Remove harcoded GRCh38 version for AnnotSv

[juanesarango]

Hi thanks for this awesome open source tool! 🥇

My teammate @ddomenico and I noticed that AnnotSV runs a harcoded version of GRCh38, even though the README instructions provide commands to download reference files like the Exomiser data in version hg19.

Germline-StructuralV-nf/modules/annotsv.nf

Lines 32 to 41 in 8865708

	AnnotSV \
	-SVinputFile ${sampleID}_merged.vcf \
	-annotationsDir ${params.annotsvDir} \
	-bedtools bedtools -bcftools bcftools \
	-annotationMode ${mode} \
	-genomeBuild GRCh38 \
	-includeCI 1 \
	-overwrite 1 \
	-outputFile ${outputFile} ${extraArgs}
	"""

Using GRCh38 or GRCh37 should be configurable through a param . I added the param.genomeBuild to annotation removing the hardcoded GRCh38. And set GRCh37 as default to match the README example.

[georgiesamaha]

Thanks for picking that up @juanesarango!