roboneuro 0.1.1 → 0.1.4

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA256:
-  metadata.gz: 3facccb4e09f68c233c0a386b6c9d35262ca140316c182026928c090a5a13e86
-  data.tar.gz: '00588aa4a555273fcb1bf62a78f0237167ab6c9d0e16d9b1c7ddeb4ee41eabb4'
+  metadata.gz: eaf1b4db47f63f6ba20f6b61c6a3da591da7683f725c8e09acf84e19caf0ac83
+  data.tar.gz: 4ee5e8db07ddc9e097824765915231c5881a59d3120e5e24b2d952cabac9374e
 SHA512:
-  metadata.gz: 88571deda0ffdccffd7a65a0756a9446b3ad1b52bcf397a53156062173d8a707ae03d2950d8e1ca78120487c752ac56084e44074fc47544bd91e1c58f22fef20
-  data.tar.gz: b543ab1f0436e2625cce9553bef99a549bb8b622d5639aee6225c0f87328a047f05266e5561dab649f061b7f2305c2bb1ee2f31147eaeca3d036929baa624342
+  metadata.gz: 767994ca34c5eaa5b56f419fb3142dccd62b21195e2d0d3a6bea02349e6329965c638614c1ed51958abdc8a2da6f6056209d9f558677a5855782bd56dc10c492
+  data.tar.gz: ce04676f3a02b802d3fe74245caf9a5e36b16c3bd270be6924e604ac6c7e6791b451c1737663b105ea1fdb26d74529abaa630a09d47d2dc754253917238a09ac

data/.gitignore

@@ -1,3 +1,4 @@
 .env
 tmp
-roboneuro*.gem
+roboneuro*.gem
+.DS_Store

data/Gemfile.lock

@@ -1,7 +1,7 @@
 PATH
   remote: .
   specs:
-    roboneuro (0.1.1)
+    roboneuro (0.1.4)
       bibtex-ruby (~> 6.0.0)
       dotenv
       github-linguist (~> 5.3)
@@ -102,7 +102,7 @@ GEM
       rspec-support (~> 3.10.0)
     rspec-support (3.10.2)
     ruby2_keywords (0.0.5)
-    rugged (1.4.2)
+    rugged (1.4.3)
     sawyer (0.8.2)
       addressable (>= 2.3.5)
       faraday (> 0.8, < 2.0)

data/README.md

@@ -14,6 +14,8 @@ Hopefully...
 
 [![Build Status](https://github.com/openjournals/whedon/actions/workflows/tests.yml/badge.svg)](https://github.com/openjournals/whedon/actions/workflows/tests.yml)
 
+[![Gem Version](https://badge.fury.io/rb/roboneuro.svg)](https://badge.fury.io/rb/roboneuro)
+
 ## Installation
 
 Depending on how Ruby is installed on your system there might slightly different steps be necessary. Note that Whedon is only tested for reasonably modern versions of Ruby (i.e. > 2.1) [Bundler](http://bundler.io/) is used to install dependencies.

data/bin/whedon

@@ -42,7 +42,12 @@ class WhedonCli < Thor
   def prepare(issue_id, custom_path=nil, custom_branch=nil)
     review = Whedon::Review.new(issue_id)
     processor = Whedon::Processor.new(issue_id, review.issue_body, custom_path)
-    processor.archive_doi = 'PENDING'
+    processor.repository_doi = 'PENDING'
+    processor.data_doi = 'PENDING'
+    processor.book_doi = 'PENDING'
+    processor.docker_doi = 'PENDING'
+    processor.book_exec_url = 'PENDING'
+
 
     # Optionally set the path to work in
     path = custom_path ? custom_path : "tmp/#{issue_id}"

data/fixtures/review_body.txt

@@ -1,7 +1,11 @@
 **Submitting author:** @zhaozhang (<a href="http://orcid.org/0000-0001-5921-0035">Zhao Zhang</a>)
 **Repository:** <a href="https://github.com/applicationskeleton/Skeleton" target ="_blank">https://github.com/applicationskeleton/Skeleton</a>
 **Version:** v1.2
-**Archive:** <a href="http://dx.doi.org/10.5281/zenodo.13750" target ="_blank">http://dx.doi.org/10.5281/zenodo.13750</a>
+**Jupyter Book:** <a href="https://neurolibre.org" target ="_blank">https://neurolibre.org</a>
+**Repository archive:** <a href="http://dx.doi.org/10.5281/zenodo.13750" target ="_blank">http://dx.doi.org/10.5281/zenodo.13750</a>
+**Data archive:** <a href="http://dx.doi.org/10.5281/zenodo.13750" target ="_blank">http://dx.doi.org/10.5281/zenodo.13750</a>
+**Book archive:** <a href="http://dx.doi.org/10.5281/zenodo.13750" target ="_blank">http://dx.doi.org/10.5281/zenodo.13750</a>
+**Docker archive:** <a href="http://dx.doi.org/10.5281/zenodo.13750" target ="_blank">http://dx.doi.org/10.5281/zenodo.13750</a>
 
 ## Status
 

data/fixtures/vcr_cassettes/review.yml

@@ -80,8 +80,12 @@ http_interactions:
         author:** @zhaozhang (<a href=\"http://orcid.org/0000-0001-5921-0035\">Zhao
         Zhang</a>)\r\n**Repository:** <a href=\"https://github.com/applicationskeleton/Skeleton\"
         target =\"_blank\">https://github.com/applicationskeleton/Skeleton</a>\r\n**Version:**
-        v1.2\r\n**Editor:** @arfon\r\n**Reviewers:** @jim, @bob\r\n**Archive:** <a href=\"http://dx.doi.org/10.5281/zenodo.13750\" target
-        =\"_blank\">http://dx.doi.org/10.5281/zenodo.13750</a>\r\n\r\n## Status\r\n\r\n[![status](http://joss.theoj.org/papers/6b34fdbf8215c1ecd4941afc8be7a7e6/status.svg)](http://joss.theoj.org/papers/6b34fdbf8215c1ecd4941afc8be7a7e6)\r\n\r\nStatus
+        v1.2\r\n**Editor:** @arfon\r\n**Reviewers:** @jim, @bob\r\n**Repository archive:** <a href=\"http://dx.doi.org/10.5281/zenodo.13750\" target
+        =\"_blank\">http://dx.doi.org/10.5281/zenodo.13750</a>r\n**Data archive:** <a href=\"http://dx.doi.org/10.5281/zenodo.13750\" target
+        =\"_blank\">http://dx.doi.org/10.5281/zenodo.13750</a>r\n**Book archive:** <a href=\"http://dx.doi.org/10.5281/zenodo.13750\" target
+        =\"_blank\">http://dx.doi.org/10.5281/zenodo.13750</a>r\n**Docker archive:** <a href=\"http://dx.doi.org/10.5281/zenodo.13750\" target
+        =\"_blank\">http://dx.doi.org/10.5281/zenodo.13750</a>r\n**Jupyter Book:** <a href=\"https://neurolibre.org\" target
+        =\"_blank\">https://neurolibre.org</a>\r\n\r\n## Status\r\n\r\n[![status](http://joss.theoj.org/papers/6b34fdbf8215c1ecd4941afc8be7a7e6/status.svg)](http://joss.theoj.org/papers/6b34fdbf8215c1ecd4941afc8be7a7e6)\r\n\r\nStatus
         badge code:\r\n\r\n```\r\nHTML: <a href=\"http://joss.theoj.org/papers/6b34fdbf8215c1ecd4941afc8be7a7e6\"><img
         src=\"http://joss.theoj.org/papers/6b34fdbf8215c1ecd4941afc8be7a7e6/status.svg\"></a>\r\nMarkdown:
         [![status](http://joss.theoj.org/papers/6b34fdbf8215c1ecd4941afc8be7a7e6/status.svg)]http://joss.theoj.org/papers/6b34fdbf8215c1ecd4941afc8be7a7e6\r\n```\r\n\r\n##

data/lib/whedon/auditor.rb

@@ -14,6 +14,7 @@ module Whedon
       puts verify_version
       puts verify_repository
       puts verify_archive
+      puts verify_book
     end
 
     def verify_author
@@ -32,8 +33,16 @@ module Whedon
     end
 
     def verify_archive
-      archive = review_body[ARCHIVE_REGEX]
-      return "Archive: #{archive}" if archive
+      archive_repository = review_body[ARCHIVE_REPOSITORY_REGEX]
+      archive_data = review_body[ARCHIVE_DATA_REGEX]
+      archive_book = review_body[ARCHIVE_BOOK_REGEX]
+      archive_docker = review_body[ARCHIVE_DOCKER_REGEX]
+      return "Repository archive: #{archive_repository} Data archive: #{archive_data} Book archive: #{archive_book} Docker archive: #{archive_docker}" if archive_repository && archive_book && archive_data && archive_docker
+    end
+
+    def verify_book
+      book = review_body[BOOK_EXEC_REGEX]
+      return "Jupyter Book: #{book}"
     end
   end
 end

data/lib/whedon/compilers.rb

@@ -114,7 +114,7 @@ module Compilers
     published = parsed['accepted']
 
     # TODO - remove this once JOSE has their editors hooked up in the system
-    if ENV['JOURNAL_ALIAS'] == "joss" && !paper.editor.nil?
+    if ENV['JOURNAL_ALIAS'] == "neurolibre" && !paper.editor.nil?
       editor_lookup_url = "#{ENV['JOURNAL_URL']}/editors/lookup/#{paper.editor}"
       response = RestClient.get(editor_lookup_url)
       parsed = JSON.parse(response)
@@ -142,7 +142,11 @@ module Compilers
 
     metadata = {
       "repository" => repository_address,
-      "archive_doi" => archive_doi,
+      "repository_doi" => repository_doi,
+      "data_doi" => data_doi,
+      "book_doi" => book_doi,
+      "docker_doi" => docker_doi,
+      "book_exec_url" => book_exec_url,
       "paper_url" => paper.pdf_url,
       "journal_name" => ENV['JOURNAL_NAME'],
       "review_issue_url" => paper.review_issue_url,
@@ -167,7 +171,11 @@ module Compilers
 
     `cd #{paper.directory} && pandoc \
     -V repository="#{repository_address}" \
-    -V archive_doi="#{archive_doi}" \
+    -V repository_doi="#{repository_doi}" \
+    -V data_doi="#{data_doi}" \
+    -V book_doi="#{book_doi}" \
+    -V docker_doi="#{docker_doi}" \
+    -V book_exec_url="#{book_exec_url}" \
     -V review_issue_url="#{paper.review_issue_url}" \
     -V editor_url="#{editor_url}" \
     -V graphics="true" \
@@ -182,7 +190,7 @@ module Compilers
     if File.exists?("#{paper.directory}/#{paper.filename_doi}.pdf")
       puts "#{paper.directory}/#{paper.filename_doi}.pdf"
     else
-      abort("Looks like we failed to compile the PDF")
+      abort("Looks like we failed to compile the PDF :/")
     end
   end
 
@@ -219,7 +227,7 @@ module Compilers
     -V paper_url=#{paper.pdf_url} \
     -V joss_resource_url=#{paper.joss_resource_url} \
     -V journal_alias=#{ENV['JOURNAL_ALIAS']} \
-    -V journal_abbrev_title=#{ENV['JOURNAL_ALIAS'].upcase} \
+    -V journal_abbrev_title=#{ENV['JOURNAL_ABBRV_TITLE']} \
     -V journal_url=#{ENV['JOURNAL_URL']} \
     -V journal_name='#{ENV['JOURNAL_NAME']}' \
     -V journal_issn=#{ENV['JOURNAL_ISSN']} \
@@ -280,12 +288,16 @@ module Compilers
       "timestamp" => Time.now.strftime('%Y%m%d%H%M%S'),
       "doi_batch_id" => generate_doi_batch_id,
       "formatted_doi" => paper.formatted_doi,
-      "archive_doi" => archive_doi,
+      "repository_doi" => repository_doi,
+      "data_doi" => data_doi,
+      "book_doi" => book_doi,
+      "docker_doi" => docker_doi,
+      "book_exec_url" => book_exec_url,
       "review_issue_url" => paper.review_issue_url,
       "paper_url" => paper.pdf_url,
       "joss_resource_url" => paper.joss_resource_url,
       "journal_alias" => ENV['JOURNAL_ALIAS'],
-      "journal_abbrev_title" => ENV['JOURNAL_ALIAS'].upcase,
+      "journal_abbrev_title" => ENV['JOURNAL_ABBRV_TITLE'],
       "journal_url" => ENV['JOURNAL_URL'],
       "journal_name" => ENV['JOURNAL_NAME'],
       "journal_issn"=> ENV['JOURNAL_ISSN'],

data/lib/whedon/processor.rb

@@ -12,7 +12,11 @@ module Whedon
     attr_accessor :review_issue_id
     attr_accessor :review_body
     attr_accessor :repository_address
-    attr_accessor :archive_doi
+    attr_accessor :repository_doi
+    attr_accessor :data_doi
+    attr_accessor :book_exec_url
+    attr_accessor :book_doi
+    attr_accessor :docker_doi
     attr_accessor :paper_path
     attr_accessor :xml_path
     attr_accessor :doi_batch_id
@@ -26,7 +30,11 @@ module Whedon
       @review_issue_id = review_issue_id
       @review_body = review_body
       @repository_address = review_body[REPO_REGEX]
-      @archive_doi = review_body[ARCHIVE_REGEX]
+      @repository_doi = review_body[ARCHIVE_REPOSITORY_REGEX]
+      @data_doi = review_body[ARCHIVE_DATA_REGEX]
+      @book_doi = review_body[ARCHIVE_BOOK_REGEX]
+      @docker_doi = review_body[ARCHIVE_DOCKER_REGEX]
+      @book_exec_url = review_body[BOOK_EXEC_REGEX]
       @custom_path = custom_path
       # Probably a much nicer way to do this...
       @current_year = ENV["CURRENT_YEAR"].nil? ? Time.new.year : ENV["CURRENT_YEAR"]
@@ -114,7 +122,9 @@ module Whedon
       joss_deposit
 
       puts "p=dat #{@review_issue_id};p.doi='#{paper.formatted_doi}';"\
-           "p.archive_doi=#{archive_doi};p.accepted_at=Time.now;"\
+           "p.repository_doi=#{repository_doi};p.accepted_at=Time.now;"\
+           "p.data_doi=#{data_doi};p.book_doi=#{book_doi};"\
+           "p.docker_doi=#{docker_doi};p.book_exec_url=#{book_exec_url};"\
            "p.citation_string='#{citation_string}';"\
            "p.authors='#{paper.authors_string}';p.title='#{paper.title}';"
     end
@@ -128,7 +138,11 @@ module Whedon
                   :id => paper.review_issue_id,
                   :metadata => Base64.encode64(paper.deposit_payload.to_json),
                   :doi => paper.formatted_doi,
-                  :archive_doi => archive_doi,
+                  :repository_doi => repository_doi,
+                  :data_doi => data_doi,
+                  :book_doi => book_doi,
+                  :docker_doi => docker_doi,
+                  :book_exec_url => book_exec_url,
                   :citation_string => citation_string,
                   :title => paper.plain_title,
                   :secret => ENV['WHEDON_SECRET']
@@ -147,6 +161,7 @@ module Whedon
         puts "Depositing with Crossref..."
         request = RestClient::Request.new(
                   :method => :post,
+                  #:url => "https://test.crossref.org/servlet/deposit",
                   :url => "https://doi.crossref.org/servlet/deposit",
                   :payload => {
                     :multipart => true,

data/lib/whedon/version.rb

@@ -1,3 +1,3 @@
 module Whedon
-  VERSION = "0.1.1"
+  VERSION = "0.1.4"
 end

data/lib/whedon.rb

@@ -32,7 +32,12 @@ module Whedon
   AUTHOR_REGEX = /(?<=\*\*Submitting author:\*\*\s)(\S+)/
   REPO_REGEX = /(?<=\*\*Repository:\*\*.<a\shref=)"(.*?)"/
   VERSION_REGEX = /(?<=\*\*Version:\*\*\s)(\S+)/
-  ARCHIVE_REGEX = /(?<=\*\*Archive:\*\*.<a\shref=)"(.*?)"/
+  ARCHIVE_REPOSITORY_REGEX = /(?<=\*\*Repository archive:\*\*.<a\shref=)"(.*?)"/
+  ARCHIVE_DATA_REGEX = /(?<=\*\*Data archive:\*\*.<a\shref=)"(.*?)"/
+  ARCHIVE_BOOK_REGEX = /(?<=\*\*Book archive:\*\*.<a\shref=)"(.*?)"/
+  ARCHIVE_DOCKER_REGEX = /(?<=\*\*Docker archive:\*\*.<a\shref=)"(.*?)"/
+  BOOK_EXEC_REGEX = /(?<=\*\*Jupyter Book:\*\*.<a\shref=)"(.*?)"/
+
 
   class Paper
     include GitHub
@@ -176,7 +181,11 @@ module Whedon
       %w(title tags languages).each { |var| payload['paper'][var] = self.send(var) }
       payload['paper']['authors'] = authors.collect { |a| a.to_h }
       payload['paper']['doi'] = formatted_doi
-      payload['paper']['archive_doi'] = review_issue_body[ARCHIVE_REGEX].gsub('"', '')
+      payload['paper']['repository_doi'] = review_issue_body[ARCHIVE_REPOSITORY_REGEX].gsub('"', '')
+      payload['paper']['data_doi'] = review_issue_body[ARCHIVE_DATA_REGEX].gsub('"', '')
+      payload['paper']['book_doi'] = review_issue_body[ARCHIVE_BOOK_REGEX].gsub('"', '')
+      payload['paper']['docker_doi'] = review_issue_body[ARCHIVE_DOCKER_REGEX].gsub('"', '')
+      payload['paper']['book_exec_url'] = review_issue_body[BOOK_EXEC_REGEX].gsub('"', '')
       payload['paper']['repository_address'] = review_issue_body[REPO_REGEX].gsub('"', '')
       payload['paper']['editor'] = "@#{editor}"
       payload['paper']['reviewers'] = reviewers.collect(&:strip)

data/paperdraft.Dockerfile

@@ -1,7 +1,11 @@
 FROM pandoc/latex:2.11.2
 
 # Update tlmgr
-RUN tlmgr update --self
+RUN tlmgr repository add ftp://ftp.math.utah.edu/pub/tex/historic/systems/texlive/2021/tlnet-final; \
+    tlmgr repository list; \
+    tlmgr repository remove http://mirror.ctan.org/systems/texlive/tlnet; \
+    tlmgr option repository ftp://ftp.math.utah.edu/pub/tex/historic/systems/texlive/2021/tlnet-final; \
+    tlmgr update --self
 
 # Install additional LaTeX packages
 RUN tlmgr install \

data/resources/crossref.template

@@ -7,14 +7,13 @@
       <depositor_name>NeuroLibre Admin</depositor_name>
       <email_address>roboneurolibre@gmail.com</email_address>
     </depositor>
-    <registrant>The Open Journal</registrant>
+    <registrant>Centre de Recherche de l'Institut Universitaire de Geriatrie de Montreal</registrant>
   </head>
   <body>
     <journal>
       <journal_metadata>
         <full_title>$journal_name$</full_title>
         <abbrev_title>$journal_abbrev_title$</abbrev_title>
-        <issn media_type="electronic">$journal_issn$</issn>
         <doi_data>
           <doi>10.55458/$journal_alias$</doi>
           <resource>$journal_url$</resource>
@@ -58,7 +57,7 @@
           </rel:related_item>
           <rel:related_item>
             <rel:description>Dataset archive</rel:description>
-            <rel:inter_work_relation relationship-type="hasPart" identifier-type="doi">$dataset_doi$</rel:inter_work_relation>
+            <rel:inter_work_relation relationship-type="hasPart" identifier-type="doi">$data_doi$</rel:inter_work_relation>
           </rel:related_item>
           <rel:related_item>
             <rel:description>Book archive</rel:description>

data/resources/{NeuroLibre → neurolibre}/defaults.yaml

@@ -4,9 +4,9 @@ csl: /usr/local/share/openjournals/NeuroLibre/apa.csl
 variables:
   joss_resource_url: 'N/A'
   journal_abbrev_title: 'NeuroLibre'
-  journal_alias: 'NeuroLibre'
+  journal_alias: 'neurolibre'
   journal_issn: '0000-0000'
-  journal_name: 'NeuroLibre Executable Preprint Server'
+  journal_name: 'NeuroLibre Reproducible Preprint Server'
   journal_url: 'https://neurolibre.org/'
 
 metadata:

data/resources/{NeuroLibre → neurolibre}/latex.template

@@ -431,29 +431,35 @@ $endif$
   %\hrule
   \sffamily\small
 
-  \href{{$book_exec_url$}}{\includegraphics[width=\marginparwidth]{$book_exec_icon$}}
-
-  \vspace{1mm}
+  \vspace{-4.5cm}
 
   {\bfseries DOI:} \href{https://doi.org/$formatted_doi$}{\color{red}{$formatted_doi$}}
 
   \vspace{2mm}
 
-  {\bfseries Jupyter Book}
+    {\bfseries Reproducible Preprint}
+  \begin{itemize}
+    \setlength\itemsep{0em}
+    \item \href{$book_exec_url$}{\color{red}{Jupyter Book}} \ExternalLink
+  \end{itemize}
+
+  \vspace{2mm}
+
+  {\bfseries Code}
   \begin{itemize}
     \setlength\itemsep{0em}
     \item \href{$review_issue_url$}{\color{red}{Technical Screening}} \ExternalLink
-    \item \href{$repository$}{\color{red}{Source}} \ExternalLink
+    \item \href{$repository$}{\color{red}{Submitted Repository}} \ExternalLink
   \end{itemize}
 
   \vspace{2mm}
 
-  {\bfseries Zenodo Archives}
+  {\bfseries Archives}
   \begin{itemize}
     \setlength\itemsep{0em}
     \item \href{$repository_doi$}{\color{red}{Repository}} \ExternalLink
     \item \href{$data_doi$}{\color{red}{Dataset}} \ExternalLink
-    \item \href{$book_doi$}{\color{red}{Built Book}} \ExternalLink
+    \item \href{$book_doi$}{\color{red}{Jupyter Book}} \ExternalLink
     \item \href{$docker_doi$}{\color{red}{Container}} \ExternalLink
   \end{itemize}
 
@@ -466,7 +472,7 @@ $endif$
   {\bfseries Editor:} \href{$editor_url$}{\color{red}$editor_name$} \ExternalLink \\
   \vspace{1mm}
   $if(reviewers)$
-  {\bfseries Reviewers:}
+  {\bfseries Reviewer(s):}
   \begin{itemize}
   \setlength\itemsep{0em}
   $for(reviewers)$

data/spec/auditor_spec.rb

@@ -17,6 +17,11 @@ describe Whedon::Auditor do
   end
 
   it "knows how to find the archive from the issue body" do
-    expect(subject.verify_archive).to eql("Archive: \"http://dx.doi.org/10.5281/zenodo.13750\"")
+    expect(subject.verify_archive).to eql("Repository archive: \"http://dx.doi.org/10.5281/zenodo.13750\" Data archive: \"http://dx.doi.org/10.5281/zenodo.13750\" Book archive: \"http://dx.doi.org/10.5281/zenodo.13750\" Docker archive: \"http://dx.doi.org/10.5281/zenodo.13750\"")
+  end
+
+  it "knows how to find the Jupyter Book from the issue body" do
+    expect(subject.verify_book).to eql("Jupyter Book: \"https://neurolibre.org\"")
   end
 end
+

data/spec/whedon_spec.rb

@@ -85,7 +85,7 @@ describe Whedon do
 
   it "should know how to generate the deposit_payload" do
     VCR.use_cassette('review') do
-      %w{title tags languages authors doi archive_doi repository_address editor reviewers}.each do |attribute|
+      %w{title tags languages authors doi repository_doi data_doi book_doi docker_doi repository_address editor reviewers}.each do |attribute|
         expect(paper_with_harder_names.deposit_payload['paper'][attribute].nil?).to be_falsey
       end
     end

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: roboneuro
 version: !ruby/object:Gem::Version
-  version: 0.1.1
+  version: 0.1.4
 platform: ruby
 authors:
 - Agah Karakuzu
 autorequire:
 bindir: bin
 cert_chain: []
-date: 2022-04-11 00:00:00.000000000 Z
+date: 2022-04-20 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: bibtex-ruby
@@ -270,7 +270,6 @@ executables:
 extensions: []
 extra_rdoc_files: []
 files:
-- ".DS_Store"
 - ".env-example"
 - ".env.test"
 - ".github/workflows/docker-image.yml"
@@ -316,14 +315,6 @@ files:
 - lib/whedon/version.rb
 - paperdraft.Dockerfile
 - pkg/roboneuro-0.1.0.gem
-- resources/.DS_Store
-- resources/NeuroLibre/.DS_Store
-- resources/NeuroLibre/aas-logo.png
-- resources/NeuroLibre/apa.csl
-- resources/NeuroLibre/defaults.yaml
-- resources/NeuroLibre/latex.template
-- resources/NeuroLibre/logo.png
-- resources/NeuroLibre/logo_link.png
 - resources/apa.csl
 - resources/crossref.template
 - resources/docker-defaults.yaml
@@ -340,6 +331,12 @@ files:
 - resources/joss/latex.template
 - resources/joss/logo.png
 - resources/latex.template
+- resources/neurolibre/aas-logo.png
+- resources/neurolibre/apa.csl
+- resources/neurolibre/defaults.yaml
+- resources/neurolibre/latex.template
+- resources/neurolibre/logo.png
+- resources/neurolibre/logo_link.png
 - resources/time.lua
 - roboneuro.gemspec
 - spec/auditor_spec.rb