diff --git a/scripts/inference_deepvariant.sh b/scripts/inference_deepvariant.sh index 3c194048..d825d505 100755 --- a/scripts/inference_deepvariant.sh +++ b/scripts/inference_deepvariant.sh @@ -312,7 +312,7 @@ if [[ "${MODEL_PRESET}" = "PACBIO" ]]; then BASE="${HOME}/pacbio-case-study" REF="${REF:=${GCS_DATA_DIR}/case-study-testdata/GCA_000001405.15_GRCh38_no_alt_analysis_set.fna}" - BAM="${BAM:=${GCS_DATA_DIR}/pacbio-case-study-testdata/HG003.SPRQ.pacbio.GRCh38.40x.nov2024.bam}" + BAM="${BAM:=${GCS_DATA_DIR}/pacbio-case-study-testdata/HG003.SPRQ.pacbio.GRCh38.nov2024.bam}" TRUTH_VCF="${TRUTH_VCF:=${GCS_DATA_DIR}/case-study-testdata/HG003_GRCh38_1_22_v4.2.1_benchmark.vcf.gz}" TRUTH_BED="${TRUTH_BED:=${GCS_DATA_DIR}/case-study-testdata/HG003_GRCh38_1_22_v4.2.1_benchmark_noinconsistent.bed}" elif [[ "${MODEL_PRESET}" = "ONT_R104" ]]; then