0ba660768822e93ed43e9a717f580c525094caf8 lrnassar Mon Sep 28 16:42:18 2026 -0700 Fiber-seq: sentence case for the Common cell line sample class, which was Title Cased because that is how Mitchell wrote it in the mail that gave us the classification rule. The other two values were already right, and tadsEncode's organ facet is the precedent (Adrenal gland, Bone marrow). The swatch table on the description page had been saying "Common cell line" in its prose all along, so the filter label and the text explaining it now agree. fiberSeq.ra is untouched: the class only lives in the metadata TSV and the colors JSON, both read at runtime, so no trackDb reload is needed. Caught by Lou. refs #36210 diff --git src/hg/makeDb/scripts/fiberSeq/fiberSeqTrackDb.py src/hg/makeDb/scripts/fiberSeq/fiberSeqTrackDb.py index b1d73842572..8390e926b88 100755 --- src/hg/makeDb/scripts/fiberSeq/fiberSeqTrackDb.py +++ src/hg/makeDb/scripts/fiberSeq/fiberSeqTrackDb.py @@ -62,31 +62,31 @@ ("cpg.diffs_p0.01.bw", "p < 0.01", "235,229,52"), ("cpg.diffs_p0.001.bw", "p < 0.001", "245,148,22"), ("cpg.diffs_p0.0001.bw", "p < 0.0001", "255,0,0"), ] # Shown behind an info icon on the Sample class column heading. SAMPLE_CLASS_DESCRIPTION = ( "HPRC = Lymphoblastoid (B-lymphocyte, EBV) cell lines from the NHGRI " "Human Pangenome Reference Consortium. Rare disease samples are cases " "consented to broad genomic data sharing") # Sample class swatches, shown next to that facet's checkboxes. # Okabe-Ito colors for the swatches. SAMPLE_CLASS_COLORS = { "HPRC": "#0072B2", - "Common Cell Line": "#D55E00", + "Common cell line": "#D55E00", "Rare disease sample": "#009E73", } def readSamples(path): """Read fiberSeqSamples.tsv into a list of dicts, in file order. sampleClass comes from the lab's own sample sheet, not from the cell type: five of the lymphoblastoid lines are common cell lines rather than HPRC samples, so there is nothing in the cell type that tells the two apart.""" samples = [] with open(path) as f: for line in f: if line.startswith("#") or not line.strip(): continue