Merge branch 'master' of github.com:weese/seqan into develop
Merge pull request #221 from weese/hotfix/remove-warnings

Fixed SGIP and removed deprecation warnings in SNPstore (master)
Merge pull request #240 from weese/hotfix/knime-infos

[DOC] Knime license, description and copyright updated
[FIX] Bam: clear flag member
Merge pull request #255 from esiragusa/fix/bam_clear

Clear Bam record flag
[FIX] Fixing swap() for FragmentStore.

Member contigNameStore was swapped once too often.
[FIX] Fixing swap() of FragmentStore.

Sorting lines and removing some more duplicates.
Merge pull request #258 from seqan/master

Missing merge from develop into master.
Merge pull request #259 from holtgrewe/hotfix/store_swap

[FIX] Fixing swap() for FragmentStore.
[FIX,DOC] Fixing const-correctness and dox of calculateMateIndices().
Merge pull request #260 from holtgrewe/fix/store_compute_mate_indices

[FIX,DOC] Fixing const-correctness and dox of calculateMateIndices().
[FEATURE] added _getQueryLength to extract query length from cigar
string
Merge pull request #263 from weese/develop

[FEATURE] added _getQueryLength to extract query length from cigar string
[FIX] Parallel: transform() does not resize the target (segments do not support resize)
[FIX] Parallel: transform() does not resize the target (segments do not support resize)
Merge pull request #264 from esiragusa/fix/transform

Transform
[FIX] Backtracking Finder: use ordEqual() to compare text to pattern
enabled static linkage of libstdc++ and libgcc for apps to ensure portability of executables
[API] Parallel: added maxElement() and minElement() - they should be called maxValue() and minValue() but these functions are already defined on generic scalars :/
Merge pull request #265 from weese/hotfix/static-linkage

Enabled static linkage of libstdc++ and libgcc for apps (develop)