{
  "created": "2026-05-27",
  "execution_surface": "galaxy-cli+galaxy-api-fallback",
  "fallbacks": [
    "Direct Galaxy API submission for HISAT2 nested data input payloads.",
    "Direct Galaxy API submission for DESeq2 nested collection/sample-sheet payloads."
  ],
  "galaxy_history_id": "bbd44e69cb8906b529dc497e1d783b61",
  "galaxy_history_url": "https://usegalaxy.org/histories/view?id=bbd44e69cb8906b529dc497e1d783b61",
  "input_urls": {
    "SRR3670977_sub.fastq.gz": "https://raw.githubusercontent.com/hoelzer-lab/rnaflow/f2d26a3418adc10d24b5042ad653081a9500245b/test-data/hsa/SRR3670977_sub.fastq.gz",
    "SRR3670978_sub.fastq.gz": "https://raw.githubusercontent.com/hoelzer-lab/rnaflow/f2d26a3418adc10d24b5042ad653081a9500245b/test-data/hsa/SRR3670978_sub.fastq.gz",
    "SRR3670985_sub.fastq.gz": "https://raw.githubusercontent.com/hoelzer-lab/rnaflow/f2d26a3418adc10d24b5042ad653081a9500245b/test-data/hsa/SRR3670985_sub.fastq.gz",
    "SRR3670986_sub.fastq.gz": "https://raw.githubusercontent.com/hoelzer-lab/rnaflow/f2d26a3418adc10d24b5042ad653081a9500245b/test-data/hsa/SRR3670986_sub.fastq.gz",
    "RNAflow single-end sample table": "https://raw.githubusercontent.com/hoelzer-lab/rnaflow/f2d26a3418adc10d24b5042ad653081a9500245b/test-data/hsa/input.se.hsa_small.csv"
  },
  "method_notes": [
    "Used Galaxy built-in hg38 reference/annotation resources for HISAT2 and featureCounts.",
    "Ran DESeq2 with MAQCB compared against reference condition MAQCA.",
    "Validation classified as warning because the reproduced workflow is Galaxy-native rather than an exact RNAflow Nextflow execution."
  ],
  "source_ref": "f2d26a3418adc10d24b5042ad653081a9500245b",
  "source_url": "https://github.com/hoelzer-lab/rnaflow",
  "tool_ids": {
    "DESeq2": "toolshed.g2.bx.psu.edu/repos/iuc/deseq2/deseq2/2.11.40.8+galaxy2",
    "FastQC": "toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.74+galaxy1",
    "HISAT2": "toolshed.g2.bx.psu.edu/repos/iuc/hisat2/hisat2/2.2.2+galaxy0",
    "featureCounts": "toolshed.g2.bx.psu.edu/repos/iuc/featurecounts/featurecounts/2.1.1+galaxy0"
  },
  "verified_history_state": {
    "importable": true,
    "published": true,
    "verified_on": "2026-05-27"
  }
}