knitr установка в R, ошибка

Я борюсь Еще один день с установкой knitr, и я не могу прийти с новыми решениями. Последнее я удалил knitr и попытался установить его снова. Ниже приведена целая консоль из процесса, что не так ???? Я получил сообщение об ошибке (см. Ниже), которое появляется каждый раз, когда я запускаю студию R и устанавливаю новые пакеты.knitr установка в R, ошибка

R version 3.1.2 (2014-10-31) -- "Pumpkin Helmet" 
    Copyright (C) 2014 The R Foundation for Statistical Computing 
    Platform: i386-w64-mingw32/i386 (32-bit) 

    R is free software and comes with ABSOLUTELY NO WARRANTY. 
    You are welcome to redistribute it under certain conditions. 
    Type 'license()' or 'licence()' for distribution details. 

    R is a collaborative project with many contributors. 
    Type 'contributors()' for more information and 
    'citation()' on how to cite R or R packages in publications. 

    Type 'demo()' for some demos, 'help()' for on-line help, or 
    'help.start()' for an HTML browser interface to help. 
    Type 'q()' to quit R. 

    [Workspace loaded from ~/2016/KNUTSTORP/.RData] 

    > install.packages("knitr") 
    Installing package into ‘\\xxxxx.xxxxx/users/Eke/mali/Documents/R/win-library/3.1’ 
    (as ‘lib’ is unspecified) 
    also installing the dependencies ‘mime’, ‘stringi’, ‘magrittr’, ‘evaluate’, ‘digest’, ‘formatR’, ‘highr’, ‘markdown’, ‘stringr’, ‘yaml’ 

    trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.1/mime_0.4.zip' 
    Content type 'application/zip' length 37255 bytes (36 Kb) 
    opened URL 
    downloaded 36 Kb 

    trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.1/stringi_1.0-1.zip' 
    Content type 'application/zip' length 14266706 bytes (13.6 Mb) 
    opened URL 
    downloaded 13.6 Mb 

    trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.1/magrittr_1.5.zip' 
    Content type 'application/zip' length 152098 bytes (148 Kb) 
    opened URL 
    downloaded 148 Kb 

    trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.1/evaluate_0.9.zip' 
    Content type 'application/zip' length 42030 bytes (41 Kb) 
    opened URL 
    downloaded 41 Kb 

    trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.1/digest_0.6.9.zip' 
    Content type 'application/zip' length 171597 bytes (167 Kb) 
    opened URL 
    downloaded 167 Kb 

    trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.1/formatR_1.3.zip' 
    Content type 'application/zip' length 52426 bytes (51 Kb) 
    opened URL 
    downloaded 51 Kb 

    trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.1/highr_0.5.1.zip' 
    Content type 'application/zip' length 35546 bytes (34 Kb) 
    opened URL 
    downloaded 34 Kb 

    trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.1/markdown_0.7.7.zip' 
    Content type 'application/zip' length 165447 bytes (161 Kb) 
    opened URL 
    downloaded 161 Kb 

    trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.1/stringr_1.0.0.zip' 
    Content type 'application/zip' length 83256 bytes (81 Kb) 
    opened URL 
    downloaded 81 Kb 

    trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.1/yaml_2.1.13.zip' 
    Content type 'application/zip' length 180080 bytes (175 Kb) 
    opened URL 
    downloaded 175 Kb 

    trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.1/knitr_1.12.3.zip' 
    Content type 'application/zip' length 811552 bytes (792 Kb) 
    opened URL 
    downloaded 792 Kb 

    package ‘mime’ successfully unpacked and MD5 sums checked 
    package ‘stringi’ successfully unpacked and MD5 sums checked 
    package ‘magrittr’ successfully unpacked and MD5 sums checked 
    package ‘evaluate’ successfully unpacked and MD5 sums checked 
    package ‘digest’ successfully unpacked and MD5 sums checked 
    package ‘formatR’ successfully unpacked and MD5 sums checked 
    package ‘highr’ successfully unpacked and MD5 sums checked 
    package ‘markdown’ successfully unpacked and MD5 sums checked 
    package ‘stringr’ successfully unpacked and MD5 sums checked 
    package ‘yaml’ successfully unpacked and MD5 sums checked 
    package ‘knitr’ successfully unpacked and MD5 sums checked 

    The downloaded binary packages are in 
     C:\Users\mali\AppData\Local\Temp\RtmpwHvHGn\downloaded_packages 
    Error: invalid version specification ‘NA’ 
    In addition: Warning message: 
    In utils:::packageDescription(packageName, fields = "Version") : 
     no package 'knitr' was found

Выход version

> version 

platform  i386-w64-mingw32    
arch   i386       
os    mingw32      
system   i386, mingw32    
status          
major   3       
minor   1.2       
year   2014       
month   10       
day   31       
svn rev  66913      
language  R       
version.string R version 3.1.2 (2014-10-31) 
nickname  Pumpkin Helmet

Как было рекомендовано, я открыл новую сессию. Но Ошибка все тот же. Я проверил несколько других пакетов, и они прекрасно работают (т.е. nlme, lme4)

Type 'demo()' for some demos, 'help()' for on-line help, or 
'help.start()' for an HTML browser interface to help. 
Type 'q()' to quit R. 

Error: invalid version specification ‘NA’ 
In addition: Warning message: 
In utils:::packageDescription(packageName, fields = "Version") : 
    no package 'knitr' was found 
[Workspace loaded from ~/R/TESTER/.RData]

Что еще более странно, что knitr каким-то образом установлен

Error: invalid version specification ‘NA’ 
In addition: Warning message: 
In utils:::packageDescription(packageName, fields = "Version") : 
    no package 'knitr' was found 
[Workspace loaded from ~/R/TESTER/.RData] 

> library(knitr)

Это не дает ошибку при загрузке по library воздаем

Когда я устанавливаю knitr в Rstudio, чем я получил такие комментарии

Installing packages into '\\xxx.xx/users/Eke/mali/Documents/R/win-library/3.3' 
(as 'lib' is unspecified) 
also installing the dependencies 'mime', 'stringi', 'magrittr', 'Rcpp' 

trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.3/mime_0.4.zip' 
Content type 'application/zip' length 37402 bytes (36 KB) 
================================================== 
downloaded 36 KB 

trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.3/stringi_1.0-1.zip' 
Content type 'application/zip' length 14302873 bytes (13.6 MB) 
================================================== 
downloaded 13.6 MB 

trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.3/magrittr_1.5.zip' 
Content type 'application/zip' length 149726 bytes (146 KB) 
================================================== 
downloaded 146 KB 

trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.3/Rcpp_0.12.4.zip' 
Content type 'application/zip' length 3249212 bytes (3.1 MB)================================================== 
downloaded 3.1 MB 

trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.3/evaluate_0.9.zip' 
Content type 'application/zip' length 41981 bytes (40 KB) 
================================================== 
downloaded 40 KB 

trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.3/digest_0.6.9.zip' 
Content type 'application/zip' length 169286 bytes (165 KB) 
================================================== 
downloaded 165 KB 

trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.3/formatR_1.3.zip' 
Content type 'application/zip' length 52656 bytes (51 KB) 
================================================== 
downloaded 51 KB 

trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.3/highr_0.5.1.zip' 
Content type 'application/zip' length 35637 bytes (34 KB) 
================================================== 
downloaded 34 KB 

trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.3/markdown_0.7.7.zip' 
Content type 'application/zip' length 167151 bytes (163 KB)================================================== 
downloaded 163 KB 

trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.3/stringr_1.0.0.zip' 
Content type 'application/zip' length 83315 bytes (81 KB) 
================================================== 
downloaded 81 KB 

trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.3/yaml_2.1.13.zip' 
Content type 'application/zip' length 175748 bytes (171 KB) 
================================================== 
downloaded 171 KB 

trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.3/htmltools_0.3.5.zip' 
Content type 'application/zip' length 571964 bytes (558 KB)================================================== 
downloaded 558 KB 

trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.3/caTools_1.17.1.zip' 
Content type 'application/zip' length 287027 bytes (280 KB)================================================== 
downloaded 280 KB 

trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.3/bitops_1.0-6.zip' 
Content type 'application/zip' length 36372 bytes (35 KB) 
================================================== 
downloaded 35 KB 

package 'mime' successfully unpacked and MD5 sums checked 
package 'stringi' successfully unpacked and MD5 sums checked 
package 'magrittr' successfully unpacked and MD5 sums checked 
package 'Rcpp' successfully unpacked and MD5 sums checked 
package 'evaluate' successfully unpacked and MD5 sums checked 
package 'digest' successfully unpacked and MD5 sums checked 
package 'formatR' successfully unpacked and MD5 sums checked 
package 'highr' successfully unpacked and MD5 sums checked 
package 'markdown' successfully unpacked and MD5 sums checked 
package 'stringr' successfully unpacked and MD5 sums checked 
package 'yaml' successfully unpacked and MD5 sums checked 
package 'htmltools' successfully unpacked and MD5 sums checked 
package 'caTools' successfully unpacked and MD5 sums checked 
package 'bitops' successfully unpacked and MD5 sums checked 

The downloaded binary packages are in 
    C:\Users\mali\AppData\Local\Temp\RtmpeK2q5y\downloaded_packages 
Installing packages into '\\xxxxx.xxxx/users/Eke/mali/Documents/R/win-library/3.3' 
(as 'lib' is unspecified) 
also installing the dependencies 'mime', 'stringi', 'magrittr', 'Rcpp', 'bitops', 'evaluate', 'digest', 'formatR', 'highr', 'markdown', 'stringr', 'yaml', 'htmltools', 'caTools' 

trying URL 'https://cran.rstudio.com/src/contrib/mime_0.4.tar.gz' 
Content type 'application/x-gzip' length 12545 bytes (12 KB) 
================================================== 
downloaded 12 KB 

trying URL 'https://cran.rstudio.com/src/contrib/stringi_1.0-1.tar.gz' 
Content type 'application/x-gzip' length 3643002 bytes (3.5 MB)================================================== 
downloaded 3.5 MB 

trying URL 'https://cran.rstudio.com/src/contrib/magrittr_1.5.tar.gz' 
Content type 'application/x-gzip' length 200504 bytes (195 KB)================================================== 
downloaded 195 KB 

trying URL 'https://cran.rstudio.com/src/contrib/Rcpp_0.12.4.tar.gz' 
Content type 'application/x-gzip' length 2402065 bytes (2.3 MB)================================================== 
downloaded 2.3 MB 

trying URL 'https://cran.rstudio.com/src/contrib/bitops_1.0-6.tar.gz' 
Content type 'application/x-gzip' length 8734 bytes 
================================================== 
downloaded 8734 bytes 

trying URL 'https://cran.rstudio.com/src/contrib/evaluate_0.9.tar.gz' 
Content type 'application/x-gzip' length 19165 bytes (18 KB) 
================================================== 
downloaded 18 KB 

trying URL 'https://cran.rstudio.com/src/contrib/digest_0.6.9.tar.gz' 
Content type 'application/x-gzip' length 116746 bytes (114 KB) 
================================================== 
downloaded 114 KB 

trying URL 'https://cran.rstudio.com/src/contrib/formatR_1.3.tar.gz' 
Content type 'application/x-gzip' length 28139 bytes (27 KB)================================================== 
downloaded 27 KB 

trying URL 'https://cran.rstudio.com/src/contrib/highr_0.5.1.tar.gz' 
Content type 'application/x-gzip' length 16744 bytes (16 KB) 
================================================== 
downloaded 16 KB 

trying URL 'https://cran.rstudio.com/src/contrib/markdown_0.7.7.tar.gz' 
Content type 'application/x-gzip' length 79427 bytes (77 KB)================================================== 
downloaded 77 KB 

trying URL 'https://cran.rstudio.com/src/contrib/stringr_1.0.0.tar.gz' 
Content type 'application/x-gzip' length 34880 bytes (34 KB) 
================================================== 
downloaded 34 KB 

trying URL 'https://cran.rstudio.com/src/contrib/yaml_2.1.13.tar.gz' 
Content type 'application/x-gzip' length 81045 bytes (79 KB) 
================================================== 
downloaded 79 KB 

trying URL 'https://cran.rstudio.com/src/contrib/htmltools_0.3.5.tar.gz' 
Content type 'application/x-gzip' length 44048 bytes (43 KB) 
================================================== 
downloaded 43 KB 

trying URL 'https://cran.rstudio.com/src/contrib/caTools_1.17.1.tar.gz' 
Content type 'application/x-gzip' length 63358 bytes (61 KB) 
================================================== 
downloaded 61 KB 

trying URL 'https://cran.rstudio.com/src/contrib/knitr_1.12.3.tar.gz' 
Content type 'application/x-gzip' length 830827 bytes (811 KB)================================================== 
downloaded 811 KB 

trying URL 'https://cran.rstudio.com/src/contrib/rmarkdown_0.9.6.tar.gz' 
Content type 'application/x-gzip' length 2013956 bytes (1.9 MB)================================================== 
downloaded 1.9 MB 

'\\xxxx.xxx\users\Eke\mali\Documents\R\TESTER' 
CMD.EXE was started with the above path as the current directory. 
UNC paths are not supported. Defaulting to Windows directory. 
* installing *source* package 'mime' ... 
** package 'mime' successfully unpacked and MD5 sums checked 
** libs 

*** arch - i386 
Warning: running command 'make -f "C:/PROGRA~1/R/R-33~1.0/etc/i386/Makeconf" -f "C:/PROGRA~1/R/R-33~1.0/share/make/winshlib.mk" SHLIB="mime.dll" OBJECTS="rawmatch.o"' had status 127 
ERROR: compilation failed for package 'mime' 
* removing '\\xxxx-xxx/users/Eke/mali/Documents/R/win-library/3.3/mime' 
* restoring previous '\\xxxx.xxxx/users/Eke/mali/Documents/R/win-library/3.3/mime' 
'\\xxxxx.xxxx\users\Eke\mali\Documents\R\TESTER' 
CMD.EXE was started with the above path as the current directory. 
UNC paths are not supported. Defaulting to Windows directory. 
* installing *source* package 'stringi' ... 
** package 'stringi' successfully unpacked and MD5 sums checked 
Warning: running command 'sh ./configure.win' had status 127 
ERROR: configuration failed for package 'stringi' 
* removing '\\xxxxxxx.xxxx/users/Eke/mali/Documents/R/win-library/3.3/stringi' 
* restoring previous '\\xxxxx.xxxx/users/Eke/mali/Documents/R/win-library/3.3/stringi' 
'\\xxxxx.xxxxxxx\users\Eke\mali\Documents\R\TESTER' 
CMD.EXE was started with the above path as the current directory. 
UNC paths are not supported. Defaulting to Windows directory. 
* installing *source* package 'magrittr' ... 
** package 'magrittr' successfully unpacked and MD5 sums checked 
** R 
** inst 
** byte-compile and prepare package for lazy loading 
** help 
*** installing help indices 
** building package indices 
** installing vignettes 
Warning in file(con, "w") : 
    cannot open file '\\xxxxx.xxxxxx/users/Eke/mali/Documents/R/win-library/3.3/magrittr/doc/index.html': No such file or directory 
Error in file(con, "w") : cannot open the connection 
ERROR: installing vignettes failed 
* removing '\\xxxxx.xxxxx/users/Eke/mali/Documents/R/win-library/3.3/magrittr' 
* restoring previous '\\xxxxx.xxxxxx/users/Eke/mali/Documents/R/win-library/3.3/magrittr' 
'\\xxxxxx.xxxxxx\users\Eke\mali\Documents\R\TESTER' 
CMD.EXE was started with the above path as the current directory. 
UNC paths are not supported. Defaulting to Windows directory. 
* installing *source* package 'Rcpp' ... 
** package 'Rcpp' successfully unpacked and MD5 sums checked

Я последовал @Richie_Cotton предложение без SucceS

> .libPaths() 
[1] "\\\\xxxxx.xxx/users/Eke/mali/Documents/R/win-library/3.3" "C:/Program Files/R/R-3.3.0/library"       
> .libPaths("\\\\xxxxxx.xxx/users/Eke/mali/Documents/R/win-library/new") 
> .libPaths() 
[1] "\\\\xxxxxx.xxx/users/Eke/mali/Documents/R/win-library/new" "C:/Program Files/R/R-3.3.0/library"       
> install.packages("knitr", dependencies = F) 
Installing package into ‘\\xxxxxx.xxx/users/Eke/mali/Documents/R/win-library/new’ 
(as ‘lib’ is unspecified) 
trying URL 'https://cran.rstudio.com/bin/windows/contrib/3.3/knitr_1.12.3.zip' 
Content type 'application/zip' length 812072 bytes (793 KB) 
downloaded 793 KB 

package ‘knitr’ successfully unpacked and MD5 sums checked 

The downloaded binary packages are in 
    C:\Users\mali\AppData\Local\Temp\RtmpmwdUSv\downloaded_packages 
Error: invalid version specification ‘NA’ 
In addition: Warning message: 
In utils:::packageDescription(packageName, fields = "Version") : 
    no package 'knitr' was found 
>

I пользователя taceback, но я не знаю, как перевести результат

5: stop(gettextf("invalid version specification %s", paste(sQuote(unique(x[!ok])), 
     collapse = ", ")), call. = FALSE, domain = NA) 
4: .make_numeric_version(x, strict, .standard_regexps()$valid_package_version, 
     "package_version") 
3: package_version(utils:::packageDescription(packageName, fields = "Version")) 
2: .rs.getPackageVersion("knitr") 
1: (function (markdownVersion, stitchVersion) 
    { 
     caps <- list() 
     caps$r_markdown_supported = .rs.scalar(FALSE) 
     caps$stitch_supported = .rs.scalar(FALSE) 
     if (.rs.isPackageInstalled("knitr")) { 
      knitrVersion <- .rs.getPackageVersion("knitr") 
      caps$r_markdown_supported = .rs.scalar(knitrVersion >= 
       markdownVersion) 
      caps$stitch_supported = .rs.scalar(knitrVersion >= stitchVersion) 
     } 
     return(caps) 
    })("1.2", "1.2") 
>

источник

2016-05-06 Mateusz1981

Сообщение об ошибке 'Ошибка: неверная спецификация версии 'NA'' странно. Что такое вывод' version', если вы вводите его в консоль? Возможно, проблема связана с данными, загруженными из рабочей области ' ~/2016/KNUTSTORP/.RData', который может содержать записи, маскирующие вывод 'version'. Возможно, вы можете начать новый сеанс (возможно, в другом каталоге) и удалить все объекты, которые могут быть загружены в рабочую область в начале. Конечно, ваша версия R довольно старая, но должно быть возможно установить 'kn это. – RHertel

У меня была эта проблема некоторое время назад на ПК с Windows - это сработало бы, когда я был в университетской сети, но не дома. Попробуйте получить новую версию R (3.2.5) –

Текущая версия R - 3.3.0. – RHertel

Это не ясно из вопроса, где дела идут не так , поэтому вам нужна стратегия поиска проблемы. Если возможно, используйте для этого последнюю версию R.

При установке пакетов используйте новый сеанс. Кроме того, установите в новое расположение библиотеки, чтобы вы могли точно видеть, что происходит. После этого вы всегда можете скопировать содержимое этой библиотеки в существующую библиотеку. Для этого создайте новый каталог, в котором у вас есть разрешения на запись (возможно, внутри вашей домашней папки). Затем, когда вы вызываете install.packages, используйте lib.loc аргумент для установки в это место.

Вместо того, чтобы звонить install.packages("knitr"), установите каждую из зависимостей один за другим, чтобы узнать, какая из них вызывает проблему. То есть, install.packages("mime"), затем install.packages("stringi") и так далее. Вы можете просмотреть список всех пакетов, которые вам нужны в вашем вопросе (или использовать packageDescription("knitr").

Если вы получили сообщение об ошибке, используйте traceback(), чтобы узнать, где произошла ошибка, и включите эти детали в свой вопрос в дальнейшем. help

источник

2016-05-06 07:36:53

knitr установка в R, ошибка

ответ

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