Looking for the latest version? Download picard-tools-1.119.zip (51.8 MB)
Name Modified Size Downloads / Week Status
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picard-tools-1.85.zip 2013-02-07 37.9 MB 0
README.txt 2013-02-07 1.2 kB 0
Totals: 2 Items   37.9 MB
Picard release 1.85 7 February 2013 - bug fix -- LittleEndianInputStream would hang in infinite loop if EOF was encountered before null terminator. - Include tribble build/tests in main build.xml, some refactoring. Use sam version number for tribble - Move org.broadinstitute.variant to the Picard repo -Modified build.xml to build and package the variant classes into a separate jar -Made the necessary changes to run our unit tests with Contracts for Java enabled. These now run as part of a normal "ant test". Note that our tests are not as "chatty" as yours, so there will be a short pause in the output while the variant tests run. -Add the required cofoja (Contracts for Java) and Apache commons dependencies to lib/ - Moving JEXLMap from a top level member of file VariantJEXLContext to its own class - CollectGcBiasMetrics.java: Create command line argument (short name BS) to handle bisulfite sequenced reads. CollectGcBiasMetrics will use the bisulfite-aware countMismatches() if true. - Adding Merge- and SplitVcfs, two utilities that merge VCF files and split them into files of only SNPs or indels. Also adding MergingIterator and a comparator for VariantContext
Source: README.txt, updated 2013-02-07

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