sushi_fabric 0.8.8 → 0.8.9
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/sushi_fabric/sushiApp.rb +15 -11
- data/lib/sushi_fabric/version.rb +1 -1
- metadata +2 -2
checksums.yaml
CHANGED
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@@ -1,7 +1,7 @@
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---
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SHA1:
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-
metadata.gz:
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4
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data.tar.gz:
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3
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metadata.gz: 7a253b6d0f03b89ae2cf1cfa373b30cf0db64e4e
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4
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data.tar.gz: 525eaeceb14f997b993e0bfcf25607e8156d428e
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SHA512:
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metadata.gz:
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data.tar.gz:
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6
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metadata.gz: 7f6c4664b86ca5d2ac62f949db298158f610ff94903637920157ce10b9d32d1eb9099b064a572962ee04d7365e726f1b876c5d4090d26dd4f17674be457da41a
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7
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data.tar.gz: 966334d7146fb8fa6d6c00bbda14ab118f0b5a67c47eeea5f4683c980668ebdda22fb4f2ffb2833e1223b7568c946c5f80ca22a3ac2842924cf83f4ee4662a24
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@@ -1,6 +1,6 @@
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#!/usr/bin/env ruby
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# encoding: utf-8
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# Version = '
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3
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# Version = '20181012-131954'
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require 'csv'
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require 'fileutils'
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@@ -235,6 +235,7 @@ class SushiApp
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@params['scratch'] = nil
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@params['node'] = ''
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@params['process_mode'] = 'SAMPLE'
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@params['samples'] = ''
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@job_ids = []
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@required_columns = []
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@module_source = MODULE_SOURCE
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@@ -624,18 +625,21 @@ rm -rf #{@scratch_dir} || exit 1
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@out.close
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end
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def sample_mode
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selected_samples = Hash[*@params['samples'].split(',').map{|sample_name| [sample_name, true]}.flatten]
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@dataset_hash.each do |row|
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@dataset = Hash[*row.map{|key,value| [key.gsub(/\[.+\]/,'').strip, value]}.flatten]
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if selected_samples[@dataset['Name']]
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## WRITE THE JOB SCRIPT
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sample_name = @dataset['Name']||@dataset.first
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@job_script = if @dataset_sushi_id and dataset = DataSet.find_by_id(@dataset_sushi_id.to_i)
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File.join(@job_script_dir, @analysis_category + '_' + sample_name) + '_' + dataset.name.gsub(/\s+/,'_') + '.sh'
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else
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File.join(@job_script_dir, @analysis_category + '_' + sample_name) + '.sh'
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end
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make_job_script
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@job_scripts << @job_script
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@result_dataset << next_dataset
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end
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end
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end
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def dataset_mode
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data/lib/sushi_fabric/version.rb
CHANGED
metadata
CHANGED
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@@ -1,14 +1,14 @@
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--- !ruby/object:Gem::Specification
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name: sushi_fabric
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version: !ruby/object:Gem::Version
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version: 0.8.
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version: 0.8.9
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platform: ruby
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authors:
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- Functional Genomics Center Zurich
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autorequire:
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bindir: bin
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cert_chain: []
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date: 2018-
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date: 2018-10-12 00:00:00.000000000 Z
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dependencies:
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- !ruby/object:Gem::Dependency
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name: bundler
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