Fixed complexity calculation when there are few reads in the BAM file.
Fix for trimming single-end lanes.
Fixed complexity calculation when there are few reads in the BAM file.
Brought changelog up to date.
Added sorting via sambamba.
On whole-file complexity plotting, shuffle the start sites first.
Ensure files are name-sorted before disambiguation.
Add sorting via sambamba.

Note: this uses the header in the BAM file to figure out if it is
sorted already.
Fix for trimming single-end reads.
Add ability to subsample during the complexity calculation.
Added integration test for explant analysis.
Removed disambiguation step from stock RNA-seq integration test.
Merge branch 'master' of github.com:chapmanb/bcbio-nextgen
Merged fixes.
Fix to the explant unit test.
Updated history with sorting changes.
Additional work to avoid resource unavailable errors. Catch and recover from these. Ensure subprocess file descriptors are closed. Catch memory errors using post-calling annotation steps
Detect and report issues where Galaxy location files contain spaces instead of tabs. Fixes #182