data: record BAM Gate A provenance

Publish the validated BAM and BAI derivation, count, ownership, source, size, and checksum records.

provenance/files.jsonl

@@ -1,2 +1,4 @@
 {"schema_version":"otter.provenance.file/v1","dataset_revision":"r1","dataset_path":"fastqcx/rna-pdx-srr30880970/R1.fastq.gz","file_role":"fixture","file_format":"FASTQ.GZ","owner":{"repository":"fastqcx","workflow":"fastqcx-compatibility","gate":"quality-compatibility","assay":"RNA-PDX"},"derivation":{"sra_accession":"SRR30880970","paracloud_source_path":"/public3/home/scg9946/otter-gate6/build-work/fixture-fastq-20260906T081142Z/results/SRR30880970/R1.fastq.gz","method":"first_synchronized_pairs","random_seed":null},"counts":{"unit":"pairs","input":null,"output":20000},"source_commit":"6a96916b1d171ede2716dda67f5e9036abdfddf1","size_bytes":1087845,"sha256":"4789da908ffa6ec89307995da355cb8e935f04604c986d5ed804690520978f2a","created_at_utc":"2026-09-06T08:11:42Z","notes":"Read 1 of a paired real-data quality-control fixture. The original source file checksum is retained in the private Gate 6 acquisition record."}
 {"schema_version":"otter.provenance.file/v1","dataset_revision":"r1","dataset_path":"fastqcx/rna-pdx-srr30880970/R2.fastq.gz","file_role":"fixture","file_format":"FASTQ.GZ","owner":{"repository":"fastqcx","workflow":"fastqcx-compatibility","gate":"quality-compatibility","assay":"RNA-PDX"},"derivation":{"sra_accession":"SRR30880970","paracloud_source_path":"/public3/home/scg9946/otter-gate6/build-work/fixture-fastq-20260906T081142Z/results/SRR30880970/R2.fastq.gz","method":"first_synchronized_pairs","random_seed":null},"counts":{"unit":"pairs","input":null,"output":20000},"source_commit":"6a96916b1d171ede2716dda67f5e9036abdfddf1","size_bytes":1105400,"sha256":"4a52edbb89e8dbe40f1224fb13985b3ff891aa3e15f2f5997c0508b59f34975a","created_at_utc":"2026-09-06T08:11:42Z","notes":"Read 2 of a paired real-data quality-control fixture. The original source file checksum is retained in the private Gate 6 acquisition record."}
+{"schema_version":"otter.provenance.file/v1","dataset_revision":"r2","dataset_path":"bamdriver/gate-a/rna-pdx-srr30880970/hg38/fixture.bam","file_role":"fixture","file_format":"BAM","owner":{"repository":"bamdriver","workflow":"bamdriver-gate-a","gate":"A","assay":"RNA-PDX"},"derivation":{"sra_accession":"SRR30880970","paracloud_source_path":"/public3/home/scg9946/otter-gate6/build-work/fixture-bam-20260906T103000Z/results/rnapdx_SRR30880970_hg38/fixture.bam","method":"first_n_complete_templates_after_collate","random_seed":null},"counts":{"unit":"records","input":null,"output":51140},"source_commit":"6a96916b1d171ede2716dda67f5e9036abdfddf1","size_bytes":2788780,"sha256":"964d4d8548c6b92c96c545b988e7b0ec44a68d888c63464089ec4a04cbe4ed81","created_at_utc":"2026-09-06T10:30:00Z","notes":"Coordinate-sorted real RNA-PDX alignment fixture. It is used only for decode/encode, BAI construction, and canonical structural preservation checks; CI does not perform mapping."}
+{"schema_version":"otter.provenance.file/v1","dataset_revision":"r2","dataset_path":"bamdriver/gate-a/rna-pdx-srr30880970/hg38/fixture.bam.bai","file_role":"fixture","file_format":"BAI","owner":{"repository":"bamdriver","workflow":"bamdriver-gate-a","gate":"A","assay":"RNA-PDX"},"derivation":{"sra_accession":"SRR30880970","paracloud_source_path":"/public3/home/scg9946/otter-gate6/build-work/fixture-bam-20260906T103000Z/results/rnapdx_SRR30880970_hg38/fixture.bam.bai","method":"generated_from_coordinate_sorted_fixture_bam","random_seed":null},"counts":{"unit":"files","input":1,"output":1},"source_commit":"6a96916b1d171ede2716dda67f5e9036abdfddf1","size_bytes":1665728,"sha256":"68493088e6bf2810a66f4570c4209540db3456be504840c1339618eb887ab533","created_at_utc":"2026-09-06T10:30:00Z","notes":"Published input index for the RNA-PDX fixture. Gate A independently creates an output BAI and validates it with samtools through enva."}