Merge branch 'release/0.192' into develop
keep the elements in order across different queries
sequenom_csv_to_vcf step now handles fluidigm csvs as well; now produces calculated_gender metadata instead of sequenom_gender, and takes plex_storage_dir option instead of sequenom_plex_storage_dir
new query for t/VRPipe/Pipelines/sequenom.t, including fluidigm files
for consistency with how they are specified and reported, the --step option now uses colon to specify the kind
vcf_merge_different_samples_control_aware step now correctly handles single-sample merges by copying and applying the control metadata
for consistency with how they are specified and reported, the --step option now uses colon to specify the kind; --basename_from_metadata now keeps dashes in metadata values
_resolve_inputs() no longer fails on non-existant files of auto-generated file types, so that these will be auto-regenerated
--step option can now take a step number
new include_in_all_elements option to vrpipe datasource methods, allowing some setup output to be put in all elements
removed extraneous comments
version bump
Merge branch 'release/0.193'