Add support for using the WGS blood items in the Genotype QC wizard

[Nicklas Nordborg]

When we have verified that genotype QC results from the WGS blood sample it should be possible to include them in the Genotype QC wizard.

It should be fairly straight-forward to use the results. The major difference from, for example, the Oncoarray data is that we do not have so much information about intermediary steps.

[Nicklas Nordborg]

In 7199:

References #1483: Add support for using the WGS blood items in the Genotype QC wizard

Re-factoring that is mostly about renaming methods from "alignment"/"genotypecall" to "tumor"/"normal" since the normal WGS data is alignments but should behave like the genotype call items. The current changes should not affect the functionality in any way.

I have made a first test with including WGS normal data and the Genotype QC wizard seems to work (more or less), but the Flagged alignment wizard has lots of problems.

[Nicklas Nordborg]

In 7200:

References #1483: Add support for using the WGS blood items in the Genotype QC wizard

Fixes an issue where genotype call items would be annotated with VerifiedBy=DNA which doesn't make sense.

[Nicklas Nordborg]

In 7201:

References #1483: Add support for using the WGS blood items in the Genotype QC wizard

Include alignments from the DNA/Normal/WGS pipeline in the genotype checker implementation. The "Genotype QC" wizard should work as expected, but the "Flagged alignments" wizard are expected to have problems.

[Nicklas Nordborg]

In 7202:

References #1483: Add support for using the WGS blood items in the Genotype QC wizard

Use tumor/normal instead of alignment/genotype call in the wizard.

[Nicklas Nordborg]

In 7203:

References #1483: Add support for using the WGS blood items in the Genotype QC wizard

Display the Pipeline annotation in the "View genotypes" dialog.

[Nicklas Nordborg]

In 7209:

References #1483: Add support for using the WGS blood items in the Genotype QC wizard

The "Flagged alignment wizard" has been updated and should now be able to use the WGS normal samples in the genotype comparisons.

[Nicklas Nordborg]

In 7210:

References #1483: Add support for using the WGS blood items in the Genotype QC wizard

Re-factoring in the GenoTypeChecked to make it easier to combine different filtering variants without have lots specialized methods. The new QueryBuilder should make it easier to make new combinations.

[Nicklas Nordborg]

In 7212:

References #1483 and #1487.

Implemented support for multi-threading in the comparison phase. This makes it possible to compare several hundred alignments in one go with reasonable speed.

[Nicklas Nordborg]

In 7214:

References #1483: Add support for using the WGS blood items in the Genotype QC wizard

Change ordering of results so that items with HIGH warning level are displayed before items with LOW warning level, and then items with messages before items with no messages.