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Commits on Apr 5, 2012

  1. Merge commit '889ab04c6a824f1cd18a08b21eeaef16c3a90862' into sv

    James Casbon
    James Casbon committed Apr 5, 2012
    be39403

  2. Merge branch 'master' of github.com:jamescasbon/PyVCF

    James Casbon
    James Casbon committed Apr 5, 2012
    8537a6a

  3. new func. to support SVs in VCF 4.1

    @arq5x
    arq5x committed Apr 5, 2012
    889ab04

  4. optimize _Call.gt_type

    @arq5x
    arq5x committed Apr 5, 2012
    94b902b
Commits on Apr 4, 2012

  1. Merge pull request #37 from arq5x/master

    James Casbon
    James Casbon committed Apr 4, 2012 
    Fix for Issue #36
    5663ff8

  2. corrected GT defn. in test/example-4.1-sv.vcf

    @arq5x
    arq5x committed Apr 4, 2012
    a9a19a1
Commits on Apr 3, 2012

  1. version bump

    James Casbon
    James Casbon committed Apr 3, 2012
    b20e1e2

  2. Single floats in Reader._sample_parser not being converted to float #35

    James Casbon
    James Casbon committed Apr 3, 2012
    d183a20
Commits on Mar 30, 2012

  1. Merge pull request #34 from arq5x/master

    James Casbon
    James Casbon committed Mar 30, 2012 
    Handle String INFO values when Number=1 in header
    a268705
Commits on Mar 29, 2012

  1. var.INFO now returns full strings for type=String and num=1

    @arq5x
    arq5x committed Mar 29, 2012
    5e31e93
Commits on Mar 22, 2012

  1. make executable

    James Casbon
    James Casbon committed Mar 22, 2012
    f8a338d

  2. update history

    James Casbon
    James Casbon committed Mar 22, 2012
    b69ff25

  3. try nosetests with travis

    James Casbon
    James Casbon committed Mar 22, 2012
    ef239e0

  4. Merge pull request #33 from martijnvermaat/travis-ci

    James Casbon
    James Casbon committed Mar 22, 2012 
    Configuration for Travis CI
    316a9eb
Commits on Mar 14, 2012

  1. Disable Python 2.5 on Travis CI

    @martijnvermaat
    martijnvermaat committed Mar 14, 2012
    48b775b

  2. Minimal configuration for Travis CI

    @martijnvermaat
    martijnvermaat committed Mar 14, 2012
    eb1a31d

  3. remove cruft in setup, version bump to 0.4.2

    James Casbon
    James Casbon committed Mar 14, 2012
    bfc9043

  4. setup.py without import

    James Casbon
    James Casbon committed Mar 14, 2012
    89daaa9
Commits on Mar 7, 2012

  1. ready 0.4.0 release

    James Casbon
    James Casbon committed Mar 7, 2012
    d748c5c

  2. Merge pull request #31 from arq5x/master

    James Casbon
    James Casbon committed Mar 7, 2012 
    Methods for determining the variant type
    d3b841d
Commits on Mar 6, 2012

  1. removed extraneous function that was added for testing

    @arq5x
    arq5x committed Mar 6, 2012
    8ce5c31

  2. docstrings

    @arq5x
    arq5x committed Mar 6, 2012
    62dfa9d

  3. add is_snp, is_indel, is_transition, is_deletion, var_type, var_subtype

    @arq5x
    arq5x committed Mar 6, 2012
    bfbc887
Commits on Feb 21, 2012

  1. missing test data file, null_genotype_mono.vcf

    @ian1roberts
    ian1roberts committed Feb 21, 2012
    8383fd6

  2. handle null QUAL, INFO

    @ian1roberts
    ian1roberts committed Feb 21, 2012
    21992e6
Commits on Feb 19, 2012

  1. profiling script

    @casbon
    casbon committed Feb 19, 2012
    1cf2c58

  2. profiling script

    @casbon
    casbon committed Feb 19, 2012
    9c400e4

  3. clean up test suite

    @casbon
    casbon committed Feb 19, 2012
    8d274ec
Commits on Feb 17, 2012

  1. short circuit splits in parse_sample

    James Casbon
    James Casbon committed Feb 17, 2012
    115ffed
Commits on Feb 16, 2012

  1. Formats described with Number=1 are no longer returned in lists; fixe…

    James Casbon
    James Casbon committed Feb 16, 2012 
    …s issue #19; breaks your code
    fe76e90

  2. Merge pull request #21 from martijnvermaat/test-samtools

    James Casbon
    James Casbon committed Feb 16, 2012 
    Test VCF file generated by samtools
    0d43bee

  3. fix name collision in tests

    James Casbon
    James Casbon committed Feb 16, 2012
    e09e54b

  4. Apply GQ filter to variant sites only

    @ian1roberts
    ian1roberts committed Feb 16, 2012
    5e744e9

  5. Add is_monorphic attribute to records to flag reference sites

    @ian1roberts
    ian1roberts committed Feb 16, 2012
    511ac49

  6. missing test data

    James Casbon
    James Casbon committed Feb 16, 2012
    0cf6f9a