williamboman
commented
2 years ago Hello! What does the following return?
remotes::install_github("r-lib/pkgbuild")
pkgbuild::check_build_tools(debug = TRUE)Closed KryeKuzhinieri closed 2 years ago
williamboman
commented
2 years ago Hello! What does the following return?
remotes::install_github("r-lib/pkgbuild")
pkgbuild::check_build_tools(debug = TRUE)
mouroutzoglou
commented
2 years ago Hello, I have a very similar experience with the original poster. For me, I get the following output from the above snippet:
Your system is ready to build packages!
Working on an Intel MacBook Pro (2019 model, Big Sur)
KryeKuzhinieri
commented
2 years ago Hello! What does the following return?
remotes::install_github("r-lib/pkgbuild") pkgbuild::check_build_tools(debug = TRUE)
The package got installed and returned
Your system is ready to build packages!
williamboman
commented
2 years ago Thanks! And when you tried installing packages manually, did it work or did you run into any errors? What does the following yield?
install.packages("languageserver")It installs the package. Here are the logs
> install.packages("languageserver")
Installing package into ‘/home/kryekuzhinieri/R/x86_64-pc-linux-gnu-library/4.1’
(as ‘lib’ is unspecified)
trying URL 'https://cloud.r-project.org/src/contrib/languageserver_0.3.12.tar.gz'
Content type 'application/x-gzip' length 78124 bytes (76 KB)
==================================================
downloaded 76 KB
* installing *source* package ‘languageserver’ ...
** package ‘languageserver’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-lENDSu/r-base-4.1.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fsm.c -o fsm.o
gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-lENDSu/r-base-4.1.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c languageserver.c -o languageserver.o
gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-lENDSu/r-base-4.1.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c reader.c -o reader.o
gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-lENDSu/r-base-4.1.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c search.c -o search.o
gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -fdebug-prefix-map=/build/r-base-lENDSu/r-base-4.1.3=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stack.c -o stack.o
gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -Wl,-z,relro -o languageserver.so fsm.o languageserver.o reader.o search.o stack.o -L/usr/lib/R/lib -lR
installing to /home/kryekuzhinieri/R/x86_64-pc-linux-gnu-library/4.1/00LOCK-languageserver/00new/languageserver/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (languageserver)
The downloaded source packages are in
‘/tmp/RtmpEvzxrt/downloaded_packages’Could you try installing the server using the branch fix-r_lang-install?
KryeKuzhinieri
commented
2 years ago I am not sure if I am doing this correctly. But these are the steps I followed:
-- LSP manager
{
"williamboman/nvim-lsp-installer",
module = "nvim-lsp-installer",
branch = 'fix-r_lang-install',
cmd = {
"LspInstall",
"LspInstallInfo",
"LspPrintInstalled",
"LspRestart",
"LspStart",
"LspStop",
"LspUninstall",
"LspUninstallAll",
},
},
Then I run
nvim +PackerSync
Finally, I tried installing the language server but it returned
r_language_server (failed)
R version 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-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.
Natural language support but running in an English locale
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.
> options(langserver_library = "/home/kryekuzhinieri/.local/share/nvim/lsp_servers/r_language_server.tmp");
> options(repos = list(CRAN = "http://cran.rstudio.com/"));
> rlsLib <- getOption("langserver_library");
>
> didInstallRemotes <- FALSE;
> tryCatch(
+ expr = { library("remotes") },
+ error = function (e) {
+ install.packages("remotes", lib = rlsLib);
+ loadNamespace("remotes", lib.loc = rlsLib);
+ didInstallRemotes <- TRUE;
+ }
+ );
>
> # We set force = TRUE because this command will error if languageserversetup is already installed (even if it's at a
> # different library location).
> remotes::install_github("jozefhajnala/languageserversetup", lib = rlsLib, force = TRUE);
Downloading GitHub repo jozefhajnala/languageserversetup@HEAD
* checking for file ‘/tmp/RtmpDlndFa/remotesfcb81fa1db60/jozefhajnala-languageserversetup-3daf44a/DESCRIPTION’ ... OK
* preparing ‘languageserversetup’:
* checking DESCRIPTION meta-information ... OK
* checking for LF line-endings in source and make files and shell scripts
* checking for empty or unneeded directories
Omitted ‘LazyData’ from DESCRIPTION
* building ‘languageserversetup_0.1.2.900.tar.gz’
* installing *source* package ‘languageserversetup’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (languageserversetup)
>
> if (didInstallRemotes) {
+ remove.packages("remotes", lib = rlsLib);
+ }
>
> loadNamespace("languageserversetup", lib.loc = rlsLib);
<environment: namespace:languageserversetup>
> languageserversetup::languageserver_install(
+ fullReinstall = TRUE,
+ confirmBeforeInstall = FALSE,
+ strictLibrary = TRUE
+ );
trying URL 'http://cran.rstudio.com/src/contrib/remotes_2.4.2.tar.gz'
Content type 'application/x-gzip' length 152540 bytes (148 KB)
==================================================
downloaded 148 KB
sh: 0: getcwd() failed: No such file or directory
shell-init: error retrieving current directory: getcwd: cannot access parent directories: No such file or directory
sh: 0: getcwd() failed: No such file or directory
sh: 0: getcwd() failed: No such file or directory
shell-init: error retrieving current directory: getcwd: cannot access parent directories: No such file or directory
sh: 0: getcwd() failed: No such file or directory
sh: 0: getcwd() failed: No such file or directory
Error in tools:::.install_packages() :
current working directory cannot be ascertained
sh: 0: getcwd() failed: No such file or directory
The downloaded source packages are in
‘/tmp/RtmpDlndFa/downloaded_packages’
Downloading GitHub repo REditorSupport/languageserver@master
sh: 0: getcwd() failed: No such file or directory
sh: 0: getcwd() failed: No such file or directory
Error: Failed to install 'languageserver' from GitHub:
Could not find tools necessary to compile a package
Call `pkgbuild::check_build_tools(debug = TRUE)` to diagnose the problem.
In addition: Warning message:
In utils::install.packages("remotes", lib = rlsLib) :
installation of package ‘remotes’ had non-zero exit status
Execution halted
spawn: R failed with exit code 1.
Am I installing the branch correctly? Or the branch is not being picked up?
williamboman
commented
2 years ago It seems like it checked out the branch correctly (however I usually just go to the git clone location directly and manually check out the revision I want to test)!
Hmm.. I'm really not an R dev so I'm grasping at straws here. What catches my attention is the following:
Error: Failed to install 'languageserver' from GitHub:
Could not find tools necessary to compile a package In addition: Warning message:
In utils::install.packages("remotes", lib = rlsLib) :
installation of package ‘remotes’ had non-zero exit statusSeeing as we've ruled out the lack of compiler tools being the issue, what about installing the remotes package? Could you try
install.packages("remotes", lib=system("mktemp -d", intern=TRUE))So, I went through the R code in the r_language_server/init.lua file and tried setting options(langserver_library = "/home/kryekuzhinieri/Desktop/test"); and it worked. I also removed all occurrences of the rlsLib in the code and it worked again. Moreover, I went ahead and printed the path nvim was giving to the create_install_script function which returned
"/home/kryekuzhinieri/.local/share/nvim/lsp_servers/r_language_server.tmp"
I am not exactly sure but I think the issue here could be the path which is passed to the function because other cases seem to work just fine. Specifically,
create_install_script(ctx.cwd:get())
KryeKuzhinieri
commented
2 years ago install.packages("remotes", lib=system("mktemp -d", intern=TRUE))
Works fine. It installs the package successfully.
williamboman
commented
2 years ago Ah ok I think I know what it is now. We provide fullReinstall = TRUE, which causes languageserversetup to recursively unlink the rlsLib path. Without assuming too much, I believe this is actually fine on certain OSs/filesystems, on others (yours for example) it will cause the process to be unable to resolve its working directory (even if the very same directory is immediately recreated). There's a few traces of this already in your logs (a bunch of sh: 0: getcwd() failed: No such file or directory entries). Could you try pulling the latest commit from the branch and try installing again?
joelgsponer
commented
2 years ago Fantastic timing :-) just encountered the same error. After checking out the new branch it still fails, but with a somewhat different error message: `
Problem description
I recently migrated from vim to neovim where I am using the Astro Vim configuration. Everything works fine besides the r_server_language which throws an error.
Neovim version (>= 0.6)
NVIM v0.6.0 Build type: RelWithDebInfo LuaJIT 2.1.0-beta3
Operating system/version
Linux kuzhina 5.13.0-39-generic #44~20.04.1-Ubuntu SMP Thu Mar 24 16:43:35 UTC 2022 x86_64 x86_64 x86_64 GNU/Linux
I've recently downloaded the latest plugin version of both nvim-lsp-installer and nvim-lspconfig
Affected language servers
r_server_language
Actual behavior
Initially, I wanted to install the language server by running
:LspInstall r_server_languageHowever, I got the following error:
Then, I tried installing the packages manually by
However, when I tried installing again, it threw the error below
I asked the question in this thread too where they suggested that I should clear the lines added in
Rprofilebut that did not help too.What are the steps needed to fix this?
Expected behavior
I expect the installer to work and install the language server.
LspInstallInfo output
Installation log
Healthcheck
Screenshots
No response