agrimm

C:\Documents and Settings\Andrew>gem install bananajour
ERROR:  Error installing bananajour:
        thin requires eventmachine (>= 0.12.0, runtime)

(a little bit later...)

#Downloading eventmachine doesn't work. Perhaps its an OS-related thing, as eventmachine has specific versions for Windows

C:\Documents and Settings\Andrew>gem install eventmachine
ERROR:  could not find gem eventmachine locally or in a repository

agrimm

C:\Documents and Settings\Andrew>heckle
c:/ruby/lib/ruby/gems/1.8/gems/RubyInline-3.8.4/lib/inline.rb:584:in ``': No such file or directory - cl -nologo -LD   -MD -Zi -O2b2xg- -G6 -I c:/ruby/lib/ruby/1.8/i386-mswin32  -I c:/ruby/include -Lc:/ruby/lib -o "C:\\Documents and Settings\\Andrew/.ruby_inline/Inline_RawParseTree_ab80.so" "C:/Documents and Settings/Andrew/.ruby_inline/Inline_RawParseTree_ab80.c"   -link /LIBPATH:"c:/ruby/lib" /DEFAULTLIB:"msvcrt-ruby18.lib" /INCREMENTAL:no /EXPORT:Init_Inline_RawParseTree_ab80 (Errno::ENOENT)
        from c:/ruby/lib/ruby/gems/1.8/gems/RubyInline-3.8.4/lib/inline.rb:584:in `build'
        from c:/ruby/lib/ruby/gems/1.8/gems/RubyInline-3.8.4/lib/inline.rb:827:in `inline'
        from c:/ruby/lib/ruby/gems/1.8/gems/ParseTree-3.0.4/lib/parse_tree.rb:250
        from c:/ruby/lib/ruby/site_ruby/1.8/rubygems/custom_require.rb:31:in `gem_original_require'
        from c:/ruby/lib/ruby/site_ruby/1.8/rubygems/custom_require.rb:31:in `require'
        from c:/ruby/lib/ruby/gems

agrimm

Last login: Sat Jan  9 20:01:44 on ttys001
192-168-1-5:~ agrimm$ sudo port install xeyes
Password:
--->  Computing dependencies for xeyes
--->  Fetching groff
--->  Attempting to fetch groff-1.20.1.tar.gz from http://mirror.pacific.net.au/pub1/gnu/gnu/groff
--->  Verifying checksum(s) for groff
--->  Extracting groff
--->  Configuring groff
--->  Building groff

agrimm

#Note: this was done 5 days ago (ie prior to the previous gist)

192-168-1-2:~ agrimm$ sudo port install emboss
Password:
--->  Computing dependencies for EMBOSS
--->  Fetching EMBOSS
--->  Attempting to fetch EMBOSS-6.0.1.tar.gz from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/EMBOSS
--->  Verifying checksum(s) for EMBOSS
--->  Extracting EMBOSS
--->  Configuring EMBOSS

agrimm

Disclaimer: as far as I can tell, the only difference between the two emboss installation attempts is installing xeyes, but I'm not 100% certain.

#==============================================================
#Two attempts at installing emboss before I tried installing xeyes, one without -d, one with -d
#Note: another couple of attempts prior to this can be seen in http://gist.github.com/272838
#==============================================================

Last login: Sat Jan  9 19:51:26 on console
192-168-1-5:~ agrimm$ port list emboss
EMBOSS                         @6.0.1          science/EMBOSS

agrimm

192-168-1-6:~ agrimm$ sudo port install mysql5 +server
--->  Computing dependencies for mysql5
--->  Fetching mysql5
--->  Attempting to fetch mysql-5.1.42.tar.gz from http://aarnet.au.distfiles.macports.org/pub/macports/mpdistfiles/mysql5
--->  Verifying checksum(s) for mysql5
--->  Extracting mysql5
--->  Applying patches to mysql5
--->  Configuring mysql5
--->  Building mysql5
--->  Staging mysql5 into destroot

agrimm

#Failing to set up config/database.yml caused issue, as did missing gems.

192-168-1-6:ruby agrimm$ git clone git://github.com/eol/eol.git eol-blessed
Initialized empty Git repository in /Users/agrimm/ruby/eol-blessed/.git/
remote: Counting objects: 18938, done.
remote: Compressing objects: 100% (9244/9244), done.
remote: Total 18938 (delta 9672), reused 17880 (delta 8895)
Receiving objects: 100% (18938/18938), 73.39 MiB | 133 KiB/s, done.
Resolving deltas: 100% (9672/9672), done.
Checking out files: 100% (6210/6210), done.

agrimm

###################
# One kind of error
###################

192-168-1-2:alignment_threading_replication agrimm$ rake
(in /Users/agrimm/ruby/alignment_threading_replication)
Loaded suite test/test_multithreaded_alignment
Started

agrimm

See also http://gist.github.com/286775

#This test used 5 threads, and 500 alignments.
Andrew-Grimms-MacBook-Pro:alignment_threading_replication agrimm$ rake
(in /Users/agrimm/ruby/alignment_threading_replication)
Loaded suite test/test_multithreaded_alignment
Started
F
Finished in 3.202942 seconds.

agrimm

Note: This is based on the following zombie-chaser commit:

commit 20173f84a936fb41109c765d8ea080fb0793b403
Author: Andrew Grimm <[email protected]>
Date:   Sun Apr 4 17:34:52 2010 +1000

    Failed attempt at collision avoidance.

C:\Documents and Settings\Andrew\Desktop\code\zombie-chaser>ruby test\integration.rb
Loaded suite test/integration