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temp.json
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{
"TopMedAligner.input_cram_file": "gs://topmed_workflow_testing/topmed_aligner/input_files/NWD176325.0005.recab.cram",
"TopMedAligner.input_crai_file": "gs://topmed_workflow_testing/topmed_aligner/input_files/NWD176325.0005.recab.cram.crai",
"TopMedAligner.ref_alt": "gs://topmed_workflow_testing/topmed_variant_caller/reference_files/hg38/hs38DH.fa.alt",
"TopMedAligner.ref_bwt": "gs://topmed_workflow_testing/topmed_variant_caller/reference_files/hg38/hs38DH.fa.bwt",
"TopMedAligner.ref_pac": "gs://topmed_workflow_testing/topmed_variant_caller/reference_files/hg38/hs38DH.fa.pac",
"TopMedAligner.ref_ann": "gs://topmed_workflow_testing/topmed_variant_caller/reference_files/hg38/hs38DH.fa.ann",
"TopMedAligner.ref_amb": "gs://topmed_workflow_testing/topmed_variant_caller/reference_files/hg38/hs38DH.fa.amb",
"TopMedAligner.ref_sa": "gs://topmed_workflow_testing/topmed_variant_caller/reference_files/hg38/hs38DH.fa.sa",
"TopMedAligner.ref_fasta": "gs://topmed_workflow_testing/topmed_variant_caller/reference_files/hg38/hs38DH.fa",
"TopMedAligner.ref_fasta_index": "gs://topmed_workflow_testing/topmed_variant_caller/reference_files/hg38/hs38DH.fa.fai",
"TopMedAligner.dbSNP_vcf": "gs://topmed_workflow_testing/topmed_aligner/reference_files/hg38/Homo_sapiens_assembly38.dbsnp138.vcf.gz",
"TopMedAligner.dbSNP_vcf_index": "gs://topmed_workflow_testing/topmed_aligner/reference_files/hg38/Homo_sapiens_assembly38.dbsnp138.vcf.gz.tbi",
"TopMedAligner.docker_image": "statgen/alignment"
}