Configuration failed to find libgit2 library

Languages R
1

My builds started failing recently. I have devtools in my r_packages list. The build tries to install devtools, which depends on usethis, which depends on gert, which fails to install:

* installing *source* package ‘gert’ ...
** package ‘gert’ successfully unpacked and MD5 sums checked
** using staged installation
Using PKG_CFLAGS=
Using PKG_LIBS=-lgit2
----------------------------- ANTICONF -------------------------------
Configuration failed to find libgit2 library. Try installing:
 * brew: libgit2 (MacOS)
 * deb: libgit2-dev (Debian, Ubuntu, etc)
 * rpm: libgit2-devel (Fedora, CentOS, RHEL)
If libgit2 is already installed, check that 'pkg-config' is in your
PATH and PKG_CONFIG_PATH contains a libgit2.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] ---------------------------
<stdin>:1:18: fatal error: git2.h: No such file or directory
compilation terminated.
----------------------------------------------------------------------
ERROR: configuration failed for package ‘gert’

I have a simple config:

language: r
cache: packages
warnings_are_errors: false

r:
  - bioc-release
  - oldrel
  - release
  - devel

r_packages:
  - covr
  - devtools
  - tidyverse
  - shiny

after_success:
  - Rscript -e 'library(covr); codecov()'

This is a fairly common package, but this does not seem to be a widespread problem. Why is this error happening for me?

2

If you’re linking against a C library, you need to install its development Apt package:

addons:
  apt:
    packages:
      - libgit2-dev
3

That makes sense, but I didn’t have to do that before and it doesn’t seem like other packages that you use devtools do that that either.

4

Maybe before, it happened to be preinstalled. In other topics, you can see plenty of cases where people install Apt development packages.

5

Hi,

I also have the same issue when using R studio on Mac OS to install package “stopwords”, and the error message is exactly the same.

I’m not sure how to resolve it from reading this post, as I have no idea about R configuration and environment…

6

@jeroen and @jimhester
I have a similar problem with a package (github.com/rmsharp/nprcgenekeepr) that used to build. I first got the following errors:

  • installing source package ‘textshaping’ …
    ** package ‘textshaping’ successfully unpacked and MD5 sums checked
    ** using staged installation
    Package harfbuzz was not found in the pkg-config search path.
    Perhaps you should add the directory containing harfbuzz.pc' to the PKG_CONFIG_PATH environment variable No package 'harfbuzz' found Package fribidi was not found in the pkg-config search path. Perhaps you should add the directory containing fribidi.pc’
    to the PKG_CONFIG_PATH environment variable
    No package ‘fribidi’ found

Based on my limited understanding I added the following to my .travis.yml file.
addons:
apt:
packages:
- harfbuzz
- fribidi

This did not work and produced the following error message:
Reading state information…
E: Unable to locate package harfbuzz
E: Unable to locate package fribidi
apt-get.diagnostics
apt-get install failed

Explanations and suggests are most welcome.

7

You can try adding this to your .travis.yml

addons:
  apt:
    packages:
      - libharfbuzz-dev
      - libfribidi-dev
9

Worked perfectly. Thank you.

Now to get the Apple build to work