seqtrimnext 2.0.48 → 2.0.49

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Files changed (7) hide show
  1. data/History.txt +4 -0
  2. data/Rakefile +3 -3
  3. data/bin/join_big_illumina_paired.sh +1 -1
  4. data/lib/seqtrimnext/plugins/plugin_low_high_size.rb +1 -1
  5. data/lib/seqtrimnext/templates/transcriptomics_illumina.txt +0 -1
  6. data/lib/seqtrimnext.rb +1 -1
  7. metadata +5 -5
data/History.txt CHANGED
@@ -1,3 +1,7 @@
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+ === 2.0.49 2012-05-24
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+
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+ Updated gem dependencies
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+
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  === 2.0.48 2012-05-16
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  Select biggest sequence on cluster
data/Rakefile CHANGED
@@ -21,10 +21,10 @@ $hoe = Hoe.spec 'seqtrimnext' do
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  self.extra_deps << ['gnuplot','>=0']
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  self.extra_deps << ['term-ansicolor','>=1.0.5']
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  self.extra_deps << ['xml-simple','>=1.0.12']
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- self.extra_deps << ['scbi_blast','>=0.0.32']
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- self.extra_deps << ['scbi_mapreduce','>=0.0.29']
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+ self.extra_deps << ['scbi_blast','>=0.0.34']
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+ self.extra_deps << ['scbi_mapreduce','>=0.0.38']
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  self.extra_deps << ['scbi_fasta','>=0.1.7']
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- self.extra_deps << ['scbi_fastq','>=0.0.13']
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+ self.extra_deps << ['scbi_fastq','>=0.0.15']
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  self.extra_deps << ['scbi_plot','>=0.0.6']
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  self.extra_deps << ['scbi_math','>=0.0.1']
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data/bin/join_big_illumina_paired.sh CHANGED
@@ -17,7 +17,7 @@ fi
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  base_name=$3
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  if [[ -z "$base_name" ]]; then
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- echo "Use a : $base_name doesn't exists"
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+ echo "$base_name doesn't exists"
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  exit -1
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  fi
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data/lib/seqtrimnext/plugins/plugin_low_high_size.rb CHANGED
@@ -38,7 +38,7 @@ class PluginLowHighSize < Plugin
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  seq.seq_rejected = true
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  seq.seq_rejected_by_message= 'size out of limits'
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- add_stats('rejected_seqs',seq.seq_fasta.length)
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+ add_stats('rejected_seqs',seq.seq_fasta.length)
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  actions.push a
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  seq.add_actions(actions)
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data/lib/seqtrimnext/templates/transcriptomics_illumina.txt CHANGED
@@ -2,7 +2,6 @@
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  # General parameters
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  # ======================================
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-
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  plugin_list = PluginLowHighSize,PluginIndeterminations,PluginFindPolyAt,PluginContaminants,PluginLowQuality,PluginLowComplexity
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  contaminants_db="contaminants.fasta cont_ribosome.fasta"
data/lib/seqtrimnext.rb CHANGED
@@ -30,7 +30,7 @@ module Seqtrimnext
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  # SEQTRIM_VERSION_STAGE = 'b'
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  # SEQTRIM_VERSION = "2.0.0#{SEQTRIM_VERSION_STAGE}#{SEQTRIM_VERSION_REVISION}"
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- VERSION = '2.0.48'
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+ VERSION = '2.0.49'
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  SEQTRIM_VERSION = VERSION
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metadata CHANGED
@@ -2,7 +2,7 @@
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  name: seqtrimnext
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  version: !ruby/object:Gem::Version
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  prerelease:
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- version: 2.0.48
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+ version: 2.0.49
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  platform: ruby
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  authors:
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  - Dario Guerrero & Almudena Bocinos
@@ -10,7 +10,7 @@ autorequire:
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  bindir: bin
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  cert_chain: []
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- date: 2012-05-16 00:00:00 Z
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+ date: 2012-05-24 00:00:00 Z
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  dependencies:
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  - !ruby/object:Gem::Dependency
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  name: narray
@@ -64,7 +64,7 @@ dependencies:
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  requirements:
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  - - ">="
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  - !ruby/object:Gem::Version
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- version: 0.0.32
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+ version: 0.0.34
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  type: :runtime
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  version_requirements: *id005
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  - !ruby/object:Gem::Dependency
@@ -75,7 +75,7 @@ dependencies:
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  requirements:
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  - - ">="
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  - !ruby/object:Gem::Version
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- version: 0.0.29
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+ version: 0.0.38
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  type: :runtime
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  version_requirements: *id006
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  - !ruby/object:Gem::Dependency
@@ -97,7 +97,7 @@ dependencies:
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  requirements:
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  - - ">="
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  - !ruby/object:Gem::Version
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- version: 0.0.13
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+ version: 0.0.15
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  type: :runtime
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  version_requirements: *id008
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  - !ruby/object:Gem::Dependency