Nokogiri was built against LibXML version 2.9.1, but has dynamically loaded 2.8.0

Question

I want to run

bundle exec rake fixtures:populate_from_db

on CentOS but I get the following warning messages:

WARNING: Nokogiri was built against LibXML version 2.9.1, but has dynamically loaded 2.8.0
rake aborted!

~/.bundle/config file contains:

BUNDLE_BUILD__NOKOGIRI: "--with-xml2-include=/opt/local/include/libxml2 --with-xml2-lib=/opt/local/lib --with-xslt-dir=/opt/local"

How should I compile Nokogiri again 2.8.0 version of LibXML?

Geophysics

Welcome to Stack Overflow. Have you read through the various similar questions in the "Related" links on the lower right of this page? What happened when you tried those things? – Inject

Answer 1

Try running:

gem update --system & gem pristine nokogiri

Just worked for me.

Grunter

Answer 2

The following steps solve my problem

gem uninstall nokogiri # remove nokogiri
NOKOGIRI_USE_SYSTEM_LIBRARIES=1 bundle install

Combine the solutions from https://simonharrer.wordpress.com/2013/05/01/fixing-nokogiri-warning-after-ubuntu-upgrade/ and https://github.com/sparklemotion/nokogiri/wiki/What-to-do-if-libxml2-is-being-a-jerk

Wellgroomed

I needed to sudo apt-get install libxslt1-dev before NOKOGIRI_USE_SYSTEM_LIBRARIES=1 bundle install – Entoil

Answer 3

Try this one:

gem install nokogiri -- --with-xml2-include=/usr/include/libxml2/libxml --with-xml2-lib=/usr/lib64/ --with-sxlt-include=/usr/include/libxslt --with-xslt-lib=/usr/lib64/

Civilize

Answer 4

I know it sounds silly, but try putting Nokogiri at the top of your Gemfile. This works in some cases where other gems conflict on native extensions

Upstroke

Answer 5

I had an old app locked at v1.5.11 of Nokogiri and I couldnt get rid of this issue on Debian 9 until I upgraded Nokogiri to v1.6.8.1

Hubble

Answer 6

Summary

gem update --system & gem pristine nokogiri
gem install nokogiri

(building up on @Jonny answer — thank you !)

Details

I had the same error than in the title.
After running his command, running a ruby script failed with this error:

/Users/username/.rvm/rubies/ruby-2.4.0/lib/ruby/site_ruby/2.4.0/rubygems/core_ext/kernel_require.rb:92:in `require': cannot load such file -- nokogiri (LoadError)
from /Users/username/.rvm/rubies/ruby-2.4.0/lib/ruby/site_ruby/2.4.0/rubygems/core_ext/kernel_require.rb:92:in `require'
from my_ruby_script.rb:3:in `<main>'

I then add to run gem install nokogiri again, and everything went back to normal.

Blen