rbbt-sources 3.1.49 → 3.1.50

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checksums.yaml CHANGED
@@ -1,7 +1,7 @@
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  SHA256:
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@@ -149,12 +149,12 @@ module Organism
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  new_positions = {}
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  TmpFile.with_file(positions_bed) do |source_bed|
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- TmpFile.with_file() do |unmapped_file|
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- TmpFile.with_file() do |map_file|
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+ TmpFile.with_file do |unmapped_file|
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+ TmpFile.with_file do |map_file|
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  Open.write(map_file, Open.read(map_url))
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- new_mutations = TmpFile.with_file() do |target_bed|
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+ new_mutations = TmpFile.with_file do |target_bed|
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  FileUtils.chmod(755, Rbbt.software.opt.bin.liftOver.produce.find)
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  CMD.cmd("#{Rbbt.software.opt.bin.liftOver.find} '#{source_bed}' '#{map_file}' '#{target_bed}' '#{unmapped_file}'").read
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  Open.read(target_bed) do |line|
@@ -20,6 +20,7 @@ $biomart_lexicon = [
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  $biomart_identifiers = [
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  ['Entrez Gene ID', "entrezgene"],
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+ ['Ensembl Protein ID', "ensembl_peptide_id" ],
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  ['Associated Gene Name' , "rgd_symbol"],
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  ['Protein ID' , "protein_id"] ,
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  ['UniProt/SwissProt ID' , "uniprot_swissprot"] ,
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: 3.1.49
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+ version: 3.1.50
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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: 2020-10-19 00:00:00.000000000 Z
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+ date: 2020-11-02 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