yat

The concept 'Distance' now requires that operator() works on iterator that are readable and forward traversal, i.e., the previously implicit requirement that iterator's reference type is lvalue is dropped (ticket #873) libbam support is marked ... [More] deprecated; use htslib. A new (private) pure virtual function assign(const VectorBase&) was added in VectorMutable. (ticket #840) WeightedIterator is std::input_iterator_tag (ticket #803, r3459) Fisher::p_value exact is modified and the summation now runs over i for which P(i)<=P(k). (#841) [Less]

Bugfix release

The major focus of this release is to add support for htslib (#794) We encourage users to use htslib rather than its predecessor libbam (samtools 0.1.x). Currently, there is no plan to drop support for linking against libbam, but as the APIs are ... [More] slightly different between libbam and htslib and therefore occasionally need separate implementations, optimising the libbam implementation will not be a priority. [Less]

bugfix release unexpected CIGAR QuantileNormalizer? segfaults if input has more columns than rows

This is a bugfix release. It adds a test in configure to check if function bam_calend in libbam is OK. If not, yat avoids using bam_calend and uses its own implementation (see #810). Changes since 0.12: diff:/tags/0.12//tags/0.12.1

Many bugfixes and several new functionality including BamPairIterator?, Cigar and LRT classes. Difference against latest release diff:/tags/0.11.2//trunk

bugfix release

Bugfix release

This release adds some more functionality especially providing a more complete interface against libbam. Preprocessor #defines HAVE_BAM_H and friends have now been replaced with YAT_HAVE_BAM_H (see ticket #764). A number of functions in namespace statistics have been deprecated and will be removed in future versions.

This is a bugfix release. It is likely the last release in 0.10.x series, in other words, the last release prior v0.11. Please see NEWS file for detailed list of bugs fixed.