cirneco 0.5.8 → 0.6
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- checksums.yaml +4 -4
- data/Gemfile.lock +2 -2
- data/lib/cirneco/utils.rb +91 -25
- data/lib/cirneco/version.rb +1 -1
- data/spec/fixtures/references.yaml +1060 -0
- data/spec/fixtures/site.yml +3 -2
- data/spec/utils_spec.rb +16 -10
- metadata +2 -1
checksums.yaml
CHANGED
@@ -1,7 +1,7 @@
|
|
1
1
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---
|
2
2
|
SHA1:
|
3
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-
metadata.gz:
|
4
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-
data.tar.gz:
|
3
|
+
metadata.gz: c681eb9e780bbbe04eda5adbef5a576d122e7c08
|
4
|
+
data.tar.gz: 0317daa84b9387a623d3a2683f01d5a95128f6cf
|
5
5
|
SHA512:
|
6
|
-
metadata.gz:
|
7
|
-
data.tar.gz:
|
6
|
+
metadata.gz: 2fd2af304e416f63f1bdd02363b3a0ca121842bf3a84c8e3ce66b670f7334d07963b5125ec60d29eb8f766ff928e7fe25ccfeae85a73744e3fcf5b5a5981e22d
|
7
|
+
data.tar.gz: 49b4707a22657ddd0660f635dcbac7e618a03dfa0f659a998419a1daf28f6af8f10b3e5b5ae21764e9687134ac03162f3b7242c63f5795b9f5159aec3994529d
|
data/Gemfile.lock
CHANGED
@@ -1,7 +1,7 @@
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|
1
1
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PATH
|
2
2
|
remote: .
|
3
3
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specs:
|
4
|
-
cirneco (0.
|
4
|
+
cirneco (0.6)
|
5
5
|
activesupport (~> 4.2, >= 4.2.5)
|
6
6
|
base32-crockford-checksum (~> 0.2.2)
|
7
7
|
bergamasco (~> 0.2)
|
@@ -22,7 +22,7 @@ GEM
|
|
22
22
|
tzinfo (~> 1.1)
|
23
23
|
addressable (2.3.8)
|
24
24
|
base32-crockford-checksum (0.2.3)
|
25
|
-
bergamasco (0.2.
|
25
|
+
bergamasco (0.2.11)
|
26
26
|
activesupport (~> 4.2, >= 4.2.5)
|
27
27
|
addressable (~> 2.3.8)
|
28
28
|
builder (~> 3.2, >= 3.2.2)
|
data/lib/cirneco/utils.rb
CHANGED
@@ -32,32 +32,41 @@ module Cirneco
|
|
32
32
|
filename = File.basename(filepath)
|
33
33
|
return "File #{filename} ignored: not a markdown file" unless File.extname(filepath) == ".md"
|
34
34
|
|
35
|
-
|
35
|
+
old_metadata = Bergamasco::Markdown.read_yaml_for_doi_metadata(filepath)
|
36
|
+
return nil if old_metadata["doi"]
|
36
37
|
|
37
|
-
|
38
|
-
|
39
|
-
else
|
40
|
-
prefix = options[:prefix] || ENV['PREFIX']
|
41
|
-
doi = encode_doi(prefix, options)
|
42
|
-
end
|
38
|
+
metadata = generate_metadata_for_work(filepath, options)
|
39
|
+
work = register_work_for_metadata(metadata)
|
43
40
|
|
44
|
-
|
41
|
+
# datapath = options[:datapath] || ENV['DATAPATH'] || "data/doi.yml"
|
42
|
+
# data = Bergamasco::Markdown.read_yaml(datapath) || []
|
43
|
+
# data = [data] if data.is_a?(Hash)
|
44
|
+
# new_data = [{ "filename" => filename, "doi" => doi, "date" => Time.now.utc.iso8601 }]
|
45
|
+
# Bergamasco::Markdown.write_yaml(datapath, data + new_data)
|
45
46
|
|
46
|
-
|
47
|
-
|
47
|
+
new_metadata = Bergamasco::Markdown.update_file(filepath, { "doi" => metadata["doi"] })
|
48
|
+
"DOI #{new_metadata["doi"]} added for #{filename}"
|
49
|
+
end
|
48
50
|
|
49
|
-
|
50
|
-
|
51
|
-
|
52
|
-
|
53
|
-
Bergamasco::Markdown.write_yaml(datapath, data + new_data)
|
54
|
-
end
|
51
|
+
# currently only supports markdown files with YAML header
|
52
|
+
def unregister_file(filepath, options={})
|
53
|
+
filename = File.basename(filepath)
|
54
|
+
return "File #{filename} ignored: not a markdown file" unless File.extname(filepath) == ".md"
|
55
55
|
|
56
|
-
|
57
|
-
|
58
|
-
|
59
|
-
|
60
|
-
|
56
|
+
old_metadata = Bergamasco::Markdown.read_yaml_for_doi_metadata(filepath)
|
57
|
+
return nil unless old_metadata["doi"]
|
58
|
+
|
59
|
+
metadata = generate_metadata_for_work(filepath, options)
|
60
|
+
work = unregister_work_for_metadata(metadata)
|
61
|
+
|
62
|
+
# datapath = options[:datapath] || ENV['DATAPATH'] || "data/doi.yml"
|
63
|
+
# data = Bergamasco::Markdown.read_yaml(datapath) || []
|
64
|
+
# data = [data] if data.is_a?(Hash)
|
65
|
+
# new_data = [{ "filename" => filename, "doi" => doi, "date" => Time.now.utc.iso8601 }]
|
66
|
+
# Bergamasco::Markdown.write_yaml(datapath, data + new_data)
|
67
|
+
|
68
|
+
new_metadata = Bergamasco::Markdown.update_file(filepath, { "doi" => nil })
|
69
|
+
"DOI #{old_metadata["doi"]} removed for #{filename}"
|
61
70
|
end
|
62
71
|
|
63
72
|
def register_all_files(folderpath, options={})
|
@@ -66,6 +75,12 @@ module Cirneco
|
|
66
75
|
end.join("\n")
|
67
76
|
end
|
68
77
|
|
78
|
+
def unregister_all_files(folderpath, options={})
|
79
|
+
Dir.glob("#{folderpath}/*.md").map do |filepath|
|
80
|
+
unregister_file(filepath, options)
|
81
|
+
end.join("\n")
|
82
|
+
end
|
83
|
+
|
69
84
|
def generate_metadata_for_work(filepath, options={})
|
70
85
|
metadata = Bergamasco::Markdown.read_yaml_for_doi_metadata(filepath, options.except(:number))
|
71
86
|
|
@@ -79,8 +94,12 @@ module Cirneco
|
|
79
94
|
authorpath = options[:authorpath] || ENV['SITE_AUTHORPATH']
|
80
95
|
author_options = authorpath.present? ? Bergamasco::Markdown.read_yaml(authorpath) : {}
|
81
96
|
|
97
|
+
# read in optional yaml configuration file for references
|
98
|
+
referencespath = options[:referencespath] || ENV['SITE_REFERENCESPATH']
|
99
|
+
references = referencespath.present? ? Bergamasco::Markdown.read_yaml(referencespath) : {}
|
100
|
+
|
82
101
|
# required metadata
|
83
|
-
prefix = options[:prefix] || ENV['
|
102
|
+
prefix = options[:prefix] || site_options["prefix"] || ENV['SITE_PREFIX']
|
84
103
|
metadata["doi"] ||= encode_doi(prefix, options)
|
85
104
|
|
86
105
|
site_url = site_options["site_url"] || ENV['SITE_URL']
|
@@ -100,7 +119,7 @@ module Cirneco
|
|
100
119
|
metadata["publisher"] = site_options["site_title"] || ENV['SITE_TITLE']
|
101
120
|
metadata["publication_year"] = metadata["date"][0..3].to_i
|
102
121
|
|
103
|
-
metadata["type"] ||= site_options["
|
122
|
+
metadata["type"] ||= site_options["default_type"] || ENV['SITE_DEFAULT_TYPE'] || "BlogPosting"
|
104
123
|
resource_type_general = metadata["type"] == "Dataset" ? "Dataset" : "Text"
|
105
124
|
|
106
125
|
metadata["resource_type"] = { value: metadata["type"],
|
@@ -113,13 +132,51 @@ module Cirneco
|
|
113
132
|
# use default version 1.0
|
114
133
|
metadata["version"] ||= "1.0"
|
115
134
|
|
135
|
+
# fetch reference metadata if available
|
136
|
+
metadata["related_identifiers"] = Array(metadata["references"]).map do |r|
|
137
|
+
reference = references.fetch(r, {})
|
138
|
+
if reference.present?
|
139
|
+
if reference["DOI"].present?
|
140
|
+
value = reference["DOI"].upcase
|
141
|
+
type = "DOI"
|
142
|
+
elsif /(http|https):\/\/(dx\.)?doi\.org\/(\w+)/.match(reference["URL"])
|
143
|
+
uri = Addressable::URI.parse(reference["URL"])
|
144
|
+
value = uri.path[1..-1].upcase
|
145
|
+
type = "DOI"
|
146
|
+
elsif reference["URL"].present?
|
147
|
+
value = reference["URL"]
|
148
|
+
type = "URL"
|
149
|
+
else
|
150
|
+
type = nil
|
151
|
+
end
|
152
|
+
else
|
153
|
+
if /(http|https):\/\/(dx\.)?doi\.org\/(\w+)/.match(r)
|
154
|
+
uri = Addressable::URI.parse(r)
|
155
|
+
value = uri.path[1..-1].upcase
|
156
|
+
type = "DOI"
|
157
|
+
elsif /(http|https):\/\//.match(r)
|
158
|
+
uri = Addressable::URI.parse(r)
|
159
|
+
value = uri.normalize.to_s
|
160
|
+
type = "URL"
|
161
|
+
else
|
162
|
+
type = nil
|
163
|
+
end
|
164
|
+
end
|
165
|
+
|
166
|
+
{
|
167
|
+
value: value,
|
168
|
+
related_identifier_type: type,
|
169
|
+
relation_type: "References"
|
170
|
+
}
|
171
|
+
end.select { |t| t[:related_identifier_type].present? }
|
172
|
+
|
116
173
|
license_name = site_options.fetch("license", {}).fetch("name", nil) || ENV['SITE_LICENCE_NAME'] || "Creative Commons Attribution"
|
117
174
|
license_url = site_options.fetch("license", {}).fetch("url", nil) || ENV['SITE_LICENCE_URL'] || "https://creativecommons.org/licenses/by/4.0/"
|
118
175
|
metadata["rights_list"] = [{ value: license_name, rights_uri: license_url }]
|
119
176
|
|
120
177
|
metadata["subjects"] = Array(metadata["tags"]).select { |t| t != "featured" }
|
121
178
|
|
122
|
-
contributor = site_options["
|
179
|
+
contributor = site_options["institution"] || ENV['SITE_INSTITUTION']
|
123
180
|
metadata["contributors"] = [{ literal: contributor, contributor_type: "HostingInstitution" }]
|
124
181
|
|
125
182
|
metadata = metadata.extract!(*%w(doi url creators title publisher
|
@@ -131,7 +188,7 @@ module Cirneco
|
|
131
188
|
site_url.to_s.chomp("\\") + "/" + File.basename(filepath)[0..-9] + "/"
|
132
189
|
end
|
133
190
|
|
134
|
-
def
|
191
|
+
def register_work_for_metadata(metadata)
|
135
192
|
work = Cirneco::Work.new(metadata)
|
136
193
|
|
137
194
|
filename = metadata["doi"].split("/", 2).last + ".xml"
|
@@ -139,5 +196,14 @@ module Cirneco
|
|
139
196
|
|
140
197
|
work
|
141
198
|
end
|
199
|
+
|
200
|
+
def unregister_work_for_metadata(metadata)
|
201
|
+
work = Cirneco::Work.new(metadata)
|
202
|
+
|
203
|
+
filename = metadata["doi"].split("/", 2).last + ".xml"
|
204
|
+
File.delete(filename)
|
205
|
+
|
206
|
+
work
|
207
|
+
end
|
142
208
|
end
|
143
209
|
end
|
data/lib/cirneco/version.rb
CHANGED
@@ -0,0 +1,1060 @@
|
|
1
|
+
---
|
2
|
+
references:
|
3
|
+
- id: http://doi.org/10.5281/zenodo.32412
|
4
|
+
type: article-journal
|
5
|
+
author:
|
6
|
+
- family: Mayo
|
7
|
+
given: Christine
|
8
|
+
- family: Hull
|
9
|
+
given: Elizabeth A.
|
10
|
+
- family: Vision
|
11
|
+
given: Todd J.
|
12
|
+
issued:
|
13
|
+
- year: '2015'
|
14
|
+
title: 'The location of the citation: changing practices in how publications cite
|
15
|
+
original data in the Dryad Digital Repository'
|
16
|
+
publisher: Zenodo
|
17
|
+
URL: http://zenodo.org/record/32412
|
18
|
+
DOI: 10.5281/zenodo.32412
|
19
|
+
|
20
|
+
- id: Kratz:2015cr
|
21
|
+
type: article-journal
|
22
|
+
author:
|
23
|
+
- family: Kratz
|
24
|
+
given: John E
|
25
|
+
- family: Strasser
|
26
|
+
given: Carly
|
27
|
+
issued:
|
28
|
+
- year: '2015'
|
29
|
+
month: '8'
|
30
|
+
title: Making data count
|
31
|
+
container-title: Scientific Data
|
32
|
+
page: '150039'
|
33
|
+
volume: '2'
|
34
|
+
URL: http://www.nature.com/articles/sdata201539
|
35
|
+
DOI: 10.1038/sdata.2015.39
|
36
|
+
|
37
|
+
- id: Eysenbach:2006jo
|
38
|
+
type: article-journal
|
39
|
+
author:
|
40
|
+
- family: Eysenbach
|
41
|
+
given: Gunther
|
42
|
+
issued:
|
43
|
+
- year: '2006'
|
44
|
+
month: '5'
|
45
|
+
title: Citation advantage of open access articles.
|
46
|
+
container-title: PLoS biology
|
47
|
+
page: 'e157'
|
48
|
+
volume: '4'
|
49
|
+
issue: '5'
|
50
|
+
URL: http://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pubmed&id=16683865&retmode=ref&cmd=prlinks
|
51
|
+
DOI: 10.1371/journal.pbio.0040157
|
52
|
+
PMCID: PMC1459247
|
53
|
+
PMID: '16683865'
|
54
|
+
|
55
|
+
- id: Piwowar:2013cc
|
56
|
+
type: article-journal
|
57
|
+
author:
|
58
|
+
- family: Piwowar
|
59
|
+
given: Heather A
|
60
|
+
- family: Vision
|
61
|
+
given: Todd J
|
62
|
+
issued:
|
63
|
+
- year: '2013'
|
64
|
+
title: Data reuse and the open data citation advantage
|
65
|
+
container-title: PeerJ
|
66
|
+
page: 'e175'
|
67
|
+
volume: '1'
|
68
|
+
DOI: 10.7717/peerj.175
|
69
|
+
|
70
|
+
- id: Irisarri:2013
|
71
|
+
type: dataset
|
72
|
+
author:
|
73
|
+
- family: Irisarri
|
74
|
+
given: Iker
|
75
|
+
- family: San Mauro
|
76
|
+
given: Diego
|
77
|
+
- family: Abascal
|
78
|
+
given: Federico
|
79
|
+
- family: Ohler
|
80
|
+
given: Annemarie
|
81
|
+
- family: Vences
|
82
|
+
given: Miguel
|
83
|
+
- family: Zardoya
|
84
|
+
given: Rafael
|
85
|
+
issued:
|
86
|
+
- year: '2013'
|
87
|
+
title: 'Data from: The origin of modern frogs (Neobatrachia) was accompanied by
|
88
|
+
acceleration in mitochondrial and nuclear substitution rates'
|
89
|
+
publisher: Dryad Digital Repository
|
90
|
+
URL: http://doi.org/10.5061/DRYAD.3QD54
|
91
|
+
DOI: 10.5061/DRYAD.3QD54
|
92
|
+
|
93
|
+
- id: Irisarri:2012gv
|
94
|
+
type: article-journal
|
95
|
+
author:
|
96
|
+
- family: Irisarri
|
97
|
+
given: Iker
|
98
|
+
- family: San Mauro
|
99
|
+
given: Diego
|
100
|
+
- family: Abascal
|
101
|
+
given: Federico
|
102
|
+
- family: Ohler
|
103
|
+
given: Annemarie
|
104
|
+
- family: Vences
|
105
|
+
given: Miguel
|
106
|
+
- family: Zardoya
|
107
|
+
given: Rafael
|
108
|
+
issued:
|
109
|
+
- year: '2012'
|
110
|
+
title: The origin of modern frogs (Neobatrachia) was accompanied by acceleration
|
111
|
+
in mitochondrial and nuclear substitution rates.
|
112
|
+
container-title: BMC genomics
|
113
|
+
page: '626'
|
114
|
+
volume: '13'
|
115
|
+
URL: http://www.biomedcentral.com/1471-2164/13/626/
|
116
|
+
DOI: 10.1186/1471-2164-13-626
|
117
|
+
PMCID: PMC3551647
|
118
|
+
PMID: '23153022'
|
119
|
+
|
120
|
+
- id: https://doi.org/10.5281/ZENODO.20046
|
121
|
+
type: dataset
|
122
|
+
author:
|
123
|
+
- family: Fenner
|
124
|
+
given: Martin
|
125
|
+
- family: Jen Song
|
126
|
+
given: Jen
|
127
|
+
- family: Dennis
|
128
|
+
given: Zach
|
129
|
+
- family: Whitwell
|
130
|
+
given: Martyn
|
131
|
+
- family: Osowski
|
132
|
+
given: Joe
|
133
|
+
- family: Ivimey-Cook
|
134
|
+
given: Ruth
|
135
|
+
- family: Cave
|
136
|
+
given: Richard
|
137
|
+
- family: Lin
|
138
|
+
given: Jennifer
|
139
|
+
- family: Chodacki
|
140
|
+
given: John
|
141
|
+
issued:
|
142
|
+
- year: '2015'
|
143
|
+
title: Lagotto 4.2.1
|
144
|
+
publisher: Zenodo
|
145
|
+
URL: https://doi.org/10.5281/ZENODO.20046
|
146
|
+
|
147
|
+
- id: Barlow:1818
|
148
|
+
type: dataset
|
149
|
+
author:
|
150
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+
- family: Barlow
|
151
|
+
given: Chester
|
152
|
+
issued:
|
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|
+
- year: '1818'
|
154
|
+
title: Pilot Boat \#3, on the bar
|
155
|
+
publisher: Museum of Vertebrate Zoology
|
156
|
+
URL: http://doi.org/10.7299/X7MK6BM6
|
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DOI: 10.7299/X7MK6BM6
|
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|
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+
- id: Oshu:1955
|
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|
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|
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|
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author:
|
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+
- family: Oregon Medical School
|
163
|
+
given: University
|
164
|
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dropping-particle: of
|
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|
+
issued:
|
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|
+
- year: '1955'
|
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|
+
title: Unidentified man reading a book in the Old Library
|
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+
publisher: Oregon Health & Science University
|
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|
+
URL: http://doi.org/10.6083/M4MP51XQ
|
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DOI: 10.6083/M4MP51XQ
|
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|
172
|
+
- id: Unknown:1926
|
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|
+
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|
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|
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|
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|
+
- family: Unknown
|
176
|
+
issued:
|
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|
+
- year: '1926'
|
178
|
+
title: Workmen digging up the road at the corner of Belmont Avenue and Burhans Street
|
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+
in Paterson, New Jersey
|
180
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+
URL: http://doi.org/10.7282/T38C9WT9
|
181
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+
DOI: 10.7282/T38C9WT9
|
182
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|
183
|
+
- id: https://orcid.org/about/what-is-orcid/principles
|
184
|
+
type: no-type
|
185
|
+
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|
186
|
+
- year: '2011'
|
187
|
+
title: Our Principles
|
188
|
+
publisher: ORCID
|
189
|
+
URL: https://orcid.org/about/what-is-orcid/principles
|
190
|
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|
191
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- id: https://doi.org/10.3932/ETHZ-A-000159123
|
192
|
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|
193
|
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|
194
|
+
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|
195
|
+
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|
196
|
+
- year: '1931'
|
197
|
+
title: Hannover, Blick auf Hannover
|
198
|
+
publisher: ETH-Bibliothek Zürich, Bildarchiv
|
199
|
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URL: https://doi.org/10.3932/ETHZ-A-000159123
|
200
|
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DOI: 10.3932/ETHZ-A-000159123
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201
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|
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206
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|
207
|
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|
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|
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|
209
|
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|
210
|
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|
211
|
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|
212
|
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|
213
|
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|
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|
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|
215
|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
221
|
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|
222
|
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|
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|
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|
224
|
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|
225
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publisher: Zenodo
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226
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URL: https://doi.org/10.5281/ZENODO.30799
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|
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|
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|
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|
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|
236
|
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|
237
|
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|
238
|
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|
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|
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- year: '2015'
|
240
|
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title: Principles for Open Scholarly Infrastructures-v1
|
241
|
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publisher: Figshare
|
242
|
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URL: https://doi.org/10.6084/M9.FIGSHARE.1314859
|
243
|
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|
244
|
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- id: https://doi.org/10.5281/zenodo.34671
|
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|
246
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|
247
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|
248
|
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|
249
|
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|
250
|
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- year: '2015'
|
251
|
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title: DataCite Profiles and ORCID Auto-Update, an Introduction to DataCite
|
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|
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publisher: Zenodo
|
253
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URL: https://doi.org/10.5281/zenodo.34671
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|
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|
259
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|
260
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|
261
|
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- year: '2015'
|
262
|
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title: DataCite/ORCID auto-update and inbox, all you need to know
|
263
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publisher: Zenodo
|
264
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URL: https://doi.org/10.5281/zenodo.34670
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|
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|
271
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|
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|
273
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title: DataCite/ORCID Integration
|
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|
275
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URL: https://doi.org/10.5281/zenodo.34673
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|
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280
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|
282
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|
283
|
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|
284
|
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month: '9'
|
285
|
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title: Transitive Credit as a Means to Address Social and Technological Concerns
|
286
|
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Stemming from Citation and Attribution of Digital Products
|
287
|
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|
288
|
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|
289
|
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|
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|
291
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|
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|
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|
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297
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|
299
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300
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|
301
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|
302
|
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|
303
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title: DOI Myths... busted
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304
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305
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URL: https://doi.org/10.5281/zenodo.31780
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306
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|
307
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311
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|
312
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|
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|
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|
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|
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URL: https://doi.org/10.5281/zenodo.31782
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317
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|
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|
319
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320
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|
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|
323
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|
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|
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|
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|
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|
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|
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URL: https://doi.org/10.5281/zenodo.31783
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|
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|
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|
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|
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|
336
|
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|
337
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|
338
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|
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343
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|
344
|
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|
345
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|
346
|
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|
347
|
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title: ePIC - Persistent Identifiers for eResearch
|
348
|
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publisher: Zenodo
|
349
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URL: https://doi.org/10.5281/zenodo.31785
|
350
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|
351
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355
|
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|
356
|
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|
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|
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|
358
|
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|
359
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|
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URL: https://doi.org/10.5281/zenodo.31786
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361
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|
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365
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366
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|
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|
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|
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370
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|
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379
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|
380
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|
381
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Samples'
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382
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|
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URL: https://doi.org/10.5281/zenodo.31788
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384
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|
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386
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389
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|
392
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|
393
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|
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395
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397
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400
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401
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|
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404
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|
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|
412
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|
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|
415
|
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|
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URL: https://doi.org/10.5281/zenodo.31792
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417
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|
418
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419
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426
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427
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|
428
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|
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|
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|
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|
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URL: https://vimeo.com/147743305
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432
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|
433
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434
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435
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436
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437
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|
438
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|
439
|
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|
440
|
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|
441
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|
442
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|
444
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447
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448
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|
449
|
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|
450
|
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- year: '2015'
|
451
|
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|
452
|
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|
453
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454
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|
455
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459
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|
460
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|
461
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|
462
|
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|
463
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|
464
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466
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468
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|
471
|
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472
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|
473
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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|
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521
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|
523
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|
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|
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|
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|
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|
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|
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|
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|
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|
+
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|
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|
+
title: Metadata Schema for the Description of Research Data Repositories
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|
+
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|
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|
+
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|
532
|
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|
533
|
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- id: http://doi.org/10.1103/physrevlett.116.061102
|
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|
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|
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|
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|
536
|
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|
537
|
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|
538
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|
539
|
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|
540
|
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|
541
|
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558
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|
559
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|
560
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|
561
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562
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563
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564
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576
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v4.0
|
932
|
+
publisher: DataCite e.V.
|
933
|
+
URL: http://doi.org/10.5438/0012
|
934
|
+
|
935
|
+
- id: https://doi.org/10.5438/2906
|
936
|
+
type: no-type
|
937
|
+
author:
|
938
|
+
- family: Cruse
|
939
|
+
given: Patricia
|
940
|
+
- family: Haak
|
941
|
+
given: Laure
|
942
|
+
- family: Pentz
|
943
|
+
given: Ed
|
944
|
+
issued:
|
945
|
+
- year: '2016'
|
946
|
+
title: 'Organization Identifier Project: A Way Forward'
|
947
|
+
publisher: ORCID
|
948
|
+
URL: https://doi.org/10.5438/2906
|
949
|
+
DOI: 10.5438/2906
|
950
|
+
|
951
|
+
- id: https://doi.org/10.5438/7885
|
952
|
+
type: no-type
|
953
|
+
author:
|
954
|
+
- family: Fenner
|
955
|
+
given: Martin
|
956
|
+
- family: Paglione
|
957
|
+
given: Laura
|
958
|
+
- family: Demeranville
|
959
|
+
given: Tom
|
960
|
+
- family: Bilder
|
961
|
+
given: Geoff
|
962
|
+
issued:
|
963
|
+
- year: '2016'
|
964
|
+
title: Technical Considerations for an Organization Identifier Registry
|
965
|
+
publisher: ORCID
|
966
|
+
URL: https://doi.org/10.5438/7885
|
967
|
+
DOI: 10.5438/7885
|
968
|
+
|
969
|
+
- id: https://doi.org/10.5438/4716
|
970
|
+
type: no-type
|
971
|
+
author:
|
972
|
+
- family: Bilder
|
973
|
+
given: Geoffrey
|
974
|
+
- family: Brown
|
975
|
+
given: Josh
|
976
|
+
- family: Demeranville
|
977
|
+
given: Tom
|
978
|
+
issued:
|
979
|
+
- year: '2016'
|
980
|
+
title: 'Organisation identifiers: current provider survey'
|
981
|
+
publisher: ORCID
|
982
|
+
URL: https://doi.org/10.5438/4716
|
983
|
+
DOI: 10.5438/4716
|
984
|
+
|
985
|
+
- id: https://doi.org/10.6084/M9.FIGSHARE.3479141
|
986
|
+
type: no-type
|
987
|
+
author:
|
988
|
+
- family: Demeranville
|
989
|
+
given: Tom
|
990
|
+
- family: Brown
|
991
|
+
given: Josh
|
992
|
+
- family: Fenner
|
993
|
+
given: Martin
|
994
|
+
- family: Cruse
|
995
|
+
given: Patricia
|
996
|
+
- family: Haak
|
997
|
+
given: Laure
|
998
|
+
- family: Paglione
|
999
|
+
given: Laura
|
1000
|
+
- family: Bilder
|
1001
|
+
given: Geoffrey
|
1002
|
+
- family: Lin
|
1003
|
+
given: Jennifer
|
1004
|
+
- family: Pentz
|
1005
|
+
given: Ed
|
1006
|
+
issued:
|
1007
|
+
- year: '2016'
|
1008
|
+
title: Organisation Identifiers - Minimum viable product requirements
|
1009
|
+
publisher: Figshare
|
1010
|
+
URL: https://doi.org/10.6084/M9.FIGSHARE.3479141
|
1011
|
+
DOI: 10.6084/M9.FIGSHARE.3479141
|
1012
|
+
|
1013
|
+
- id: https://doi.org/10.1371/journal.pone.0115253
|
1014
|
+
type: article-journal
|
1015
|
+
author:
|
1016
|
+
- family: Klein
|
1017
|
+
given: Martin
|
1018
|
+
- family: Sompel
|
1019
|
+
given: Herbert Van de
|
1020
|
+
- family: Sanderson
|
1021
|
+
given: Robert
|
1022
|
+
- family: Shankar
|
1023
|
+
given: Harihar
|
1024
|
+
- family: Balakireva
|
1025
|
+
given: Lyudmila
|
1026
|
+
- family: Zhou
|
1027
|
+
given: Ke
|
1028
|
+
- family: Tobin
|
1029
|
+
given: Richard
|
1030
|
+
issued:
|
1031
|
+
- year: '2014'
|
1032
|
+
month: '12'
|
1033
|
+
title: 'Scholarly Context Not Found: One in Five Articles Suffers from Reference
|
1034
|
+
Rot'
|
1035
|
+
title-short: Scholarly Context Not Found
|
1036
|
+
container-title: PLOS ONE
|
1037
|
+
page: 'e115253'
|
1038
|
+
volume: '9'
|
1039
|
+
issue: '12'
|
1040
|
+
keyword: Archives, Communications, Computer and information sciences, Evolutionary
|
1041
|
+
immunology, Extrapolation, Internet, Publication ethics, Species interactions
|
1042
|
+
URL: http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0115253
|
1043
|
+
DOI: 10.1371/journal.pone.0115253
|
1044
|
+
ISSN: '1932-6203'
|
1045
|
+
|
1046
|
+
- id: https://www.w3.org/Provider/Style/URI
|
1047
|
+
type: no-type
|
1048
|
+
author:
|
1049
|
+
- family: Berners-Lee
|
1050
|
+
given: Tim
|
1051
|
+
issued:
|
1052
|
+
- year: '1998'
|
1053
|
+
accessed:
|
1054
|
+
- year: '2016'
|
1055
|
+
month: '12'
|
1056
|
+
day: '14'
|
1057
|
+
title: 'Hypertext Style: Cool URIs don’t change.'
|
1058
|
+
title-short: Hypertext Style
|
1059
|
+
URL: https://www.w3.org/Provider/Style/URI
|
1060
|
+
...
|
data/spec/fixtures/site.yml
CHANGED
@@ -1,7 +1,8 @@
|
|
1
1
|
site_url: https://blog.datacite.org
|
2
2
|
site_title: DataCite Blog
|
3
|
-
|
4
|
-
|
3
|
+
default_type: BlogPosting
|
4
|
+
institution: DataCite
|
5
|
+
prefix: 10.23725
|
5
6
|
license:
|
6
7
|
name: Creative Commons Attribution
|
7
8
|
url: "https://creativecommons.org/licenses/by/4.0/"
|
data/spec/utils_spec.rb
CHANGED
@@ -45,19 +45,25 @@ describe Cirneco::DataCenter, vcr: true, :order => :defined do
|
|
45
45
|
filepath = fixture_path + 'cool-dois.html.md'
|
46
46
|
number = 123
|
47
47
|
response = subject.register_file(filepath, number: number)
|
48
|
-
expect(response).to eq("DOI 10.23725/0000-03VC added
|
48
|
+
expect(response).to eq("DOI 10.23725/0000-03VC added for cool-dois.html.md")
|
49
49
|
end
|
50
50
|
|
51
|
-
it 'should
|
51
|
+
it 'should unregister_file' do
|
52
52
|
filepath = fixture_path + 'cool-dois.html.md'
|
53
|
-
response = subject.
|
54
|
-
expect(response).to eq("DOI removed
|
53
|
+
response = subject.unregister_file(filepath)
|
54
|
+
expect(response).to eq("DOI 10.23725/0000-03VC removed for cool-dois.html.md")
|
55
55
|
end
|
56
56
|
|
57
|
-
it 'should register_all_files
|
57
|
+
it 'should register_all_files' do
|
58
58
|
number = 123
|
59
|
-
response = subject.register_all_files(fixture_path, number: number
|
60
|
-
expect(response).to eq("DOI
|
59
|
+
response = subject.register_all_files(fixture_path, number: number)
|
60
|
+
expect(response).to eq("DOI 10.23725/0000-03VC added for cool-dois.html.md")
|
61
|
+
end
|
62
|
+
|
63
|
+
it 'should unregister_all_files' do
|
64
|
+
number = 123
|
65
|
+
response = subject.unregister_all_files(fixture_path)
|
66
|
+
expect(response).to eq("DOI 10.23725/0000-03VC removed for cool-dois.html.md")
|
61
67
|
end
|
62
68
|
|
63
69
|
it 'should ignore non-markdown file for register_file' do
|
@@ -72,7 +78,7 @@ describe Cirneco::DataCenter, vcr: true, :order => :defined do
|
|
72
78
|
metadata = subject.generate_metadata_for_work(filepath, number: number, csl: 'spec/fixtures/apa.csl', bibliography: 'spec/fixtures/references.bib')
|
73
79
|
expect(metadata["url"]).to eq("https://blog.datacite.org/cool-dois/")
|
74
80
|
expect(metadata["creators"]).to eq([{:given_name=>"Martin", :family_name=>"Fenner", :orcid=>"0000-0003-1419-2405"}])
|
75
|
-
expect(metadata["descriptions"]).to eq([{:value=>"In 1998 Tim Berners-Lee coined the term cool URIs (1998), that is URIs that don’t change. We know that URLs referenced in the scholarly literature are often not cool, leading to link rot (Klein et al., 2014) and making it hard or impossible to find
|
81
|
+
expect(metadata["descriptions"]).to eq([{:value=>"In 1998 Tim Berners-Lee coined the term cool URIs (1998), that is URIs that don’t change. We know that URLs referenced in the scholarly literature are often not cool, leading to link rot (Klein et al., 2014) and making it hard or impossible to find the referenced resource.",:description_type=>"Abstract"}])
|
76
82
|
expect(metadata["related_identifiers"]).to eq([{:value=>"https://www.w3.org/Provider/Style/URI",
|
77
83
|
:related_identifier_type=>"URL",
|
78
84
|
:relation_type=>"References"},
|
@@ -81,11 +87,11 @@ describe Cirneco::DataCenter, vcr: true, :order => :defined do
|
|
81
87
|
:relation_type=>"References" }])
|
82
88
|
end
|
83
89
|
|
84
|
-
it 'should
|
90
|
+
it 'should register_work_for_metadata' do
|
85
91
|
filepath = fixture_path + 'cool-dois.html.md'
|
86
92
|
number = 123
|
87
93
|
metadata = subject.generate_metadata_for_work(filepath, number: number, csl: 'spec/fixtures/apa.csl', bibliography: 'spec/fixtures/references.bib')
|
88
|
-
work = subject.
|
94
|
+
work = subject.register_work_for_metadata(metadata)
|
89
95
|
expect(work.validation_errors).to be_empty
|
90
96
|
end
|
91
97
|
end
|
metadata
CHANGED
@@ -1,7 +1,7 @@
|
|
1
1
|
--- !ruby/object:Gem::Specification
|
2
2
|
name: cirneco
|
3
3
|
version: !ruby/object:Gem::Version
|
4
|
-
version: 0.
|
4
|
+
version: '0.6'
|
5
5
|
platform: ruby
|
6
6
|
authors:
|
7
7
|
- Martin Fenner
|
@@ -346,6 +346,7 @@ files:
|
|
346
346
|
- spec/fixtures/cool-dois.html.md
|
347
347
|
- spec/fixtures/cool-dois.yml
|
348
348
|
- spec/fixtures/references.bib
|
349
|
+
- spec/fixtures/references.yaml
|
349
350
|
- spec/fixtures/site.yml
|
350
351
|
- spec/fixtures/vcr_cassettes/Cirneco_DataCenter/get/should_get_all_dois_by_prefix.yml
|
351
352
|
- spec/fixtures/vcr_cassettes/Cirneco_DataCenter/get/should_get_next_doi.yml
|