knitr Installation in R, Fehler

Ich kämpfe an einem anderen Tag mit knitr Installation und ich kann nicht mit neuen Lösungen kommen. Zuletzt löschte ich knitr und versuchte erneut zu installieren. Unten ist eine ganze Konsole aus dem Prozess, was ist falsch ???? Ich habe eine Fehlermeldung erhalten (siehe unten), die jedes Mal erscheint, wenn ich R Studio starte und neue Pakete installiere.knitr Installation in R, Fehler

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

Der Ausgang des 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

Wie es empfohlen wurde, öffnete ich neue Sitzung. Aber der Fehler ist immer noch derselbe. Getestet habe ich mehrere andere Pakete und sie funktionieren (dh 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]

Was noch seltsamer ist, dass knitr irgendwie

installiert ist

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)

Es gibt keinen Fehler geben, wenn geladen von library lobe

Wenn ich knitr in Rstudio installieren, als ich solche Kommentare

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

bekam

Ich folgte @Richie_Cotton Vorschlag ohne succés

> .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 
>

ich Benutzer taceback aber ich weiß nicht, wie das Ergebnis

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") 
>

Quelle

2016-05-06 Mateusz1981

Die Fehlermeldung 'Fehler: ungültige Versionsangabe 'NA'' ist seltsam. Was ist die Ausgabe von' version', wenn Sie es in einer Konsole eingeben? Möglicherweise gibt es ein Problem mit den geladenen Daten aus dem Arbeitsbereich ' ~/2016/KNUTSTORP/.RData', die Einträge enthalten können, die die Ausgabe von 'version' maskieren.Vielleicht können Sie eine neue Sitzung starten (möglicherweise in einem anderen Verzeichnis) und alle Objekte löschen, die am Anfang in den Arbeitsbereich geladen wurden. Zugegeben, deine R-Version ist ziemlich alt, aber es sollte möglich sein, 'kn zu installieren idr'on es. – RHertel

Ich hatte dieses Problem eine Weile zurück auf einem Windows-PC - es würde funktionieren, wenn ich im Universitätsnetzwerk war, aber nicht zu Hause. Versuchen Sie, die neue Version von R zu erhalten (3.2.5) –

Die aktuelle Version von R ist 3.3.0. – RHertel

Es ist nicht von der Frage klar zu übersetzen, wo die Dinge schief gehen, , also brauchen Sie eine Strategie, um das Problem zu lokalisieren. Verwenden Sie nach Möglichkeit die neueste Version von R.

Wenn Sie die Pakete installieren, verwenden Sie eine neue Sitzung. Installieren Sie zusätzlich zu einem neuen Bibliotheksspeicherort, damit Sie genau sehen können, was passiert. Sie können den Inhalt dieser Bibliothek jederzeit in Ihre vorhandene Bibliothek kopieren. Erstellen Sie dazu ein neues Verzeichnis, in dem Sie Schreibberechtigungen haben (möglicherweise in Ihrem Benutzerordner). Dann, wenn Sie install.packages anrufen, verwenden Sie den lib.loc Argument, um zu diesem Ort zu installieren.

Anstatt install.packages("knitr") aufzurufen, installieren Sie jede der Abhängigkeiten nacheinander, um festzustellen, welche das Problem verursacht. Das heißt, install.packages("mime"), dann install.packages("stringi") und so weiter. Sie können die Liste aller Pakete sehen, die Sie in Ihrer Frage benötigen (oder packageDescription("knitr") verwenden.

Wenn Sie einen Fehler erhalten, traceback() zu sehen, wo der Fehler aufgetreten ist, und sind diese Angaben in Ihrer Frage in Sie weiter brauchen

Quelle

2016-05-06 07:36:53

knitr Installation in R, Fehler

Antwort

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