rbbt-sources 3.1.15 → 3.1.16
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- checksums.yaml +4 -4
- data/lib/rbbt/sources/oncodrive_role.rb +32 -0
- metadata +12 -11
checksums.yaml
CHANGED
@@ -1,7 +1,7 @@
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---
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SHA1:
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metadata.gz:
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data.tar.gz:
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metadata.gz: feef731c1d37abc9fcaf618086634f4bebde968c
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4
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data.tar.gz: 58d28f8048a043d406c0cc1f72fe3b44186ead5e
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SHA512:
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metadata.gz:
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data.tar.gz:
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metadata.gz: b5fa5a78fe7e152691a92b6119202fdb0066fcf7377bafeb907b02519477221762c8b563239c26024700ee48f301e4377527f95441d87cadb50a26bc884dc626
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data.tar.gz: cdb897373677da35b65aa93964af005ac1048a4097643a4ae0b1a67024f67dc90da5204b5eea928429039cc63c9da275c6faf3b99cc920f3e46ca893c8f3dcab
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@@ -0,0 +1,32 @@
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require 'rbbt-util'
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require 'rbbt/resource'
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require 'rbbt/sources/organism'
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module OncoDriveROLE
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extend Resource
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self.subdir = 'share/databases/OncoDriveROLE'
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def self.organism(org="Hsa")
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Organism.default_code(org)
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end
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#self.search_paths = {}
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#self.search_paths[:default] = :lib
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OncoDriveROLE.claim OncoDriveROLE.Cancer5000, :proc do
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url = "http://bg.upf.edu/oncodrive-role/session/26f1ae8615a9420110c0b1b9f68d9c09/download/downloadData?w="
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tsv = TSV.open(url, :header_hash => '', :type => :list, :namespace => OncoDriveROLE.organism)
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tsv.key_field = "Ensembl Gene ID"
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tsv.fields = ["Associated Gene Name", "Mode of action", "Value"]
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tsv.to_s
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end
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def self.oncogenes
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OncoDriveROLE.Cancer5000.tsv.select("Mode of action" => "Activating").keys
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end
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end
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iif OncoDriveROLE.Cancer5000.produce.find if __FILE__ == $0
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metadata
CHANGED
@@ -1,14 +1,14 @@
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--- !ruby/object:Gem::Specification
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name: rbbt-sources
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version: !ruby/object:Gem::Version
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-
version: 3.1.
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version: 3.1.16
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platform: ruby
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authors:
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- Miguel Vazquez
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autorequire:
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bindir: bin
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cert_chain: []
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-
date: 2017-
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date: 2017-06-15 00:00:00.000000000 Z
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dependencies:
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- !ruby/object:Gem::Dependency
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name: rbbt-util
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@@ -111,6 +111,7 @@ files:
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- lib/rbbt/sources/jochem.rb
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- lib/rbbt/sources/kegg.rb
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- lib/rbbt/sources/matador.rb
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- lib/rbbt/sources/oncodrive_role.rb
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- lib/rbbt/sources/organism.rb
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- lib/rbbt/sources/pfam.rb
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- lib/rbbt/sources/pharmagkb.rb
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@@ -181,19 +182,19 @@ signing_key:
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specification_version: 4
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summary: Data sources for the Ruby Bioinformatics Toolkit (rbbt)
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test_files:
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- test/test_helper.rb
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- test/rbbt/sources/test_pubmed.rb
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- test/rbbt/sources/
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- test/rbbt/sources/test_biomart.rb
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- test/rbbt/sources/test_string.rb
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- test/rbbt/sources/test_gscholar.rb
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- test/rbbt/sources/
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- test/rbbt/sources/test_biomart.rb
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- test/rbbt/sources/test_go.rb
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- test/rbbt/sources/test_pina.rb
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- test/rbbt/sources/test_entrez.rb
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- test/rbbt/sources/test_pharmagkb.rb
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- test/rbbt/sources/test_organism.rb
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- test/rbbt/sources/test_matador.rb
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- test/rbbt/sources/
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- test/rbbt/sources/test_tfacts.rb
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- test/rbbt/sources/test_kegg.rb
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- test/rbbt/sources/test_synapse.rb
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- test/rbbt/sources/test_go.rb
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- test/rbbt/sources/test_stitch.rb
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- test/rbbt/sources/
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- test/rbbt/sources/test_string.rb
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- test/rbbt/sources/test_tfacts.rb
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- test/test_helper.rb
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- test/rbbt/sources/test_HPRD.rb
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