removed consensus additional vcfs

They are now being added through the samplesheet

Author: aidaanva

reference/reference_sheet_multiref.csv

@@ -1,3 +1,3 @@
-reference_name,fasta,fai,dict,mapper_index,circular_target,mitochondrion_header,snpcapture_bed,pileupcaller_bedfile,pileupcaller_snpfile,hapmap_file,pmdtools_masked_fasta,pmdtools_bed_for_masking,sexdeterrmine_snp_bed,bedtools_feature_file,genotyping_reference_ploidy,genotyping_gatk_dbsnp,consensus_multivcfanalyzer_additional_vcf_files,consensus_multivcfanalyzer_reference_gff_annotations,consensus_multivcfanalyzer_reference_gff_exclude,consensus_multivcfanalyzer_reference_snpeff_results
-Mammoth_MT_Krause,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Mammoth/Mammoth_MT_Krause.fasta,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Mammoth/Mammoth_MT_Krause.fasta.fai,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Mammoth/Mammoth_MT_Krause.dict,,NC_007596.2,NC_007596.2,,,,,,,,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Mammoth/Mammoth_MT_Krause.gff3,1,,,,,
-hs37d5_chr21-MT,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Human/hs37d5_chr21-MT.fa.gz,,,,MT,MT,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Human/1240K.pos.list_hs37d5.0based.bed.gz,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Human/1240K.pos.list_hs37d5.0based.bed.gz,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Human/1240K_covered_in_JK2067_downsampled_s0.1.numeric_chromosomes.snp,https://raw.githubusercontent.com/nf-core/eager/master/assets/angsd_resources/HapMapChrX.gz,,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Human/1240K.pos.list_hs37d5.0based.bed.gz,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Human/1240K.pos.list_hs37d5.0based.bed.gz,,,,,,,
+reference_name,fasta,fai,dict,mapper_index,circular_target,mitochondrion_header,snpcapture_bed,pileupcaller_bedfile,pileupcaller_snpfile,hapmap_file,pmdtools_masked_fasta,pmdtools_bed_for_masking,sexdeterrmine_snp_bed,bedtools_feature_file,genotyping_reference_ploidy,genotyping_gatk_dbsnp,consensus_multivcfanalyzer_reference_gff_annotations,consensus_multivcfanalyzer_reference_gff_exclude,consensus_multivcfanalyzer_reference_snpeff_results
+Mammoth_MT_Krause,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Mammoth/Mammoth_MT_Krause.fasta,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Mammoth/Mammoth_MT_Krause.fasta.fai,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Mammoth/Mammoth_MT_Krause.dict,,NC_007596.2,NC_007596.2,,,,,,,,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Mammoth/Mammoth_MT_Krause.gff3,1,,,,
+hs37d5_chr21-MT,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Human/hs37d5_chr21-MT.fa.gz,,,,MT,MT,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Human/1240K.pos.list_hs37d5.0based.bed.gz,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Human/1240K.pos.list_hs37d5.0based.bed.gz,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Human/1240K_covered_in_JK2067_downsampled_s0.1.numeric_chromosomes.snp,https://raw.githubusercontent.com/nf-core/eager/master/assets/angsd_resources/HapMapChrX.gz,,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Human/1240K.pos.list_hs37d5.0based.bed.gz,https://raw.githubusercontent.com/nf-core/test-datasets/eager/reference/Human/1240K.pos.list_hs37d5.0based.bed.gz,,,,,,