diff --git a/scripts/variantstore/wdl/GvsJointVariantCalling.wdl b/scripts/variantstore/wdl/GvsJointVariantCalling.wdl index af34379f67f..c3db899fa30 100644 --- a/scripts/variantstore/wdl/GvsJointVariantCalling.wdl +++ b/scripts/variantstore/wdl/GvsJointVariantCalling.wdl @@ -12,7 +12,6 @@ workflow GvsJointVariantCalling { Boolean use_classic_VQSR = true # Beta users have accounts with tighter quotas, and we must work around that Boolean tighter_gcp_quotas = true - String branch_name = "ah_var_store" # TODO should these all be exposed in this WDL? String? sample_id_column_name ## Note that a column WILL exist that is the _id from the table name. However, some users will want to specify an alternate column for the sample_name during ingest String? vcf_files_column_name @@ -81,7 +80,6 @@ workflow GvsJointVariantCalling { SNP_VQSR_CLASSIC_mem_gb_override = SNP_VQSR_CLASSIC_mem_gb_override, drop_state = drop_state, is_beta_user = tighter_gcp_quotas, - branch_name = branch_name, sample_id_column_name = sample_id_column_name, vcf_files_column_name = vcf_files_column_name, vcf_index_files_column_name = vcf_index_files_column_name, diff --git a/scripts/variantstore/wdl/GvsQuickstartVcfIntegration.wdl b/scripts/variantstore/wdl/GvsQuickstartVcfIntegration.wdl index 45b56789295..2b23610bc08 100644 --- a/scripts/variantstore/wdl/GvsQuickstartVcfIntegration.wdl +++ b/scripts/variantstore/wdl/GvsQuickstartVcfIntegration.wdl @@ -50,7 +50,6 @@ workflow GvsQuickstartVcfIntegration { extract_do_not_filter_override = extract_do_not_filter_override, drop_state = drop_state, interval_list = interval_list, - branch_name = branch_name, sample_id_column_name = sample_id_column_name, vcf_files_column_name = vcf_files_column_name, vcf_index_files_column_name = vcf_index_files_column_name, diff --git a/scripts/variantstore/wdl/GvsUnified.wdl b/scripts/variantstore/wdl/GvsUnified.wdl index 08f02819360..bef5f898daa 100644 --- a/scripts/variantstore/wdl/GvsUnified.wdl +++ b/scripts/variantstore/wdl/GvsUnified.wdl @@ -68,7 +68,6 @@ workflow GvsUnified { Int? split_intervals_mem_override Boolean extract_do_not_filter_override = false # End GvsExtractCallset - String branch_name String? sample_id_column_name ## Note that a column WILL exist that is the _id from the table name. However, some users will want to specify an alternate column for the sample_name during ingest String? vcf_files_column_name String? vcf_index_files_column_name