dep-selector
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chef
OSX: With homebrew GeCode 4.x installed, gem doesn't work
NOTE this is copied from https://github.com/opscode/dep-selector-libgecode/issues/10
What happened
- Install GeCode 4.x:
brew install gecode - Install
dep-selector-libgecode1.0.0:gem install dep-selector-libgecode -v 1.0.0 - Run ruby code that uses it (e.g. berks 3.0.0.rc1):
berks
/usr/local/var/rbenv/versions/2.0.0-p451/lib/ruby/gems/2.0.0/gems/ffi-1.9.3/lib/ffi/library.rb:133:in `block in ffi_lib': Could not open library '/usr/local/var/rbenv/versions/2.
0.0-p451/lib/ruby/gems/2.0.0/gems/dep_selector-1.0.0/lib/dep_gecode.bundle': dlopen(/usr/local/var/rbenv/versions/2.0.0-p451/lib/ruby/gems/2.0.0/gems/dep_selector-1.0.0/lib/dep_g
ecode.bundle, 5): Symbol not found: __ZN6Gecode16ValBranchOptions3defE (LoadError)
Referenced from: /usr/local/var/rbenv/versions/2.0.0-p451/lib/ruby/gems/2.0.0/gems/dep_selector-1.0.0/lib/dep_gecode.bundle
Expected in: flat namespace
Workaround
- uninstall 'dep-selector-libgecode':
gem uninstall dep-selector-libgecode dep_selector - uninstall 'gecode':
brew uninstall gecode - reinstall
dep-selector-libgecode:gem install dep-selector-libgecode -v 1.0.0
Notes
I wonder if an RPATH isn't being set right or something.
@docwhat This is caused by an issue in ruby. On this line: https://github.com/opscode/dep-selector/blob/master/ext/dep_gecode/extconf.rb#L31 we ask ruby to check if it can find the gecode library in dep-selector-libgecode. Ruby uses the value of RbConfig::MAKEFILE_CONFIG['RPATHFLAG'] to add path stuff for each path you add via find_library On my mac, RbConfig::MAKEFILE_CONFIG['RPATHFLAG'] == "" whereas on my linux box it's: " -Wl,-R%1$-s".
I'm at chefconf this week so I don't have a ton of free time, but I'd like to research whether there is a fix in ruby for this problem before trying to implement a workaround in dep-selector.
Also, this is pretty weird (results of otool -l $(gem which dep_gecode)):
/Users/ddeleo/.rbenv/versions/2.0.0-p247/lib/ruby/site_ruby/2.0.0/x86_64-darwin12.4.0/dep_gecode.bundle:
Load command 0
cmd LC_SEGMENT_64
cmdsize 712
segname __TEXT
vmaddr 0x0000000000000000
vmsize 0x000000000001c000
fileoff 0
filesize 114688
maxprot 0x00000007
initprot 0x00000005
nsects 8
flags 0x0
Section
sectname __text
segname __TEXT
addr 0x0000000000001290
size 0x00000000000187bb
offset 4752
align 2^4 (16)
reloff 0
nreloc 0
flags 0x80000400
reserved1 0
reserved2 0
Section
sectname __stubs
segname __TEXT
addr 0x0000000000019a4c
size 0x0000000000000378
offset 105036
align 2^1 (2)
reloff 0
nreloc 0
flags 0x80000408
reserved1 0 (index into indirect symbol table)
reserved2 6 (size of stubs)
Section
sectname __stub_helper
segname __TEXT
addr 0x0000000000019dc4
size 0x00000000000002ea
offset 105924
align 2^2 (4)
reloff 0
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flags 0x80000400
reserved1 0
reserved2 0
Section
sectname __gcc_except_tab
segname __TEXT
addr 0x000000000001a0b0
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offset 106672
align 2^2 (4)
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align 2^0 (1)
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addr 0x000000000001baf0
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offset 113392
align 2^4 (16)
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Section
sectname __unwind_info
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addr 0x000000000001bccb
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offset 113867
align 2^0 (1)
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Section
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segname __TEXT
addr 0x000000000001bf88
size 0x0000000000000070
offset 114568
align 2^3 (8)
reloff 0
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flags 0x00000000
reserved1 0
reserved2 0
Load command 1
cmd LC_SEGMENT_64
cmdsize 552
segname __DATA
vmaddr 0x000000000001c000
vmsize 0x0000000000001000
fileoff 114688
filesize 4096
maxprot 0x00000007
initprot 0x00000003
nsects 6
flags 0x0
Section
sectname __got
segname __DATA
addr 0x000000000001c000
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offset 114688
align 2^3 (8)
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flags 0x00000006
reserved1 148 (index into indirect symbol table)
reserved2 0
Section
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addr 0x000000000001c0e0
size 0x0000000000000010
offset 114912
align 2^3 (8)
reloff 0
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reserved1 176 (index into indirect symbol table)
reserved2 0
Section
sectname __la_symbol_ptr
segname __DATA
addr 0x000000000001c0f0
size 0x00000000000004a0
offset 114928
align 2^3 (8)
reloff 0
nreloc 0
flags 0x00000007
reserved1 178 (index into indirect symbol table)
reserved2 0
Section
sectname __const
segname __DATA
addr 0x000000000001c590
size 0x0000000000000058
offset 116112
align 2^4 (16)
reloff 0
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flags 0x00000000
reserved1 0
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Section
sectname __data
segname __DATA
addr 0x000000000001c5f0
size 0x00000000000003c8
offset 116208
align 2^4 (16)
reloff 0
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flags 0x00000000
reserved1 0
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Section
sectname __common
segname __DATA
addr 0x000000000001c9b8
size 0x0000000000000004
offset 0
align 2^2 (4)
reloff 0
nreloc 0
flags 0x00000001
reserved1 0
reserved2 0
Load command 2
cmd LC_SEGMENT_64
cmdsize 72
segname __LINKEDIT
vmaddr 0x000000000001d000
vmsize 0x0000000000008000
fileoff 118784
filesize 31592
maxprot 0x00000007
initprot 0x00000001
nsects 0
flags 0x0
Load command 3
cmd LC_DYLD_INFO_ONLY
cmdsize 48
rebase_off 118784
rebase_size 80
bind_off 118864
bind_size 1792
weak_bind_off 120656
weak_bind_size 1056
lazy_bind_off 121712
lazy_bind_size 3656
export_off 125368
export_size 2568
Load command 4
cmd LC_SYMTAB
cmdsize 24
symoff 128456
nsyms 342
stroff 135232
strsize 15144
Load command 5
cmd LC_DYSYMTAB
cmdsize 80
ilocalsym 0
nlocalsym 151
iextdefsym 151
nextdefsym 83
iundefsym 234
nundefsym 108
tocoff 0
ntoc 0
modtaboff 0
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indirectsymoff 133928
nindirectsyms 326
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Load command 6
cmd LC_UUID
cmdsize 24
uuid 3C50CFB1-8212-3977-B39B-4E6609162C9A
Load command 7
cmd LC_VERSION_MIN_MACOSX
cmdsize 16
version 10.9
sdk 10.9
Load command 8
cmd LC_SOURCE_VERSION
cmdsize 16
version 0.0
Load command 9
cmd LC_LOAD_DYLIB
cmdsize 64
name /usr/local/lib/libgecodesearch.32.dylib (offset 24)
time stamp 2 Wed Dec 31 16:00:02 1969
current version 32.0.0
compatibility version 32.0.0
Load command 10
cmd LC_LOAD_DYLIB
cmdsize 72
name /usr/local/lib/libgecodeminimodel.32.dylib (offset 24)
time stamp 2 Wed Dec 31 16:00:02 1969
current version 32.0.0
compatibility version 32.0.0
Load command 11
cmd LC_LOAD_DYLIB
cmdsize 64
name /usr/local/lib/libgecodeint.32.dylib (offset 24)
time stamp 2 Wed Dec 31 16:00:02 1969
current version 32.0.0
compatibility version 32.0.0
Load command 12
cmd LC_LOAD_DYLIB
cmdsize 64
name /usr/local/lib/libgecodekernel.32.dylib (offset 24)
time stamp 2 Wed Dec 31 16:00:02 1969
current version 32.0.0
compatibility version 32.0.0
Load command 13
cmd LC_LOAD_DYLIB
cmdsize 72
name /usr/local/lib/libgecodesupport.32.dylib (offset 24)
time stamp 2 Wed Dec 31 16:00:02 1969
current version 32.0.0
compatibility version 32.0.0
Load command 14
cmd LC_LOAD_DYLIB
cmdsize 56
name /usr/lib/libSystem.B.dylib (offset 24)
time stamp 2 Wed Dec 31 16:00:02 1969
current version 1197.1.1
compatibility version 1.0.0
Load command 15
cmd LC_LOAD_DYLIB
cmdsize 56
name /usr/lib/libobjc.A.dylib (offset 24)
time stamp 2 Wed Dec 31 16:00:02 1969
current version 228.0.0
compatibility version 1.0.0
Load command 16
cmd LC_LOAD_DYLIB
cmdsize 48
name /usr/lib/libc++.1.dylib (offset 24)
time stamp 2 Wed Dec 31 16:00:02 1969
current version 120.0.0
compatibility version 1.0.0
Load command 17
cmd LC_FUNCTION_STARTS
cmdsize 16
dataoff 127936
datasize 232
Load command 18
cmd LC_DATA_IN_CODE
cmdsize 16
dataoff 128168
datasize 0
Load command 19
cmd LC_DYLIB_CODE_SIGN_DRS
cmdsize 16
dataoff 128168
datasize 288
Note this part:
Load command 13
cmd LC_LOAD_DYLIB
cmdsize 72
name /usr/local/lib/libgecodesupport.32.dylib (offset 24)
time stamp 2 Wed Dec 31 16:00:02 1969
current version 32.0.0
That doesn't exist on my system.
I was thinking about it on the way home. It can't just be an RPATH problem or brew uninstall would fix it. And brew installing gecode afterwards would break it.
If your custom downloading/compiling gecode anyway, why not static link it?
On my home laptop, I get:
$ otool -L /usr/local/var/rbenv/versions/2.0.0-p451/lib/ruby/gems/2.0.0/gems/dep_selector-1.0.2/lib/dep_gecode.bundle
/usr/local/var/rbenv/versions/2.0.0-p451/lib/ruby/gems/2.0.0/gems/dep_selector-1.0.2/lib/dep_gecode.bundle:
/usr/local/var/rbenv/versions/2.0.0-p451/lib/ruby/gems/2.0.0/gems/dep-selector-libgecode-1.0.0/lib/dep-selector-libgecode/vendored-gecode/lib/libgecodesearch.32.dylib (compatibility version 32.0.0, current version 32.0.0)
/usr/local/var/rbenv/versions/2.0.0-p451/lib/ruby/gems/2.0.0/gems/dep-selector-libgecode-1.0.0/lib/dep-selector-libgecode/vendored-gecode/lib/libgecodeminimodel.32.dylib (compatibility version 32.0.0, current version 32.0.0)
/usr/local/var/rbenv/versions/2.0.0-p451/lib/ruby/gems/2.0.0/gems/dep-selector-libgecode-1.0.0/lib/dep-selector-libgecode/vendored-gecode/lib/libgecodeint.32.dylib (compatibility version 32.0.0, current version 32.0.0)
/usr/local/var/rbenv/versions/2.0.0-p451/lib/ruby/gems/2.0.0/gems/dep-selector-libgecode-1.0.0/lib/dep-selector-libgecode/vendored-gecode/lib/libgecodekernel.32.dylib (compatibility version 32.0.0, current version 32.0.0)
/usr/local/var/rbenv/versions/2.0.0-p451/lib/ruby/gems/2.0.0/gems/dep-selector-libgecode-1.0.0/lib/dep-selector-libgecode/vendored-gecode/lib/libgecodesupport.32.dylib (compatibility version 32.0.0, current version 32.0.0)
/usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1197.1.1)
/usr/lib/libobjc.A.dylib (compatibility version 1.0.0, current version 228.0.0)
/usr/lib/libc++.1.dylib (compatibility version 1.0.0, current version 120.0.0)
Just as another data point, on a Fedora 20 box with gecode 4 system package installed I couldn't get dep-solver gem to correctly link until I removed the gecode package and ruby -rrbconfig -e 'p RbConfig::MAKEFILE_CONFIG["RPATHFLAG"]' is " -Wl,-R%1$-s"
It looks lie the the gecode 4 package provides .so.36 libraries which dep-solver was preferentially linking to instead of the .so.32 included in the vendored version so setting LD_LIBRARY_PATH wasn't even an option. I had to remove the packages and then reinstall dep-solver.
I am also experiencing what appears to be this issue, but to no avail. When I try and run berks I get
/home/scarman/.rvm/gems/ruby-2.1.0/gems/ffi-1.9.3/lib/ffi/library.rb:133:in `block in ffi_lib': Could not open library '/home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/dep-selector-7a75df69ae48/lib/dep_gecode.so': libgecodesearch.so.32: cannot open shared object file: No such file or directory (LoadError)
from /home/scarman/.rvm/gems/ruby-2.1.0/gems/ffi-1.9.3/lib/ffi/library.rb:100:in `map'
from /home/scarman/.rvm/gems/ruby-2.1.0/gems/ffi-1.9.3/lib/ffi/library.rb:100:in `ffi_lib'
from /home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/dep-selector-7a75df69ae48/lib/dep_selector/dep_gecode.rb:39:in `<module:Dep_gecode>'
from /home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/dep-selector-7a75df69ae48/lib/dep_selector/dep_gecode.rb:21:in `<top (required)>'
from /home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/dep-selector-7a75df69ae48/lib/dep_selector/gecode_wrapper.rb:21:in `require'
from /home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/dep-selector-7a75df69ae48/lib/dep_selector/gecode_wrapper.rb:21:in `<top (required)>'
from /home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/dep-selector-7a75df69ae48/lib/dep_selector/dependency_graph.rb:21:in `require'
from /home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/dep-selector-7a75df69ae48/lib/dep_selector/dependency_graph.rb:21:in `<top (required)>'
from /home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/dep-selector-7a75df69ae48/lib/dep_selector/selector.rb:21:in `require'
from /home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/dep-selector-7a75df69ae48/lib/dep_selector/selector.rb:21:in `<top (required)>'
from /home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/dep-selector-7a75df69ae48/lib/dep_selector.rb:22:in `require'
from /home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/dep-selector-7a75df69ae48/lib/dep_selector.rb:22:in `<top (required)>'
from /home/scarman/.rvm/gems/ruby-2.1.0/gems/solve-1.2.0/lib/solve/solver.rb:1:in `require'
from /home/scarman/.rvm/gems/ruby-2.1.0/gems/solve-1.2.0/lib/solve/solver.rb:1:in `<top (required)>'
from /home/scarman/.rvm/gems/ruby-2.1.0/gems/solve-1.2.0/lib/solve.rb:10:in `require_relative'
from /home/scarman/.rvm/gems/ruby-2.1.0/gems/solve-1.2.0/lib/solve.rb:10:in `<module:Solve>'
from /home/scarman/.rvm/gems/ruby-2.1.0/gems/solve-1.2.0/lib/solve.rb:3:in `<top (required)>'
from /home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/berkshelf-c1063cb4fa84/lib/berkshelf.rb:8:in `require'
from /home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/berkshelf-c1063cb4fa84/lib/berkshelf.rb:8:in `<top (required)>'
from /home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/berkshelf-c1063cb4fa84/lib/berkshelf/cli.rb:1:in `require'
from /home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/berkshelf-c1063cb4fa84/lib/berkshelf/cli.rb:1:in `<top (required)>'
from /home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/berkshelf-c1063cb4fa84/bin/berks:3:in `require'
from /home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/berkshelf-c1063cb4fa84/bin/berks:3:in `<top (required)>'
from /home/scarman/.rvm/gems/ruby-2.1.0/bin/berks:23:in `load'
from /home/scarman/.rvm/gems/ruby-2.1.0/bin/berks:23:in `<main>'
from /home/scarman/.rvm/gems/ruby-2.1.0/bin/ruby_executable_hooks:15:in `eval'
from /home/scarman/.rvm/gems/ruby-2.1.0/bin/ruby_executable_hooks:15:in `<main>'
Uninstall of the gecode doesn't do anything. When I reinstall the gem I get this
gem install dep-selector-libgecode -v 1.0.0
Fetching: dep-selector-libgecode-1.0.0.gem (100%)
Building native extensions. This could take a while...
Successfully installed dep-selector-libgecode-1.0.0
Parsing documentation for dep-selector-libgecode-1.0.0
unable to convert "\xE9" from ASCII-8BIT to UTF-8 for ext/libgecode3/vendor/gecode-3.7.3/Makefile, skipping
unable to convert "\xEB" from ASCII-8BIT to UTF-8 for ext/libgecode3/vendor/gecode-3.7.3/changelog.in, skipping
unable to convert "\x8E" from ASCII-8BIT to UTF-8 for ext/libgecode3/vendor/gecode-3.7.3/contribs/qecode/QCOPPlus.cc, skipping
unable to convert "\xFC" from ASCII-8BIT to UTF-8 for ext/libgecode3/vendor/gecode-3.7.3/examples/bin-packing.cpp, skipping
unable to convert "\xEA" from ASCII-8BIT to UTF-8 for ext/libgecode3/vendor/gecode-3.7.3/examples/black-hole.cpp, skipping
unable to convert "\xD6" from ASCII-8BIT to UTF-8 for ext/libgecode3/vendor/gecode-3.7.3/examples/dominating-queens.cpp, skipping
unable to convert "\xEF" from ASCII-8BIT to UTF-8 for ext/libgecode3/vendor/gecode-3.7.3/gecode.m4, skipping
unable to convert "\xED" from ASCII-8BIT to UTF-8 for ext/libgecode3/vendor/gecode-3.7.3/gecode/int.hh, skipping
unable to convert "\xED" from ASCII-8BIT to UTF-8 for ext/libgecode3/vendor/gecode-3.7.3/gecode/int/cumulative.hh, skipping
unable to convert "\xE9" from ASCII-8BIT to UTF-8 for ext/libgecode3/vendor/gecode-3.7.3/gecode/int/distinct.hh, skipping
unable to convert "\xF3" from ASCII-8BIT to UTF-8 for ext/libgecode3/vendor/gecode-3.7.3/gecode/int/gcc.hh, skipping
unable to convert "\xE4" from ASCII-8BIT to UTF-8 for ext/libgecode3/vendor/gecode-3.7.3/gecode/int/sorted.hh, skipping
unable to convert "\xED" from ASCII-8BIT to UTF-8 for ext/libgecode3/vendor/gecode-3.7.3/gecode/int/unary.hh, skipping
unable to convert "\xED" from ASCII-8BIT to UTF-8 for lib/dep-selector-libgecode/vendored-gecode/include/gecode/int.hh, skipping
unable to convert "\xED" from ASCII-8BIT to UTF-8 for lib/dep-selector-libgecode/vendored-gecode/include/gecode/int/cumulative.hh, skipping
unable to convert "\xE9" from ASCII-8BIT to UTF-8 for lib/dep-selector-libgecode/vendored-gecode/include/gecode/int/distinct.hh, skipping
unable to convert "\xF3" from ASCII-8BIT to UTF-8 for lib/dep-selector-libgecode/vendored-gecode/include/gecode/int/gcc.hh, skipping
unable to convert "\xE4" from ASCII-8BIT to UTF-8 for lib/dep-selector-libgecode/vendored-gecode/include/gecode/int/sorted.hh, skipping
unable to convert "\xED" from ASCII-8BIT to UTF-8 for lib/dep-selector-libgecode/vendored-gecode/include/gecode/int/unary.hh, skipping
Installing ri documentation for dep-selector-libgecode-1.0.0
Done installing documentation for dep-selector-libgecode after 10 seconds
1 gem installed
Hopefully this is relevant.
All the stuff after Parsing documentation for dep-selector-libgecode-1.0.0 is just noise, rdoc is trying to parse binary files and gecode source as if it were ruby to generate documentation. I've been looking for the right rdoc options to suppress that, but haven't gotten it working yet.
@hntd187 I think your issue is different than this one. If you had this issue you'd be seeing Symbol not found: __ZN6Gecode16ValBranchOptions3defE or something like that. Can you create a new ticket, and include the output of bundle show dep-selector-libgecode and readelf -d home/scarman/.rvm/gems/ruby-2.1.0/bundler/gems/dep-selector-7a75df69ae48/lib/dep_gecode.so
@danielsdeleo Well you are correct, but also when I run something like kitchen list for chef test kitchen I get the symbol error that you are describing here. I'm just trying to add extra information to what you are talking about.
Right ! sorry, I didn't see the workaround part but only the issue and the following posts ..
Thanks
Cyril SCETBON
On 05 May 2014, at 17:07, Peter Eisentraut [email protected] wrote:
The workaround listed at the top worked for me.
— Reply to this email directly or view it on GitHub.
you can lazy load the library with DL.dlopen instead of linking it at link-time:
https://github.com/lamont-granquist/ffi-yajl/blob/master/lib/ffi_yajl/ext.rb#L16
if you go down that route it has the advantage that when the dep-selector-libgecode gem is updated then it'll update the 'link' from dep-selector as well, rather than having dep-selector fixed to a version of libgecode at its install time.
there's issues with windows begin stupid and needing a shim to be able to do lazy linking.
latest ruby yanks DL.dlopen out of the standard library, however, and we have to use fiddle instead, and i haven't ported to that yet.
I got the similar error here. and the workaround listed at the top doesn't work for me.
!!!!! The berkshelf' gem is missing and must be installed or cannot be properly activated. Rungem install berkshelfor add the following to your Gemfile if you are using Bundler:gem 'berkshelf'`.
------Exception------- Class: Kitchen::UserError Message: Could not load or activate Berkshelf (Could not open library '/Users/ezhang/.chefdk/gem/ruby/2.1.0/gems/dep_selector-1.0.3/lib/dep_gecode.bundle': dlopen(/Users/ezhang/.chefdk/gem/ruby/2.1.0/gems/dep_selector-1.0.3/lib/dep_gecode.bundle, 5): Library not loaded: /usr/local/lib/libgecodesearch.36.dylib Referenced from: /Users/ezhang/.chefdk/gem/ruby/2.1.0/gems/dep_selector-1.0.3/lib/dep_gecode.bundle Reason: image not found)
OSX Same issue . Is this fixed?
------Exception------- Class: Kitchen::UserError Message: Could not load or activate Berkshelf (Could not open library '/Library/Ruby/Gems/2.0.0/gems/dep_selector-1.0.3/lib/dep_gecode.bundle': dlopen(/Library/Ruby/Gems/2.0.0/gems/dep_selector-1.0.3/lib/dep_gecode.bundle, 5): Library not loaded: /private/var/folders/q6/_4hvkps50mvdwgq1kq35x_000000gr/T/bundler20151023-6196-1t2v8ysdep-selector-libgecode-1.0.2/gems/dep-selector-libgecode-1.0.2/lib/dep-selector-libgecode/vendored-gecode/lib/libgecodesearch.32.dylib
