軟件包的安裝退出狀態為非零-Linux服務器

Question

我在帶R的Windows 10上使用。由於我的項目計算量很大，因此我想使用我的大學Linux服務器進行計算。 軟件包的安裝（如果單獨嘗試，則還取決於其依賴性）無法正常工作。

安裝其他軟件包可以正常工作。 因此，我嘗試在無法正常運行的控制台上安裝我的軟件包，然后我在控制台中訪問了R並嘗試安裝了無法正常運行的軟件包。 接下來，我從PC復制我的庫到R在Linux服務器上訪問的庫中。 雖然它可以在我的PC上正常運行，但服務器會告訴我找不到我的軟件包。

我使用通常的install.packages("prodest") ，我也嘗試過類似install.packages("prodest", dependencies = T) ，或者安裝直接需要的依賴項[例如install.packages("haven") ]。

我想安裝此程序，然后在服務器上運行我的腳本。 一些進一步的信息：

Warning message on the Server:

    compilation terminated.
/usr/lib64/R/etc/Makeconf:167: recipe for target 'readstat/spss/readstat_zsav_compress.o' failed
make: *** [readstat/spss/readstat_zsav_compress.o] Error 1
ERROR: compilation failed for package ‘haven’
* removing ‘/home/rid52xb/R/x86_64-suse-linux-gnu-library/3.6/haven’
* installing *source* package ‘curl’ ...
** package ‘curl’ successfully unpacked and MD5 sums checked
** using staged installation
Package libcurl was not found in the pkg-config search path.
Perhaps you should add the directory containing `libcurl.pc'
to the PKG_CONFIG_PATH environment variable
No package 'libcurl' found
Package libcurl was not found in the pkg-config search path.
Perhaps you should add the directory containing `libcurl.pc'
to the PKG_CONFIG_PATH environment variable
No package 'libcurl' found
Using PKG_CFLAGS=
Using PKG_LIBS=-lcurl
------------------------- ANTICONF ERROR ---------------------------
Configuration failed because libcurl was not found. Try installing:
 * deb: libcurl4-openssl-dev (Debian, Ubuntu, etc)
 * rpm: libcurl-devel (Fedora, CentOS, RHEL)
 * csw: libcurl_dev (Solaris)
If libcurl is already installed, check that 'pkg-config' is in your
PATH and PKG_CONFIG_PATH contains a libcurl.pc file. If pkg-config
is unavailable you can set INCLUDE_DIR and LIB_DIR manually via:
R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...'
--------------------------------------------------------------------
ERROR: configuration failed for package ‘curl’
* removing ‘/home/rid52xb/R/x86_64-suse-linux-gnu-library/3.6/curl’
ERROR: dependencies ‘haven’, ‘curl’ are not available for package ‘rio’
* removing ‘/home/rid52xb/R/x86_64-suse-linux-gnu-library/3.6/rio’
ERROR: dependency ‘rio’ is not available for package ‘car’
* removing ‘/home/rid52xb/R/x86_64-suse-linux-gnu-library/3.6/car’
ERROR: dependency ‘car’ is not available for package ‘AER’
* removing ‘/home/rid52xb/R/x86_64-suse-linux-gnu-library/3.6/AER’
ERROR: dependency ‘AER’ is not available for package ‘prodest’
* removing ‘/home/rid52xb/R/x86_64-suse-linux-gnu-library/3.6/prodest’

The downloaded source packages are in
        ‘/tmp/RtmpGxZbcG/downloaded_packages’
1: In install.packages("prodest") :
  installation of package ‘haven’ had non-zero exit status
2: In install.packages("prodest") :
  installation of package ‘curl’ had non-zero exit status
3: In install.packages("prodest") :
  installation of package ‘rio’ had non-zero exit status
4: In install.packages("prodest") :
  installation of package ‘car’ had non-zero exit status
5: In install.packages("prodest") :
  installation of package ‘AER’ had non-zero exit status
6: In install.packages("prodest") :
  installation of package ‘prodest’ had non-zero exit status

服務器上的會話信息：

R version 3.6.0 (2019-04-26)
Platform: x86_64-suse-linux-gnu (64-bit)
Running under: SUSE Linux Enterprise Server 12 SP4

Matrix products: default
BLAS:   /usr/lib64/R/lib/libRblas.so
LAPACK: /usr/lib64/R/lib/libRlapack.so

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C
 [9] LC_ADDRESS=C               LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C

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

other attached packages:
[1] data.table_1.12.2

loaded via a namespace (and not attached):
[1] compiler_3.6.0 tools_3.6.0

我的PC上的會話信息：

R version 3.6.1 (2019-07-05)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 17134)

Matrix products: default

locale:
[1] LC_COLLATE=German_Germany.1252  LC_CTYPE=German_Germany.1252    LC_MONETARY=German_Germany.1252
[4] LC_NUMERIC=C                    LC_TIME=German_Germany.1252    

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

other attached packages:
[1] prodest_1.0.1     Matrix_1.2-17     dplyr_0.8.3       data.table_1.12.2

loaded via a namespace (and not attached):
 [1] zip_2.0.3         Rcpp_1.0.2        cellranger_1.1.0  pillar_1.4.2      compiler_3.6.1   
 [6] forcats_0.4.0     tools_3.6.1       zeallot_0.1.0     tibble_2.1.3      lattice_0.20-38  
[11] pkgconfig_2.0.2   rlang_0.4.0       openxlsx_4.1.0.1  curl_4.0          DEoptim_2.2-4    
[16] haven_2.1.1       rio_0.5.16        AER_1.2-7         vctrs_0.2.0       hms_0.5.0        
[21] lmtest_0.9-37     grid_3.6.1        tidyselect_0.2.5  glue_1.3.1        R6_2.4.0         
[26] survival_2.44-1.1 readxl_1.3.1      foreign_0.8-71    Rsolnp_1.16       carData_3.0-2    
[31] Formula_1.2-3     purrr_0.3.2       car_3.0-3         magrittr_1.5      splines_3.6.1    
[36] backports_1.1.4   abind_1.4-5       assertthat_0.2.1  sandwich_2.5-1    truncnorm_1.0-8  
[41] crayon_1.3.4      zoo_1.8-6

Answer 1

您可能需要在SUSE Linux服務器上安裝（或讓管理員安裝）libcurl。 在Ubuntu（您的大學服務器沒有）上，您可以執行以下操作：

sudo apt-get -y install libcurl4-openssl-dev

但是在SUSE上，我讀到Yast可能是更典型的軟件包管理選擇。

使系統依賴關系成形后，您仍然需要處理R中的依賴關系，因此請考慮一下（警告可能會花費很長時間）：

install.packages( c(tools::package_dependencies(package="prodest", recursive=TRUE)$prodest,
                    "prodest")
                 )

不幸的是， install.packages在搜索依賴關系樹時不是遞歸的，即依賴關系的依賴關系等。...也就是說，在那個特定的遞歸組裝樹中，依賴關系的數量為77，這可能只需安裝缺少的四個或五個命名軟件包，速度更快。

 install.packages( c( 'haven' 'curl' , 'rio, 'car', 'AER'), dependencies=TRUE)