Nacho Caballero nachocab
nachocab
/ brew install -v gawk
Created
June 9, 2012 12:02
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| brew install -v gawk | |
| ==> Downloading http://ftpmirror.gnu.org/gawk/gawk-4.0.1.tar.xz | |
| Already downloaded: /Library/Caches/Homebrew/gawk-4.0.1.tar.xz | |
| xz -dc "/Library/Caches/Homebrew/gawk-4.0.1.tar.xz" | /usr/bin/tar xf - | |
| ==> ./configure --prefix=/usr/local/Cellar/gawk/4.0.1 | |
| ./configure --prefix=/usr/local/Cellar/gawk/4.0.1 | |
| checking for a BSD-compatible install... ./install-sh -c | |
| checking whether build environment is sane... yes | |
| checking for a thread-safe mkdir -p... ./install-sh -c -d | |
| checking for gawk... no |
nachocab
/ brew install gawk (without libiconv)
Created
June 9, 2012 02:37
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| brew install gawk | |
| ==> Downloading http://ftpmirror.gnu.org/gawk/gawk-4.0.1.tar.xz | |
| Already downloaded: /Library/Caches/Homebrew/gawk-4.0.1.tar.xz | |
| ==> ./configure --prefix=/usr/local/Cellar/gawk/4.0.1 | |
| dyld: Library not loaded: /usr/local/lib/libiconv.2.dylib | |
| Referenced from: /usr/local/bin/cat | |
| Reason: Incompatible library version: cat requires version 8.0.0 or later, but libiconv.2.dylib provides version 7.0.0 | |
| ./configure: line 2184: 38948 Trace/BPT trap: 5 cat > config.log <<_ACEOF | |
| This file contains any messages produced by compilers while | |
| running configure, to aid debugging if configure makes a mistake. |
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| brew install -f https://raw.github.com/Homebrew/homebrew-dupes/master/libiconv.rb | |
| /usr/local/Library/Homebrew/global.rb:65: warning: Insecure world writable dir /usr/local in PATH, mode 040777 | |
| /usr/local/bin/brew:74: warning: Insecure world writable dir /usr/local in PATH, mode 040777 | |
| ######################################################################## 100.0% | |
| /usr/local/Library/Homebrew/build.rb:7: warning: Insecure world writable dir /usr/local in PATH, mode 040777 | |
| ==> Downloading http://ftpmirror.gnu.org/libiconv/libiconv-1.14.tar.gz | |
| Already downloaded: /Library/Caches/Homebrew/libiconv-1.14.tar.gz | |
| ==> Downloading patches | |
| ######################################################################## 100.0% | |
| ######################################################################## 100.0% |
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| This file contains any messages produced by compilers while | |
| running configure, to aid debugging if configure makes a mistake. | |
| It was created by GNU Awk configure 4.0.1, which was | |
| generated by GNU Autoconf 2.68. Invocation command line was | |
| $ ./configure --prefix=/usr/local/Cellar/gawk/4.0.1 | |
| ## --------- ## | |
| ## Platform. ## |
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| brew --config | |
| HOMEBREW_VERSION: 0.9 | |
| HEAD: bc10e9fc3ef8483e5a9fd4b3bafa3e0021599deb | |
| HOMEBREW_PREFIX: /usr/local | |
| HOMEBREW_CELLAR: /usr/local/Cellar | |
| CPU: dual-core 64-bit penryn | |
| OS X: 10.7.3 | |
| Kernel Architecture: x86_64 | |
| Xcode: 4.3.2 | |
| GCC-4.0: build 5494 |
nachocab
/ FIle.sublime-settings.json
Created
June 5, 2012 14:27
— forked from etrepat/FIle.sublime-settings.json
Sublime Text 2 - My Settings
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| { | |
| // Sets the colors used within the text area | |
| "color_scheme": "Packages/Color Scheme - Default/Monokai.tmTheme", | |
| // Note that the font_face and font_size are overriden in the platform | |
| // specific settings file, for example, "Base File (Linux).sublime-settings". | |
| // Because of this, setting them here will have no effect: you must set them | |
| // in your User File Preferences. | |
| "font_face": "Monaco", | |
| "font_size": 12, |
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| gene_name | lassa_day_0 | lassa_day_3 | lassa_day_6 | lassa_day_8 | lassa_day_10 | lassa_day_12 | marburg_day_0 | marburg_day_1 | marburg_day_3 | marburg_day_5 | marburg_day_7 | marburg_day_9 | ebola2_day_0 | ebola2_day_1 | ebola2_day_3 | ebola2_day_4 | ebola2_day_5 | ebola2_day_6 | ebola2_day_7 | ebola2_day_8 | lcmv_day_1 | lcmv_day_2 | lcmv_day_3 | lcmv_day_4 | lcmv_day_6 | lcmv_day_7 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| GENE_1 | 0 | 0.685 | 1.047 | 1.020 | 0.957 | 8e-01 | 0 | -0.855 | -1e+00 | -1.546 | -1.359 | -1.077 | 0 | -6e-01 | -0.219 | 1.295 | 0.923 | 1.216 | 1e+00 | 1.632 | 0.550218483523337 | -0.117805570597282 | 0.0732205574710542 | -0.564914153485835 | -0.359415199104997 | 0.00898927502093986 | |
| GENE_2 | 0 | 2.459 | 3.299 | 3.086 | 2.658 | 3e+00 | 0 | 0.193 | 9e-01 | 1.433 | 1.246 | 1.091 | 0 | -1e-01 | 0.392 | 2.142 | 2.734 | 3.863 | 4e+00 | 4.216 | -0.0754593963815329 | 0.0967734690139892 | 0.28316769523287 | -0.412279746153753 | -0.324753442770228 | 0.288227993676913 | |
| GENE_3 | 0 | 0.121 | 2.131 | 1.628 | 1.561 | 1e+00 | 0 | -0.939 | -1e+00 | -1.544 | -1.632 | -1.055 | 0 | 2e-02 | -0.049 | 0.008 | 0.393 | 1.031 | 3e-01 | 0.324 | 0.0499325227230727 | -0.0397401531526083 | 0.2124328794823 | 0.0731657480808578 | 0.0189570855935306 | -0.01848 |
nachocab
/ viterbi.rb
Created
October 10, 2011 16:12
— forked from misshie/viterbi.rb
A Ruby implementation of the Viterbi algorithm based on the hidden Markov model (HMM)
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| # A Ruby implementation of | |
| # the Viterbi algorithm based on the hidden Markov model (HMM) | |
| # | |
| # An original Python code: a Wikipedia page "Viterbi algorithm" at | |
| # http://en.wikipedia.org/wiki/Viterbi_algorithm | |
| # | |
| # Author: MISHIMA, Hiroyuki | |
| # | |
| require 'pp' |
nachocab
/ Ruby racer problem
Created
January 2, 2011 16:14
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| irb(main):002:0> require 'v8' | |
| LoadError: dlopen(/usr/local/lib/ruby/gems/1.8/gems/therubyracer-0.8.0/ext/v8/v8.bundle, 9): no suitable image found. Did find: | |
| /usr/local/lib/ruby/gems/1.8/gems/therubyracer-0.8.0/ext/v8/v8.bundle: mach-o, but wrong architecture - /usr/local/lib/ruby/gems/1.8/gems/therubyracer-0.8.0/ext/v8/v8.bundle | |
| from /usr/local/lib/ruby/gems/1.8/gems/therubyracer-0.8.0/ext/v8/v8.bundle | |
| from /usr/local/lib/ruby/site_ruby/1.8/rubygems/custom_require.rb:31:in `require' | |
| from /usr/local/lib/ruby/gems/1.8/gems/therubyracer-0.8.0/lib/v8.rb:6 | |
| from /usr/local/lib/ruby/site_ruby/1.8/rubygems/custom_require.rb:36:in `gem_original_require' | |
| from /usr/local/lib/ruby/site_ruby/1.8/rubygems/custom_require.rb:36:in `require' | |
| from (irb):2 | |
| irb(main):003:0> |
nachocab
/ gist:246478
Created
December 1, 2009 17:42
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| > rbbt_config update organisms -o sgd | |
| Changing directory to /Users/nachocab/rbbt/data/organisms | |
| cd /Users/nachocab/rbbt/data/organisms | |
| Updating sgd | |
| /usr/local/lib/ruby/gems/1.8/gems/rbbt-1.0.3/lib/rbbt/util/arrayHash.rb:192:in `initialize': undefined method `length' for nil:NilClass (NoMethodError) | |
| from ./../rake-include.rb:25:in `new' | |
| from ./../rake-include.rb:25 | |
| from /Users/nachocab/.gem/ruby/1.8/gems/rake-0.8.7/lib/rake.rb:636:in `call' | |
| from /Users/nachocab/.gem/ruby/1.8/gems/rake-0.8.7/lib/rake.rb:636:in `execute' | |
| from /Users/nachocab/.gem/ruby/1.8/gems/rake-0.8.7/lib/rake.rb:631:in `each' |