maasha

maasha@maxwell:~/data$ unzip qiime_tutorial-v1.5.0.zip 
Archive:  qiime_tutorial-v1.5.0.zip
   creating: qiime_tutorial-v1.5.0/
   creating: qiime_tutorial-v1.5.0/18S_tutorial_files/
  inflating: qiime_tutorial-v1.5.0/18S_tutorial_files/18S_tutorial_sample_seqs.fna  
  inflating: qiime_tutorial-v1.5.0/Fasting_Example.fna  
  inflating: qiime_tutorial-v1.5.0/Fasting_Example.qual  
  inflating: qiime_tutorial-v1.5.0/Fasting_Example.sff  
  inflating: qiime_tutorial-v1.5.0/Fasting_Example.sff.txt  
  inflating: qiime_tutorial-v1.5.0/Fasting_Map.txt  

maasha

maasha@maxwell:~/data/qiime_tutorial-v1.5.0$ print_qiime_config.py -t

System information
==================
         Platform:      linux2
   Python version:      2.7.3 (default, Jan 28 2013, 09:50:08)  [GCC 4.4.5]
Python executable:      /disk/orsted/install/maasha/QIIME1.6/bin/python

Dependency versions
===================

maasha

#!/usr/bin/env perl

use warnings;
use strict;

use Data::Dumper;

# Lea Benedicte Skov Hansen, Mar 2013
# This program reads a table, sums the rows and create a histogram of the sums

maasha

#!/usr/bin/perl -w

use strict;

# Lea Benedicte Skov Hansen, Mar 2013
# This program reads a table, sums the rows and create a histogram of the sums

my $input = 'test_count.txt';                      #'count.matrix.ratio_new';
my $output = 'row_sum_his.txt';
my $interval = 5;

maasha

my %names = ();
while (defined (my $line = <START>)) {
   chomp $line;
   $names{$line};
}

maasha

#!/usr/bin/perl -w

use strict;

# Filenames
my $start10 = 'start10.dat';
my $res10 = 'res10.dat';

# Opening the files
open (START, '<', $start10) or die "Could not read file\n";

maasha

rake routes
    user_scaffolds GET    /users/:user_id/scaffolds(.:format)          scaffolds#index
                   POST   /users/:user_id/scaffolds(.:format)          scaffolds#create
 new_user_scaffold GET    /users/:user_id/scaffolds/new(.:format)      scaffolds#new
edit_user_scaffold GET    /users/:user_id/scaffolds/:id/edit(.:format) scaffolds#edit
     user_scaffold GET    /users/:user_id/scaffolds/:id(.:format)      scaffolds#show
                   PUT    /users/:user_id/scaffolds/:id(.:format)      scaffolds#update
                   DELETE /users/:user_id/scaffolds/:id(.:format)      scaffolds#destroy
             users GET    /users(.:format)                             users#index
                   POST   /users(.:format)                             users#create

maasha

require 'spec_helper'
  
describe "Scaffold pages" do
  subject { page }
    
  describe "index" do
    let(:user) { FactoryGirl.create(:user) }
    
    before do
      sign_in user

maasha

FactoryGirl.define do
  factory :user do
    sequence(:name)  { |n| "Person #{n}" }
    sequence(:email) { |n| "person_#{n}@example.com"}
    password "foobar"
    password_confirmation "foobar"

    factory :admin do
      admin true
    end

maasha

require 'spec_helper'

describe "Scaffold pages" do
  subject { page }
    
  describe "index" do
    let(:user) { FactoryGirl.create(:user) }

    before do
      sign_in user