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removed extra bullets, added ul #184

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merged 6 commits into from
Aug 11, 2023
Merged

removed extra bullets, added ul #184

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a620551
removed extra bullets, added ul
bp289 Aug 10, 2023
8c4b9e8
indicated current package review administrators
bp289 Aug 11, 2023
27f1106
removed changes
bp289 Aug 11, 2023
6ca980c
removed changes
bp289 Aug 11, 2023
dd33b3a
Update Dockerfile
SociableSteve Aug 11, 2023
ec40a96
Update get_json.rb
SociableSteve Aug 11, 2023
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10 changes: 1 addition & 9 deletions Dockerfile
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Original file line number Diff line number Diff line change
@@ -1,34 +1,26 @@
FROM ruby:2.6.5
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## System dependencies
RUN apt-get update && apt-get install -y \
rsync \
&& apt-get clean \
&& rm -rf /var/lib/apt/lists/*

## Install gems
COPY Gemfile /opt
COPY Gemfile.lock /opt

## Set the working directory to /opt/bioconductor.org
WORKDIR /opt/bioconductor.org

## Copy the remaining files from bioconductor.org/ to /opt/bioconductor.org
COPY . .

## Install bundle and dependencies
RUN gem install bundler
RUN bundle install --jobs=4 && bundle clean --force

## Set up web server
EXPOSE 3000

## Create startup script
RUN echo '#! /bin/bash' > .startup.sh \
&& echo 'cd /opt/bioconductor.org' >> .startup.sh \
&& echo 'rake' >> .startup.sh \
&& echo 'cd output' >> .startup.sh \
&& echo 'adsf' >> .startup.sh \
&& chmod +x .startup.sh

CMD ["/opt/bioconductor.org/.startup.sh"]
CMD ["/opt/bioconductor.org/.startup.sh"]
8 changes: 4 additions & 4 deletions content/about/package-reviewers.md
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Expand Up @@ -30,12 +30,12 @@ submitted packages must abide by the Bioconductor [Code of Conduct][].
<li>Lori Shepherd*</li>
<li>Dario Strbenac</li>
<li>Luke Zappia</li>

\*Current Package Review Administrators

</ul>

## Past Package Reviewers
<p>*Current Package Review Administrators</p>

## Past Package Reviewers
<ul>
<li>Martin Morgan</li>
<li>Nitesh Turaga</li>
</ul>
1 change: 1 addition & 0 deletions lib/data_sources/bioc_views.rb
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Expand Up @@ -160,6 +160,7 @@ def items
items.push(get_index_page(packages, v, version))

for package in packages.keys
if (package != "limma") then next end
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repo = k
id = "/#{version}/#{repo}#{package}/"
pkgs = packages[package]
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4 changes: 2 additions & 2 deletions scripts/get_json.rb
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Expand Up @@ -175,8 +175,8 @@ def get_bioc_views(dcfs, repo, version)

call = "git archive --remote=ssh://[email protected]/packages/biocViews #{branch} inst/extdata/biocViewsVocab.sqlite | tar -x --strip=2 -C #{tempDir}"
# local test changes to biocViews
# call = "cp /home/lori/b/Rpacks/biocViews/inst/extdata/biocViewsVocab.sqlite #{tempDir}"

call = "cp /Users/birajpantha/Documents/stuff/biocViews/inst/extdata/biocViewsVocab.sqlite #{tempDir}"
# call = "cp /home/lori/b/Rpacks/biocViews/inst/extdata/biocViewsVocab.sqlite #{tempDir}"
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system(call)
dbfile = "#{tempDir}/biocViewsVocab.sqlite"
db = SQLite3::Database.new(dbfile)
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