[med-svn] [picard-tools] branch upstream updated (d02872e -> ff4fd82)

[Charles Plessy]

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plessy pushed a change to branch upstream
in repository picard-tools.

      from  d02872e   Imported Upstream version 1.100
       new  ff4fd82   Imported Upstream version 1.101

The 1 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "adds" were already present in the repository and have only
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Summary of changes:
 build.xml                                          |    2 +-
 src/java/net/sf/picard/pedigree/PedFile.java       |   99 +++++++++++
 src/java/net/sf/picard/pedigree/PedTrio.java       |   45 +++++
 src/java/net/sf/picard/pedigree/Sex.java           |   26 +++
 src/java/net/sf/picard/util/MathUtil.java          |   17 ++
 src/java/net/sf/samtools/util/Iso8601Date.java     |    2 +-
 .../net/sf/samtools/util/RelativeIso8601Date.java  |  187 ++++++++++++++++++++
 .../org/broadinstitute/variant/vcf/VCFCodec.java   |    4 +-
 .../broadinstitute/variant/vcf/VCFFileReader.java  |   40 +++--
 .../sf/samtools/util/RelativeIso8601DateTest.java  |   39 ++++
 10 files changed, 442 insertions(+), 19 deletions(-)
 create mode 100644 src/java/net/sf/picard/pedigree/PedFile.java
 create mode 100644 src/java/net/sf/picard/pedigree/PedTrio.java
 create mode 100644 src/java/net/sf/picard/pedigree/Sex.java
 create mode 100644 src/java/net/sf/samtools/util/RelativeIso8601Date.java
 create mode 100644 src/tests/java/net/sf/samtools/util/RelativeIso8601DateTest.java

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