloaded 2.6 MB

* installing *source* package 'Rcpp' ...
** package 'Rcpp' successfully unpacked and MD5 sums checked
** using staged installation
** libs
I"/path/to/soft/R/R_soft/lib64/R/include" -DNDEBUG -I../inst/include/  -I/path/to/soft/lib/packages/bzip2-1.0.6/include/ -I/path/to/soft/lib/packages/readline-6.3/include/ -I/path/to/soft/lib/packages/zlib-1.2.8/include/ -I/path/to/soft/lib/packages/curl-7.52.1/include/ -I/path/to/soft/lib/packages/xz-5.2.2/include/ -I/path/to/soft/lib/packages/pcre-8.39/include/ -I/path/to/soft/lib/packages/ncurses-5.8/include/ -I/path/to/soft/lib/packages/pcre2-10.34/include/ -I/path/to/soft/lib/packages/curl-7.52.1/include/     -O3 -mtune=native -march=native -Wno-unused-variable -Wno-unused-function -Wno-macro-redefined -c api.cpp -o api.o
/bin/sh: I/path/to/soft/R/R_soft/lib64/R/include: No such file or directory
make: [api.o] Error 127 (ignored)
I"/path/to/soft/R/R_soft/lib64/R/include" -DNDEBUG -I../inst/include/  -I/path/to/soft/lib/packages/bzip2-1.0.6/include/ -I/path/to/soft/lib/packages/readline-6.3/include/ -I/path/to/soft/lib/packages/zlib-1.2.8/include/ -I/path/to/soft/lib/packages/curl-7.52.1/include/ -I/path/to/soft/lib/packages/xz-5.2.2/include/ -I/path/to/soft/lib/packages/pcre-8.39/include/ -I/path/to/soft/lib/packages/ncurses-5.8/include/ -I/path/to/soft/lib/packages/pcre2-10.34/include/ -I/path/to/soft/lib/packages/curl-7.52.1/include/     -O3 -mtune=native -march=native -Wno-unused-variable -Wno-unused-function -Wno-macro-redefined -c attributes.cpp -o attributes.o
/bin/sh: I/path/to/soft/R/R_soft/lib64/R/include: No such file or directory
make: [attributes.o] Error 127 (ignored)
I"/path/to/soft/R/R_soft/lib64/R/include" -DNDEBUG -I../inst/include/  -I/path/to/soft/lib/packages/bzip2-1.0.6/include/ -I/path/to/soft/lib/packages/readline-6.3/include/ -I/path/to/soft/lib/packages/zlib-1.2.8/include/ -I/path/to/soft/lib/packages/curl-7.52.1/include/ -I/path/to/soft/lib/packages/xz-5.2.2/include/ -I/path/to/soft/lib/packages/pcre-8.39/include/ -I/path/to/soft/lib/packages/ncurses-5.8/include/ -I/path/to/soft/lib/packages/pcre2-10.34/include/ -I/path/to/soft/lib/packages/curl-7.52.1/include/     -O3 -mtune=native -march=native -Wno-unused-variable -Wno-unused-function -Wno-macro-redefined -c barrier.cpp -o barrier.o
/bin/sh: I/path/to/soft/R/R_soft/lib64/R/include: No such file or directory
make: [barrier.o] Error 127 (ignored)
I"/path/to/soft/R/R_soft/lib64/R/include" -DNDEBUG -I../inst/include/  -I/path/to/soft/lib/packages/bzip2-1.0.6/include/ -I/path/to/soft/lib/packages/readline-6.3/include/ -I/path/to/soft/lib/packages/zlib-1.2.8/include/ -I/path/to/soft/lib/packages/curl-7.52.1/include/ -I/path/to/soft/lib/packages/xz-5.2.2/include/ -I/path/to/soft/lib/packages/pcre-8.39/include/ -I/path/to/soft/lib/packages/ncurses-5.8/include/ -I/path/to/soft/lib/packages/pcre2-10.34/include/ -I/path/to/soft/lib/packages/curl-7.52.1/include/     -O3 -mtune=native -march=native -Wno-unused-variable -Wno-unused-function -Wno-macro-redefined -c date.cpp -o date.o
/bin/sh: I/path/to/soft/R/R_soft/lib64/R/include: No such file or directory
make: [date.o] Error 127 (ignored)
I"/path/to/soft/R/R_soft/lib64/R/include" -DNDEBUG -I../inst/include/  -I/path/to/soft/lib/packages/bzip2-1.0.6/include/ -I/path/to/soft/lib/packages/readline-6.3/include/ -I/path/to/soft/lib/packages/zlib-1.2.8/include/ -I/path/to/soft/lib/packages/curl-7.52.1/include/ -I/path/to/soft/lib/packages/xz-5.2.2/include/ -I/path/to/soft/lib/packages/pcre-8.39/include/ -I/path/to/soft/lib/packages/ncurses-5.8/include/ -I/path/to/soft/lib/packages/pcre2-10.34/include/ -I/path/to/soft/lib/packages/curl-7.52.1/include/     -O3 -mtune=native -march=native -Wno-unused-variable -Wno-unused-function -Wno-macro-redefined -c module.cpp -o module.o
/bin/sh: I/path/to/soft/R/R_soft/lib64/R/include: No such file or directory
make: [module.o] Error 127 (ignored)
I"/path/to/soft/R/R_soft/lib64/R/include" -DNDEBUG -I../inst/include/  -I/path/to/soft/lib/packages/bzip2-1.0.6/include/ -I/path/to/soft/lib/packages/readline-6.3/include/ -I/path/to/soft/lib/packages/zlib-1.2.8/include/ -I/path/to/soft/lib/packages/curl-7.52.1/include/ -I/path/to/soft/lib/packages/xz-5.2.2/include/ -I/path/to/soft/lib/packages/pcre-8.39/include/ -I/path/to/soft/lib/packages/ncurses-5.8/include/ -I/path/to/soft/lib/packages/pcre2-10.34/include/ -I/path/to/soft/lib/packages/curl-7.52.1/include/     -O3 -mtune=native -march=native -Wno-unused-variable -Wno-unused-function -Wno-macro-redefined -c rcpp_init.cpp -o rcpp_init.o
/bin/sh: I/path/to/soft/R/R_soft/lib64/R/include: No such file or directory
make: [rcpp_init.o] Error 127 (ignored)
-L/path/to/soft/R/R_soft/lib64/R/lib -L/path/to/soft/lib/packages/xz-5.2.2/lib/ -L/path/to/soft/lib/packages/ncurses-5.8/lib/ -L/path/to/soft/lib/packages/readline-6.3/lib/ -L/path/to/soft/lib/packages/zlib-1.2.8/lib/ -L/path/to/soft/lib/packages/bzip2-1.0.6/lib/ -L/path/to/soft/lib/packages/pcre-8.39/lib/ -L/path/to/soft/lib/packages/pcre2-10.34/lib/ -L/path/to/soft/lib/packages/curl-7.52.1/lib/ -o Rcpp.so api.o attributes.o barrier.o date.o module.o rcpp_init.o -L/path/to/soft/R/R_soft/lib64/R/lib -lR
/bin/sh: line 2: -L/path/to/soft/R/R_soft/lib64/R/lib: No such file or directory
make: *** [Rcpp.so] Error 127
ERROR: compilation failed for package 'Rcpp'
* removing '/path/to/soft/R/R_soft/lib64/R/library/Rcpp'

The downloaded source packages are in
        '/tmp/RtmpM3149V/downloaded_packages'
Updating HTML index of packages in '.Library'
Making 'packages.html' ... done
Old packages: 'KernSmooth', 'MASS', 'boot', 'class', 'foreign', 'nnet',
  'spatial'
Update all/some/none? [a/s/n]: n
Warning message:
In install.packages(...) :
  installation of package 'Rcpp' had non-zero exit status

Информация о системе, указанная ниже: 

> sessionInfo()
R version 4.0.0 (2020-04-24)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Red Hat Enterprise Linux Server release 6.3 (Santiago)

Matrix products: default
BLAS:   /path/to/soft/R/R_soft/lib64/R/lib/libRblas.so
LAPACK: /path/to/soft/R/R_soft/lib64/R/lib/libRlapack.so

locale:
[1] C

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

loaded via a namespace (and not attached):
[1] compiler_4.0.0
...