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Bug #11165

closed

gem install bio-samtools

Added by tbochan (Tad Bochan) almost 9 years ago. Updated almost 9 years ago.

Status:
Third Party's Issue
Assignee:
-
Target version:
-
ruby -v:
ruby 2.3.0dev (2015-05-20 trunk 50560) [x86_64-linux]
Backport:
2.0.0: UNKNOWN, 2.1: UNKNOWN, 2.2: UNKNOWN
[ruby-core:<unknown>]

Description

gem install bio-samtools works with ruby 2.1.2 but fails with 2.3.0

824 /home/tad : gem install bio-samtools
Building native extensions. This could take a while...
ERROR: Error installing bio-samtools:
ERROR: Failed to build gem native extension.

/home/tad/.rvm/rubies/ruby-head/bin/ruby mkrf_conf.rb

/home/tad/.rvm/rubies/ruby-head/bin/ruby -rubygems /home/tad/.rvm/gems/ruby-head@global/gems/rake-10.4.2/bin/rake RUBYARCHDIR=/home/tad/.rvm/gems/ruby-head/extensions/x86_64-linux/2.3.0/bio-samtools-2.3.2 RUBYLIBDIR=/home/tad/.rvm/gems/ruby-head/extensions/x86_64-linux/2.3.0/bio-samtools-2.3.2
:
:
:
samtools-0.1.19/bam.h~
cd samtools-0.1.19
patch < ../Makefile-bioruby.patch
patching file Makefile
patch < ../Makefile-suse.patch
patching file Makefile
Hunk #1 succeeded at 15 with fuzz 1 (offset 2 lines).
rake aborted!
NameError: uninitialized constant Config
/home/tad/.rvm/gems/ruby-head/gems/bio-samtools-2.3.2/ext/Rakefile:23:in block (2 levels) in <top (required)>' /home/tad/.rvm/gems/ruby-head/gems/bio-samtools-2.3.2/ext/Rakefile:19:in block in <top (required)>'
Tasks: TOP => default => compile
(See full trace by running task with --trace)

rake failed, exit code 1

Gem files will remain installed in /home/tad/.rvm/gems/ruby-head/gems/bio-samtools-2.3.2 for inspection.
Results logged to /home/tad/.rvm/gems/ruby-head/extensions/x86_64-linux/2.3.0/bio-samtools-2.3.2/gem_make.out

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