Ubuntu上的R基础包未导出对象

Question

使用 R 脚本克隆了一个存储库，包括一个包含库的目录，最初在 Windows 机器上使用：

sessionInfo()  
R version 4.0.3 (2020-10-10)  
Platform: x86_64-w64-mingw32/x64 (64-bit)  
Running under: Windows 10 x64 (build 19041)   

Matrix products: default

locale:  
[1] LC_COLLATE=Portuguese_Portugal.1252  LC_CTYPE=Portuguese_Portugal.1252  
[3] LC_MONETARY=Portuguese_Portugal.1252 LC_NUMERIC=C                     
[5] LC_TIME=Portuguese_Portugal.1252    

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

loaded via a namespace (and not attached):  
[1] compiler_4.0.3  htmltools_0.5.0 tools_4.0.3     yaml_2.2.1      rmarkdown_2.5  
[6] knitr_1.30      xfun_0.19       digest_0.6.27   rlang_0.4.8 evaluate_0.14  

然后，遇到了几个问题，例如版本 3 或某些包执行失败。这些问题在管理 Debian 设置和重新安装此类软件包时得到了解决。

最后，当其中一个脚本运行时，会出现当前情况：

install.packages(pkgs = 'TSdist', lib = .libPaths()[1], dependencies = T)  
trying URL 'https://cloud.r-project.org/src/contrib/TSdist_3.7.tar.gz'  
Content type 'application/x-gzip' length 182707 bytes (178 KB)  
==================================================  
downloaded 178 KB  

* installing *source* package ‘TSdist’ ...  
** package ‘TSdist’ successfully unpacked and MD5 sums checked  
** using staged installation  
** libs  
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG      -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-fhxXXR/r-base-4.0.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c EDR.c -o EDR.o  
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG      -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-fhxXXR/r-base-4.0.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c EDRnw.c -o EDRnw.o  
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG      -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-fhxXXR/r-base-4.0.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c ERP.c -o ERP.o  
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG      -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-fhxXXR/r-base-4.0.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c ERPnw.c -o ERPnw.o  
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG      -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-fhxXXR/r-base-4.0.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c LCSS.c -o LCSS.o  
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG      -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-fhxXXR/r-base-4.0.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c LCSSnw.c -o LCSSnw.o  
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG      -fpic  -g -O2 -fdebug-prefix-map=/build/r-base-fhxXXR/r-base-4.0.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g  -c registerDynamicSymbol.c -o registerDynamicSymbol.o  
gcc -std=gnu99 -shared -L/usr/lib/R/lib
-Wl,-Bsymbolic-functions -Wl,-z,relro -o TSdist.so EDR.o EDRnw.o ERP.o ERPnw.o LCSS.o LCSSnw.o registerDynamicSymbol.o -L/usr/lib/R/lib -lR
installing to /home/nmorais/deployment/euniversal-clustering/libraries/00LOCK-TSdist/00new/TSdist/libs  
** R  
** data  
** inst  
** byte-compile and prepare package for lazy loading  
Error: object ‘getWindowsHandle’ is not exported by 'namespace:utils'  
Execution halted  
ERROR: lazy loading failed for package ‘TSdist’  
* removing ‘/home/nmorais/deployment/euniversal-clustering/libraries/TSdist’  

The downloaded source packages are in  
        ‘/tmp/RtmpwJbt3F/downloaded_packages’  
Warning message: In install.packages(pkgs = "TSdist", lib = .libPaths()[1], dependencies = T) :    
installation of package ‘TSdist’ had non-zero exit status

伪装的机器给我们：

sessionInfo()  
R version 4.0.4 (2021-02-15)  
Platform: x86_64-pc-linux-gnu (64-bit)  
Running under: Ubuntu 20.04.2 LTS  

Matrix products: default  
BLAS:   /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.9.0  
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.9.0  
>
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  
>
loaded via a namespace (and not attached):  
[1] compiler_4.0.4 tools_4.0.4  

提前致谢！

Answer 1

听起来好像您做了一些几乎肯定会导致问题的事情：您将软件包库从 Windows 机器移动到 Ubuntu 机器。这些系统太不同了，无法正常工作。

你应该在Windows机器上记录下所有安装包的名称，然后在Ubuntu上安装，不要复制它们。

我不知道你在 Ubuntu 上的哪些包被搞砸了，所以我建议你卸载所有贡献的包，然后重新安装它们。不仅仅是TSdist：它不使用getWindowsHandle。这是TSdist 正在使用的其他一些包。