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Commits on Jul 1, 2014

• Tabs to spaces.

  davebx

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  e33d1f8

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• Add tool dependency definition for StringTie 0.97

  davebx

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Commits on Jun 29, 2014

• add octave tool dependency defintion

  bgruening

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Commits on Jun 28, 2014

• add pysam as requirement

  bgruening

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• Merge branch 'master' of https://github.com/bgruening/galaxytools

  bgruening

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Commits on Jun 27, 2014

• update to newest version, always assume a sorted BAM as input

  bgruening

  committed
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• Re-add "--sample_ploidy" parameter as suggested by Geert Vandeweyer.

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  nsoranzo

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Commits on Jun 24, 2014

• Merge pull request bgruening#60 from thehyve/master

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  bgruening

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• add LIBRARY_PATH, PKG_CONFIG_PATH for zlib

  JanKanis

  committed
  e15d51d

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• add LIBRARY_PATH for bzlib

  JanKanis

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  46b76de

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• Remove --multiallelic option which is not available anymore.

  nsoranzo

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Commits on Jun 23, 2014

• IndelType is not available anymore.

  nsoranzo

  committed
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• VariantRecalibrator requires at least training and truth sets to run.

  nsoranzo

  committed
  aa1c46e

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• Remove remaining mentions of percentBadVariants option.

  nsoranzo

  committed
  49ec143

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• Fix typos. Fix bgruening#38.

  nsoranzo

  committed
  ff14f1a

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• add new test data

  bgruening

  committed
  3314eed

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• add test data

  bgruening

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  4c8ac65

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• fix naming of bam files

  bgruening

  committed
  9b7dd76

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• style fixes

  bgruening

  committed
  c86a246

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• adopt the perl wrapper to new cwd behaviour

  bgruening

  committed
  2c3881d

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• enhancements to the different pubchem rest tools

  bgruening

  committed
  96778de

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• bugfix for file type extension dependent parameter setting within repeat section

  bgruening

  committed
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Commits on Jun 20, 2014

• samtools sort fixes

  bgruening

  committed
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• Merge branch 'master' of https://github.com/bgruening/galaxytools

  bgruening

  committed
  5cfa515

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• add samtools sort

  bgruening

  committed
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Commits on Jun 19, 2014

• Merge branch 'master' of https://github.com/bgruening/galaxytools

  bgruening

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  71efb25

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• add new bedtools wrappers

  bgruening

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  56733e0

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• remove obsolete tools

  bgruening

  committed
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Commits on Jun 17, 2014

• GATK2: Update upstream documentation links for 2 tools. Documentation for ReduceReads has been removed.

  nsoranzo

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Commits on Jun 12, 2014

• restructure EDeN wrappers

  bgruening

  committed
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• Merge branch 'master' of https://github.com/bgruening/galaxytools

  bgruening

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  cdc43c6

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• fix bug reported by Sebastian

  bgruening

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Commits on Jun 10, 2014

• Update README.rst

  bgruening

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Commits on Jun 9, 2014

• update to the latest bugfix release bgruening#57

  bgruening

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Commits on Jun 7, 2014

• Merge branch 'master' of https://github.com/bgruening/galaxytools

  bgruening

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