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Commits on Jan 8, 2016

• Created a .travis.yml file

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• Added perl version to proovread version message

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• Changes VERSION declaration

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• Merge branch 'issue_perl_5_10_1'

  

  Thomas Hackl

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Commits on Jan 7, 2016

• Updated documentation due to Perl 5.10.1 issue

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• Perl 5.10.1 required

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• Merge branch 'issue_samtools_1-3_support'

  

  Thomas Hackl

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• Increased version and added Frank to Authors

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• samtools 1.2 now supported again

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• samtools 1.3 compatibility Fixes BioInf-Wuerzburg#35

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Commits on Nov 12, 2015

• use ccseq in utg mode as well

  

  Thomas Hackl

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• fixed utg-file scan - filename was overwritten

  

  Thomas Hackl

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Commits on Oct 22, 2015

• fixed SeqFilter submodule commit

  

  Thomas Hackl

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Commits on Oct 14, 2015

• throw exception on gzipped input; fixes BioInf-Wuerzburg#13

  

  Thomas Hackl

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• check every utg header for length; Edward convinced me - better save than sorry

  

  Thomas Hackl

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• version++

  

  Thomas Hackl

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• test utg file for max header length (sampling based)

  

  Thomas Hackl

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• utg.fa -> utg.fasta

  

  Thomas Hackl

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• fixed LAcat with path call; thanks to Edward

  

  Thomas Hackl

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• require .fasta extension for utgs; closes BioInf-Wuerzburg#11

  

  Thomas Hackl

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• fixed call to dazz-db with path from config - thanks to Edward

  

  Thomas Hackl

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• added File::Which to dependencies (close BioInf-Wuerzburg#17)

  

  Thomas Hackl

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Commits on Oct 7, 2015

• Fix for crutial missed merging step in dazzler mode as well as <20bp short unitigs; Thanks to yuragal; closing BioInf-Wuerzburg#16

  

  Thomas Hackl

  committed
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• added utg sample data and "--sample dazz" mode to test daligner

  

  Thomas Hackl

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Commits on Sep 2, 2015

• removed writing of temporary sam files for debug, which conflicts with latest Sam::Parser

  

  Thomas Hackl

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Commits on Aug 19, 2015

• don't use Fasta::Store yet

  

  Thomas Hackl

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• require Fastq::Seq 0.13.3

  

  Thomas Hackl

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• fixed version parse regexp

  

  Thomas Hackl

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• require Fasta::Seq-0.9.0

  

  Thomas Hackl

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Commits on Aug 11, 2015

• removed simple haplo_coverage/haplo_consensus call - now done by pr-polish

  

  Thomas Hackl

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• require latest Fasta and Sam module versions and use corresponding synopsis

  

  Thomas Hackl

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• ignore use_ref_qual for fasta; append samtools fetch ids with ":"

  

  Thomas Hackl

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  e3c6251

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• upgrade SeqFilter

  

  Thomas Hackl

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• upgrade Sam::Alignment-1.1.3, Sam::Parser-1.3.3, Sam::Seq-1.4.1

  

  Thomas Hackl

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• upgrade Fasta::Seq-0.13.3

  

  Thomas Hackl

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