Better build 38

[4.14]

Added

• Use github actions to run tests
• Adds CLI command to update individual alignments path
• Update HPO terms using downloaded definitions files
• Option to use alternative flask config when running scout serve
• Requirement to use loqusdb >= 2.5 if integrated

Fixed

• Do not display Pedigree panel in cancer view
• Do not rely on internet connection and services available when running CI tests
• Variant loading assumes GATK if no caller set given and GATK filter status is seen in FILTER
• Pass genome build param all the way in order to get the right gene mappings for cases with build 38
• Parse correctly variants with zero frequency values
• Continue even if there are problems to create a region vcf
• STR and cancer variant navigation back to variants pages could fail

Changed

• Improved code that sends requests to the external APIs
• Updates ranges for user ranks to fit todays usage
• Run coveralls on github actions instead of travis
• Run pip checks on github actions instead of coveralls
• For hg38 cases, change gnomAD link to point to version 3.0 (which is hg38 based)
• Show pinned or causative STR variants a bit more human readable