install error

[fipoucat]

I am facing the below error when installing ragg:

→ Will download 1 package with unknown size.

• ragg 1.2.2 → 1.2.6.9000 👷🏽‍♀️🔧 ⬇ (GitHub: 9cb92fd)
  ? Do you want to continue (Y/n) y
  ℹ Getting 1 pkg with unknown size
  ✔ Got ragg 1.2.6.9000 (source) (734.17 kB)
  ✔ Downloaded 1 package (734.17 kB)in 5.1s
  ℹ Packaging ragg 1.2.6.9000
  ✔ Packaged ragg 1.2.6.9000 (2.5s)
  ℹ Building ragg 1.2.6.9000
  ✖ Failed to build ragg 1.2.6.9000
  Error:
  ! error in pak subprocess
  Caused by error in stop_task_build(state, worker):
  ! Failed to build source package 'ragg'
  Type .Last.error to see the more details.

Any hint?

[thomasp85]

ragg has just been updated but binaries has not yet been build. So pak is trying to install the source version which requires a number of system libraries that I guess is not available on your system. Either force binaries during install (will currently not install the latest version, wait a few days for cran to serve the newest binaries, or install the required system libraries as given in the DESCRIPTION file

[eBsowka]

Evening
It seems I have the same issue:
using command: Rscript -e 'withr::with_libpaths(new = "/opt/conda/envs/env_name/lib/R/library", pak::pak("r-lib/[email protected]"))' or versions v1.2.5, v1.2.6 or not specifying one I get:
Using bundled GitHub PAT. Please add your own PAT using gitcreds::gitcreds_set().
✔ Updated metadata database: 2.81 MB in 8 files.
✔ Updating metadata database ... done

→ Will update 1 package.
→ Will download 1 package with unknown size.

• ragg 1.2.5 → 1.2.0 [bld][cmp][dl] (GitHub: abbd24c) + ✔ libfreetype6-dev, ✔ libjpeg-dev, ✔ libpng-dev, ✔ libtiff-dev
  ✔ All system requirements are already installed.

ℹ Getting 1 pkg with unknown size
✔ Got ragg 1.2.0 (source) (2.41 MB)
ℹ Packaging ragg 1.2.0
✔ Packaged ragg 1.2.0 (5s)
ℹ Building ragg 1.2.0
✖ Failed to build ragg 1.2.0
Error:
! error in pak subprocess
Caused by error in stop_task_build(state, worker):
! Failed to build source package 'ragg'
Full installation output:

• installing source package ‘ragg’ ...
  staged installation is only possible with locking
  ** using non-staged installation
  Found pkg-config cflags and libs!
  Using PKG_CFLAGS=-I/usr/include/freetype2 -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu
  Using PKG_LIBS=-lfreetype -lpng16 -lm -lz -lm -lz -ltiff -lwebp -lzstd -llzma -ljbig -ljpeg -lz -lm
  -----------------------------[ ANTICONF ]-------------------------------
  Configuration failed to find one of freetype2 libpng libtiff-4. Try installing:
• deb: libfreetype6-dev libpng-dev libtiff5-dev libjpeg-dev (Debian, Ubuntu, etc)
• rpm: freetype-devel libpng-devel libtiff-devel libjpeg-turbo-devel (Fedora, CentOS, RHEL)
• csw: libfreetype_dev libpng16_dev libtiff_dev libjpeg_dev (Solaris)
  If freetype2 libpng libtiff-4 is already installed, check that 'pkg-config' is in your
  PATH and PKG_CONFIG_PATH contains a freetype2 libpng libtiff-4.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 MESSAGE] ---------------------------
  In file included from /opt/conda/envs//x86_64-conda-linux-gnu/sysroot/usr/include/features.h:361,
  from /opt/conda/envs/env_name/x86_64-conda-linux-gnu/sysroot/usr/include/limits.h:27,
  from /opt/conda/envs/env_name/lib/gcc/x86_64-conda-linux-gnu/13.2.0/include/limits.h:205,
  from /opt/conda/envs/env_name/lib/gcc/x86_64-conda-linux-gnu/13.2.0/include/syslimits.h:7,
  from /opt/conda/envs/env_name/lib/gcc/x86_64-conda-linux-gnu/13.2.0/include/limits.h:34,
  from /usr/include/libpng16/pngconf.h:31,
  from /usr/include/libpng16/png.h:339,
  from :2:
  /usr/include/x86_64-linux-gnu/sys/cdefs.h:482:49: error: missing binary operator before token "("
  482 | #if __GNUC_PREREQ (4,8) || __glibc_clang_prereq (3,5)
  | ^
  In file included from /opt/conda/envs/env_name/x86_64-conda-linux-gnu/sysroot/usr/include/stdio.h:932,
  from /usr/include/libpng16/pngconf.h:46:
  /usr/include/x86_64-linux-gnu/bits/stdio2.h:228:17: error: missing binary operator before token "("
  228 | #if __GLIBC_USE (DEPRECATED_GETS)
  | ^

---

ERROR: configuration failed for package ‘ragg’

• removing ‘/tmp/Rtmp0WKHaK/pkg-lib4b11528370/ragg’

---

Backtrace:

1. withr::with_libpaths(new = "/opt/conda/envs/etl_qa_characterise_omop/lib/R/library", …
2. base::force(code)
3. pak::pak("r-lib/[email protected]")
4. pak::pkg_install(pkg, ...)
5. pak:::remote(function(...) get("pkg_install_do_plan", asNamespace("pak"))(...), …
6. err$throw(res$error)

---

Subprocess backtrace:

1. base::withCallingHandlers(cli_message = function(msg) { …
2. get("pkg_install_do_plan", asNamespace("pak"))(...)
3. proposal$install()
4. pkgdepends::install_package_plan(plan, lib = private$library, num_workers = nw, …
5. base::withCallingHandlers({ …
6. pkgdepends:::handle_events(state, events)
7. pkgdepends:::handle_event(state, i)
8. pkgdepends:::stop_task(state, worker)
9. pkgdepends:::stop_task_build(state, worker)
10. base::throw(new_pkg_build_error("Failed to build source package {pkg}", …
11. | base::signalCondition(cond)
12. global (function (e) …
    Execution halted

Any ideas?

[thomasp85]

I do not know how conda works but it seems that people in general install conda specific packages when they want to use it. In any regards this is a conda issue not a ragg issue

[jxu]

Did you try installing the libraries it recommended in the error message? What OS are you on?