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Revision as of 17:44, 29 September 2010
, 17:44, 29 September 2010no edit summary
== Enhancements/Updates/Fixes ==
== Enhancements/Updates/Fixes ==
=== 09/29/2010 ===
* Updated CigarRoller to have a method to set a CigarRoller from another CigarRoller.
* Cigar: Add static methods to return whether or not an operation is a clip (isClip) or indicates bases found in the query sequence (foundInQuery).
* Update how to specify stdin file type - now use the ifileCompression parameter to ifopen.
=== 09/24/2010 ===
* Add capability to read/write from/to stdin/stdout
** Updated most cout/stdout to cerr/stderr for info/error messages.
* Added a BaseUtilities Class for determining information about bases & qualities.
=== 09/15/2010 ===
* Fix bug in BgzfFileType. For BGZF - EOF is determined when 0 bytes read, but if 0 were specified to be read, it is not EOF.
=== 08/24/2010 ===
* Paul updated Cigar to have a getCigarString that takes std::string instead of just String.
=== 08/12/2010 ===
* Fix bug in Cigar::getQueryIndex from reference position that did not first check if the query and reference maps were created.
=== 08/11/2010 ===
=== 08/11/2010 ===
* Split CigarRoller into a base class, Cigar, and a child class, CigarRoller.
* Split CigarRoller into a base class, Cigar, and a child class, CigarRoller.
