GitHub PushEvent at 2014-06-09 20:44:08
Repository: adam
Actor: tdanford
Payload: {"shas":[["5dbb02ec6806cbb1fab4c8fe0800a0c56c769827","9dcf5e33cfb31a2872893d1fd44fa7914cac0864@gmail.com","Adding RichADAMRecord.referenceLengthFromCigar\n\nThe new referenceLengthFromCigar method (and its associated ADAMRecord method, 'referenceLength')\nis an implementation of a method which counts the length of an aligned read against the reference\nsequence. This is useful because rec.start + rec.referenceLength is a logical \"end\" coordinate\nto be used for testing overlap of an ADAMRecord against a reference range.","Timothy Danford",false],["12ab6fcd3e1ae28e54fca6dda1787c5b84fd6d9e","1b7fbefd792d7a9793d7aac527d8c759c32763c6@berkeley.edu","Merge pull request #263 from genomebridge/tdanford/referenceLengthFromCigar\n\nAdded AdamContext.referenceLengthFromCigar","Frank Austin Nothaft",false],["2efc1515d36f28bcd5a885627f6656fe6574385e","9dcf5e33cfb31a2872893d1fd44fa7914cac0864@gmail.com","Adding a dependency on the AWS Java SDK.\n\nOur implementation of the Parquet-based RDD is going to need this.","Timothy Danford",true],["0f96c6c9db652c5d93c5f6d4278dd7d4c40d9769","9dcf5e33cfb31a2872893d1fd44fa7914cac0864@gmail.com","Adding ByteAccess trait and implementations.\n\nByteAccess is a trait representing \"sources of bytes\" for which random access is available,\ne.g. local files, S3, etc. This is going to be used to wrap different data storage back-ends,\nfor raw byte access and allowing us to go around the hadoop library itself.","Timothy Danford",true],["0ae93531d47dbfbcbf7c45561d126e185a913768","9dcf5e33cfb31a2872893d1fd44fa7914cac0864@gmail.com","SerializableAWSCredentials is an AWSCredentials which is Serializable.\n\nWe're going to need to pass around (serializable) credentials for S3, in order to\nimplement our ParquetRDD that reads directly from S3.","Timothy Danford",true],["6d4e3857d9c578ababff411b600c9b38dacb5b1b","9dcf5e33cfb31a2872893d1fd44fa7914cac0864@gmail.com","CredentialsProperties encapsulates reading AWS credentials from configuration.\n\nThis is a wrapper class, designed to allow us to recognize and retrieve credentials from the environment,\nconfig files, or other sources.","Timothy Danford",true],["d2f24cead722d46a1c953afbfed531ac01afbc2b","9dcf5e33cfb31a2872893d1fd44fa7914cac0864@gmail.com","Added FileLocator and implementations.\n\nFileLocator, and its implementations, are a common wrapper around local Files, classpath locations,\nbucket/keyname pairs in S3, and static byte arrays (for testing).  This is a way (also serializable)\nfor naming the location of parquet files and indices in different systems.","Timothy Danford",true]],"size":7,"ref":"refs/heads/parquet-utils-rebase","head":"d2f24cead722d46a1c953afbfed531ac01afbc2b"}