pubmed_search 0.3.0 → 0.4.0
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- data/Rakefile +0 -1
- data/VERSION +1 -1
- data/lib/pubmed_search.rb +7 -3
- data/pubmed_search.gemspec +3 -7
- metadata +5 -33
data/Rakefile
CHANGED
@@ -9,7 +9,6 @@ begin
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9
9
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gem.email = "rschenk@gmail.com"
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10
10
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gem.homepage = "http://github.com/rschenk/pubmed_search"
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11
11
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gem.authors = ["Ryan Schenk"]
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12
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-
gem.add_dependency 'rschenk-simple_uri_template'
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13
12
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gem.add_dependency 'nokogiri'
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14
13
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# gem is a Gem::Specification... see http://www.rubygems.org/read/chapter/20 for additional settings
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15
14
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end
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data/VERSION
CHANGED
@@ -1 +1 @@
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1
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-
0.
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1
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+
0.4.0
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data/lib/pubmed_search.rb
CHANGED
@@ -3,7 +3,6 @@ require 'open-uri'
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3
3
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4
4
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require 'rubygems'
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5
5
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require 'nokogiri'
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6
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-
require 'simple_uri_template' # sudo gem install rschenk-simple_uri_template
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7
6
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8
7
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9
8
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class PubmedSearch
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@@ -26,7 +25,7 @@ class PubmedSearch
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:email => '',
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27
26
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:load_all_pmids => false }
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28
27
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29
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-
@uri_template =
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28
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+
@uri_template = 'http://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?db=pubmed&tool={tool}&email={email}&retmax={retmax}&retstart={retstart}&term={term}'
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30
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31
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class << self
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# Performs a search to PubMed via eUtils with the given term +String+, and returns a +PubmedSearch+ object modeling the response.
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@@ -71,7 +70,7 @@ class PubmedSearch
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71
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def do_search(results, term, options)
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72
71
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wait
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73
72
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74
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-
esearch_url = @uri_template
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73
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+
esearch_url = expand_uri(@uri_template, options.merge({:term => term}))
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75
74
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doc = Nokogiri::XML( open esearch_url )
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76
75
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77
76
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results.count = doc.xpath('/eSearchResult/Count').first.content.to_i
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@@ -88,6 +87,11 @@ class PubmedSearch
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88
87
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89
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results
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end
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90
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+
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91
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+
# This is a semi-hack to do URI templating. It used to be its own gem, but shit happened.
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92
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+
def expand_uri(uri, options)
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93
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+
uri.gsub(/\{(.*?)\}/) { URI.encode( (options[$1] || options[$1.to_sym] || '').to_s ) rescue '' }
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94
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+
end
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91
95
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end
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92
96
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93
97
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data/pubmed_search.gemspec
CHANGED
@@ -5,11 +5,11 @@
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5
5
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6
6
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Gem::Specification.new do |s|
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7
7
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s.name = %q{pubmed_search}
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8
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-
s.version = "0.
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8
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+
s.version = "0.4.0"
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9
9
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10
10
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s.required_rubygems_version = Gem::Requirement.new(">= 0") if s.respond_to? :required_rubygems_version=
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11
11
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s.authors = ["Ryan Schenk"]
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12
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-
s.date = %q{
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12
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+
s.date = %q{2011-04-20}
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13
13
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s.email = %q{rschenk@gmail.com}
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14
14
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s.extra_rdoc_files = [
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15
15
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"LICENSE",
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@@ -34,7 +34,7 @@ Gem::Specification.new do |s|
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34
34
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]
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35
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s.homepage = %q{http://github.com/rschenk/pubmed_search}
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36
36
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s.require_paths = ["lib"]
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37
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-
s.rubygems_version = %q{1.
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37
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+
s.rubygems_version = %q{1.5.0}
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38
38
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s.summary = %q{A PubMed searching library with more features than BioRuby}
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39
39
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s.test_files = [
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40
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"spec/pubmed_search_spec.rb",
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@@ -42,18 +42,14 @@ Gem::Specification.new do |s|
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42
42
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]
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43
43
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44
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if s.respond_to? :specification_version then
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45
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-
current_version = Gem::Specification::CURRENT_SPECIFICATION_VERSION
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s.specification_version = 3
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47
46
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48
47
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if Gem::Version.new(Gem::VERSION) >= Gem::Version.new('1.2.0') then
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49
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-
s.add_runtime_dependency(%q<rschenk-simple_uri_template>, [">= 0"])
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48
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s.add_runtime_dependency(%q<nokogiri>, [">= 0"])
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else
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52
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-
s.add_dependency(%q<rschenk-simple_uri_template>, [">= 0"])
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53
50
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s.add_dependency(%q<nokogiri>, [">= 0"])
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end
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else
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56
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-
s.add_dependency(%q<rschenk-simple_uri_template>, [">= 0"])
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53
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s.add_dependency(%q<nokogiri>, [">= 0"])
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54
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end
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55
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end
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metadata
CHANGED
@@ -1,13 +1,8 @@
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1
1
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--- !ruby/object:Gem::Specification
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2
2
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name: pubmed_search
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3
3
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version: !ruby/object:Gem::Version
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4
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-
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5
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-
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6
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-
segments:
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7
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-
- 0
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8
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-
- 3
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9
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-
- 0
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10
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-
version: 0.3.0
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4
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+
prerelease:
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5
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+
version: 0.4.0
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platform: ruby
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7
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authors:
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- Ryan Schenk
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@@ -15,37 +10,20 @@ autorequire:
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bindir: bin
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cert_chain: []
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12
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-
date:
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+
date: 2011-04-20 00:00:00 -04:00
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default_executable:
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15
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dependencies:
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16
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- !ruby/object:Gem::Dependency
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22
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-
name:
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+
name: nokogiri
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prerelease: false
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requirement: &id001 !ruby/object:Gem::Requirement
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25
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none: false
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requirements:
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22
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- - ">="
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28
23
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- !ruby/object:Gem::Version
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29
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-
hash: 3
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30
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-
segments:
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31
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-
- 0
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32
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version: "0"
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33
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type: :runtime
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34
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version_requirements: *id001
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35
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-
- !ruby/object:Gem::Dependency
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36
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-
name: nokogiri
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37
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-
prerelease: false
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-
requirement: &id002 !ruby/object:Gem::Requirement
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-
none: false
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-
requirements:
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-
- - ">="
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42
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-
- !ruby/object:Gem::Version
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-
hash: 3
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-
segments:
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-
- 0
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-
version: "0"
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-
type: :runtime
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-
version_requirements: *id002
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49
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description:
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email: rschenk@gmail.com
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51
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executables: []
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@@ -85,23 +63,17 @@ required_ruby_version: !ruby/object:Gem::Requirement
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85
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requirements:
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86
64
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- - ">="
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87
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- !ruby/object:Gem::Version
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88
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-
hash: 3
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89
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-
segments:
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90
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-
- 0
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91
66
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version: "0"
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required_rubygems_version: !ruby/object:Gem::Requirement
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93
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none: false
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requirements:
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95
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- - ">="
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- !ruby/object:Gem::Version
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97
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-
hash: 3
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98
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-
segments:
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99
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-
- 0
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100
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version: "0"
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101
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requirements: []
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102
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|
103
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rubyforge_project:
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104
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-
rubygems_version: 1.
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+
rubygems_version: 1.5.0
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signing_key:
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106
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specification_version: 3
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summary: A PubMed searching library with more features than BioRuby
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