e314363411293556f33418abe8923ad1e8bc496a markd Fri Oct 2 21:36:04 2026 -0700 Revert the TSS nesting on master; it lives on superTrackNesting. refs #35528 Putting PRO-cap and ProCapNet inside a transcriptionStart superTrack needs the nesting fix in #38460, which is not released. These tracks were released in 3bee9e40921, so on beta and the RR hgTrackDb would drop the container and trackDbToTxt would write an hs1 curated hub whose members name a parent stanza that is not there. The work is on the superTrackNesting branch and can come back once #38460 ships. diff --git src/hg/makeDb/trackDb/human/hg38/transcriptionStart.ra src/hg/makeDb/trackDb/human/hg38/transcriptionStart.ra index ac9b06e52ed..1a362b0ba74 100644 --- src/hg/makeDb/trackDb/human/hg38/transcriptionStart.ra +++ src/hg/makeDb/trackDb/human/hg38/transcriptionStart.ra @@ -1,521 +1,513 @@ # Generated by hg/makeDb/outside/proCapNet/proCapNetTrackDb for hg38. # Do not edit by hand, edit the script and regenerate. -track transcriptionStart -superTrack on show -group rna -shortLabel Transcription Initiation (TSS) -longLabel Transcription initiation (TSS) - track encode4ProCap superTrack on show - parent transcriptionStart group rna shortLabel PRO-cap longLabel PRO-cap nascent RNA transcription start sites from ENCODE 4 track proCapNet superTrack on show - parent transcriptionStart group rna shortLabel ProCapNet longLabel ProCapNet predicted PRO-cap track encode4ProCap_A673_procap superTrack encode4ProCap full container multiWig aggregate solidOverlay showSubtrackColorOnUi on type bigWig autoScale on alwaysZero on maxHeightPixels 100:40:8 windowingFunction maximum configurable on html encode4ProCap color 0,114,178 shortLabel A673 PRO-cap longLabel A673 (ENCSR046BCI) PRO-cap transcription start sites, plus up minus down priority 1 track encode4ProCap_A673_procap_pos parent encode4ProCap_A673_procap type bigWig bigDataUrl /gbdb/hg38/encode4ProCap/A673.ENCSR046BCI.pos.bw color 0,114,178 shortLabel A673 PRO-cap + longLabel A673 (ENCSR046BCI) PRO-cap transcription start sites, plus strand track encode4ProCap_A673_procap_neg parent encode4ProCap_A673_procap type bigWig bigDataUrl /gbdb/hg38/encode4ProCap/A673.ENCSR046BCI.neg.bw color 0,114,178 altColor 0,114,178 shortLabel A673 PRO-cap - longLabel A673 (ENCSR046BCI) PRO-cap transcription start sites, minus strand track encode4ProCap_Caco-2_procap superTrack encode4ProCap full container multiWig aggregate solidOverlay showSubtrackColorOnUi on type bigWig autoScale on alwaysZero on maxHeightPixels 100:40:8 windowingFunction maximum configurable on html encode4ProCap color 213,94,0 shortLabel Caco-2 PRO-cap longLabel Caco-2 (ENCSR100LIJ) PRO-cap transcription start sites, plus up minus down priority 2 track encode4ProCap_Caco-2_procap_pos parent encode4ProCap_Caco-2_procap type bigWig bigDataUrl /gbdb/hg38/encode4ProCap/Caco-2.ENCSR100LIJ.pos.bw color 213,94,0 shortLabel Caco-2 PRO-cap + longLabel Caco-2 (ENCSR100LIJ) PRO-cap transcription start sites, plus strand track encode4ProCap_Caco-2_procap_neg parent encode4ProCap_Caco-2_procap type bigWig bigDataUrl /gbdb/hg38/encode4ProCap/Caco-2.ENCSR100LIJ.neg.bw color 213,94,0 altColor 213,94,0 shortLabel Caco-2 PRO-cap - longLabel Caco-2 (ENCSR100LIJ) PRO-cap transcription start sites, minus strand track encode4ProCap_Calu3_procap superTrack encode4ProCap full container multiWig aggregate solidOverlay showSubtrackColorOnUi on type bigWig autoScale on alwaysZero on maxHeightPixels 100:40:8 windowingFunction maximum configurable on html encode4ProCap color 0,158,115 shortLabel Calu3 PRO-cap longLabel Calu3 (ENCSR935RNW) PRO-cap transcription start sites, plus up minus down priority 3 track encode4ProCap_Calu3_procap_pos parent encode4ProCap_Calu3_procap type bigWig bigDataUrl /gbdb/hg38/encode4ProCap/Calu3.ENCSR935RNW.pos.bw color 0,158,115 shortLabel Calu3 PRO-cap + longLabel Calu3 (ENCSR935RNW) PRO-cap transcription start sites, plus strand track encode4ProCap_Calu3_procap_neg parent encode4ProCap_Calu3_procap type bigWig bigDataUrl /gbdb/hg38/encode4ProCap/Calu3.ENCSR935RNW.neg.bw color 0,158,115 altColor 0,158,115 shortLabel Calu3 PRO-cap - longLabel Calu3 (ENCSR935RNW) PRO-cap transcription start sites, minus strand track encode4ProCap_HUVEC_procap superTrack encode4ProCap full container multiWig aggregate solidOverlay showSubtrackColorOnUi on type bigWig autoScale on alwaysZero on maxHeightPixels 100:40:8 windowingFunction maximum configurable on html encode4ProCap color 204,121,167 shortLabel HUVEC PRO-cap longLabel HUVEC (ENCSR098LLB) PRO-cap transcription start sites, plus up minus down priority 4 track encode4ProCap_HUVEC_procap_pos parent encode4ProCap_HUVEC_procap type bigWig bigDataUrl /gbdb/hg38/encode4ProCap/HUVEC.ENCSR098LLB.pos.bw color 204,121,167 shortLabel HUVEC PRO-cap + longLabel HUVEC (ENCSR098LLB) PRO-cap transcription start sites, plus strand track encode4ProCap_HUVEC_procap_neg parent encode4ProCap_HUVEC_procap type bigWig bigDataUrl /gbdb/hg38/encode4ProCap/HUVEC.ENCSR098LLB.neg.bw color 204,121,167 altColor 204,121,167 shortLabel HUVEC PRO-cap - longLabel HUVEC (ENCSR098LLB) PRO-cap transcription start sites, minus strand track encode4ProCap_K562_procap superTrack encode4ProCap full container multiWig aggregate solidOverlay showSubtrackColorOnUi on type bigWig autoScale on alwaysZero on maxHeightPixels 100:40:8 windowingFunction maximum configurable on html encode4ProCap color 230,159,0 shortLabel K562 PRO-cap longLabel K562 (ENCSR261KBX) PRO-cap transcription start sites, plus up minus down priority 5 track encode4ProCap_K562_procap_pos parent encode4ProCap_K562_procap type bigWig bigDataUrl /gbdb/hg38/encode4ProCap/K562.ENCSR261KBX.pos.bw color 230,159,0 shortLabel K562 PRO-cap + longLabel K562 (ENCSR261KBX) PRO-cap transcription start sites, plus strand track encode4ProCap_K562_procap_neg parent encode4ProCap_K562_procap type bigWig bigDataUrl /gbdb/hg38/encode4ProCap/K562.ENCSR261KBX.neg.bw color 230,159,0 altColor 230,159,0 shortLabel K562 PRO-cap - longLabel K562 (ENCSR261KBX) PRO-cap transcription start sites, minus strand track encode4ProCap_MCF10A_procap superTrack encode4ProCap full container multiWig aggregate solidOverlay showSubtrackColorOnUi on type bigWig autoScale on alwaysZero on maxHeightPixels 100:40:8 windowingFunction maximum configurable on html encode4ProCap color 86,180,233 shortLabel MCF10A PRO-cap longLabel MCF10A (ENCSR799DGV) PRO-cap transcription start sites, plus up minus down priority 6 track encode4ProCap_MCF10A_procap_pos parent encode4ProCap_MCF10A_procap type bigWig bigDataUrl /gbdb/hg38/encode4ProCap/MCF10A.ENCSR799DGV.pos.bw color 86,180,233 shortLabel MCF10A PRO-cap + longLabel MCF10A (ENCSR799DGV) PRO-cap transcription start sites, plus strand track encode4ProCap_MCF10A_procap_neg parent encode4ProCap_MCF10A_procap type bigWig bigDataUrl /gbdb/hg38/encode4ProCap/MCF10A.ENCSR799DGV.neg.bw color 86,180,233 altColor 86,180,233 shortLabel MCF10A PRO-cap - longLabel MCF10A (ENCSR799DGV) PRO-cap transcription start sites, minus strand track proCapNet_A673_pred superTrack proCapNet full container multiWig aggregate solidOverlay showSubtrackColorOnUi on type bigWig autoScale on alwaysZero on maxHeightPixels 100:40:8 windowingFunction maximum configurable on html proCapNet color 0,114,178 shortLabel A673 Predicted longLabel A673 (ENCSR072YCM) ProCapNet predicted PRO-cap, plus up minus down priority 1 track proCapNet_A673_pred_pos parent proCapNet_A673_pred type bigWig bigDataUrl /gbdb/hg38/proCapNet/pred/A673.proCapNet.pos.bw color 0,114,178 shortLabel A673 Predicted + longLabel A673 (ENCSR072YCM) ProCapNet predicted PRO-cap, plus strand track proCapNet_A673_pred_neg parent proCapNet_A673_pred type bigWig bigDataUrl /gbdb/hg38/proCapNet/pred/A673.proCapNet.neg.bw color 0,114,178 altColor 0,114,178 shortLabel A673 Predicted - longLabel A673 (ENCSR072YCM) ProCapNet predicted PRO-cap, minus strand track proCapNet_Caco-2_pred superTrack proCapNet full container multiWig aggregate solidOverlay showSubtrackColorOnUi on type bigWig autoScale on alwaysZero on maxHeightPixels 100:40:8 windowingFunction maximum configurable on html proCapNet color 213,94,0 shortLabel Caco-2 Predicted longLabel Caco-2 (ENCSR182QNJ) ProCapNet predicted PRO-cap, plus up minus down priority 2 track proCapNet_Caco-2_pred_pos parent proCapNet_Caco-2_pred type bigWig bigDataUrl /gbdb/hg38/proCapNet/pred/Caco-2.proCapNet.pos.bw color 213,94,0 shortLabel Caco-2 Predicted + longLabel Caco-2 (ENCSR182QNJ) ProCapNet predicted PRO-cap, plus strand track proCapNet_Caco-2_pred_neg parent proCapNet_Caco-2_pred type bigWig bigDataUrl /gbdb/hg38/proCapNet/pred/Caco-2.proCapNet.neg.bw color 213,94,0 altColor 213,94,0 shortLabel Caco-2 Predicted - longLabel Caco-2 (ENCSR182QNJ) ProCapNet predicted PRO-cap, minus strand track proCapNet_Calu3_pred superTrack proCapNet full container multiWig aggregate solidOverlay showSubtrackColorOnUi on type bigWig autoScale on alwaysZero on maxHeightPixels 100:40:8 windowingFunction maximum configurable on html proCapNet color 0,158,115 shortLabel Calu3 Predicted longLabel Calu3 (ENCSR797DEF) ProCapNet predicted PRO-cap, plus up minus down priority 3 track proCapNet_Calu3_pred_pos parent proCapNet_Calu3_pred type bigWig bigDataUrl /gbdb/hg38/proCapNet/pred/Calu3.proCapNet.pos.bw color 0,158,115 shortLabel Calu3 Predicted + longLabel Calu3 (ENCSR797DEF) ProCapNet predicted PRO-cap, plus strand track proCapNet_Calu3_pred_neg parent proCapNet_Calu3_pred type bigWig bigDataUrl /gbdb/hg38/proCapNet/pred/Calu3.proCapNet.neg.bw color 0,158,115 altColor 0,158,115 shortLabel Calu3 Predicted - longLabel Calu3 (ENCSR797DEF) ProCapNet predicted PRO-cap, minus strand track proCapNet_HUVEC_pred superTrack proCapNet full container multiWig aggregate solidOverlay showSubtrackColorOnUi on type bigWig autoScale on alwaysZero on maxHeightPixels 100:40:8 windowingFunction maximum configurable on html proCapNet color 204,121,167 shortLabel HUVEC Predicted longLabel HUVEC (ENCSR801ECP) ProCapNet predicted PRO-cap, plus up minus down priority 4 track proCapNet_HUVEC_pred_pos parent proCapNet_HUVEC_pred type bigWig bigDataUrl /gbdb/hg38/proCapNet/pred/HUVEC.proCapNet.pos.bw color 204,121,167 shortLabel HUVEC Predicted + longLabel HUVEC (ENCSR801ECP) ProCapNet predicted PRO-cap, plus strand track proCapNet_HUVEC_pred_neg parent proCapNet_HUVEC_pred type bigWig bigDataUrl /gbdb/hg38/proCapNet/pred/HUVEC.proCapNet.neg.bw color 204,121,167 altColor 204,121,167 shortLabel HUVEC Predicted - longLabel HUVEC (ENCSR801ECP) ProCapNet predicted PRO-cap, minus strand track proCapNet_K562_pred superTrack proCapNet full container multiWig aggregate solidOverlay showSubtrackColorOnUi on type bigWig autoScale on alwaysZero on maxHeightPixels 100:40:8 windowingFunction maximum configurable on html proCapNet color 230,159,0 shortLabel K562 Predicted longLabel K562 (ENCSR740IPL) ProCapNet predicted PRO-cap, plus up minus down priority 5 track proCapNet_K562_pred_pos parent proCapNet_K562_pred type bigWig bigDataUrl /gbdb/hg38/proCapNet/pred/K562.proCapNet.pos.bw color 230,159,0 shortLabel K562 Predicted + longLabel K562 (ENCSR740IPL) ProCapNet predicted PRO-cap, plus strand track proCapNet_K562_pred_neg parent proCapNet_K562_pred type bigWig bigDataUrl /gbdb/hg38/proCapNet/pred/K562.proCapNet.neg.bw color 230,159,0 altColor 230,159,0 shortLabel K562 Predicted - longLabel K562 (ENCSR740IPL) ProCapNet predicted PRO-cap, minus strand track proCapNet_MCF10A_pred superTrack proCapNet full container multiWig aggregate solidOverlay showSubtrackColorOnUi on type bigWig autoScale on alwaysZero on maxHeightPixels 100:40:8 windowingFunction maximum configurable on html proCapNet color 86,180,233 shortLabel MCF10A Predicted longLabel MCF10A (ENCSR860TYZ) ProCapNet predicted PRO-cap, plus up minus down priority 6 track proCapNet_MCF10A_pred_pos parent proCapNet_MCF10A_pred type bigWig bigDataUrl /gbdb/hg38/proCapNet/pred/MCF10A.proCapNet.pos.bw color 86,180,233 shortLabel MCF10A Predicted + longLabel MCF10A (ENCSR860TYZ) ProCapNet predicted PRO-cap, plus strand track proCapNet_MCF10A_pred_neg parent proCapNet_MCF10A_pred type bigWig bigDataUrl /gbdb/hg38/proCapNet/pred/MCF10A.proCapNet.neg.bw color 86,180,233 altColor 86,180,233 shortLabel MCF10A Predicted - longLabel MCF10A (ENCSR860TYZ) ProCapNet predicted PRO-cap, minus strand track proCapNet_A673_contrib superTrack proCapNet hide type bigWig bigDataUrl /gbdb/hg38/proCapNet/contrib/A673.proCapNet-contrib.bw logo on autoScale on alwaysZero on maxHeightPixels 100:40:8 configurable on html proCapNet color 0,114,178 shortLabel A673 Contribution longLabel A673 (ENCSR072YCM) ProCapNet sequence-contribution scores priority 11 track proCapNet_Caco-2_contrib superTrack proCapNet hide type bigWig bigDataUrl /gbdb/hg38/proCapNet/contrib/Caco-2.proCapNet-contrib.bw logo on autoScale on alwaysZero on maxHeightPixels 100:40:8 configurable on html proCapNet color 213,94,0 shortLabel Caco-2 Contribution longLabel Caco-2 (ENCSR182QNJ) ProCapNet sequence-contribution scores priority 12 track proCapNet_Calu3_contrib superTrack proCapNet hide type bigWig bigDataUrl /gbdb/hg38/proCapNet/contrib/Calu3.proCapNet-contrib.bw logo on autoScale on alwaysZero on maxHeightPixels 100:40:8 configurable on html proCapNet color 0,158,115 shortLabel Calu3 Contribution longLabel Calu3 (ENCSR797DEF) ProCapNet sequence-contribution scores priority 13 track proCapNet_HUVEC_contrib superTrack proCapNet hide type bigWig bigDataUrl /gbdb/hg38/proCapNet/contrib/HUVEC.proCapNet-contrib.bw logo on autoScale on alwaysZero on maxHeightPixels 100:40:8 configurable on html proCapNet color 204,121,167 shortLabel HUVEC Contribution longLabel HUVEC (ENCSR801ECP) ProCapNet sequence-contribution scores priority 14 track proCapNet_K562_contrib superTrack proCapNet hide type bigWig bigDataUrl /gbdb/hg38/proCapNet/contrib/K562.proCapNet-contrib.bw logo on autoScale on alwaysZero on maxHeightPixels 100:40:8 configurable on html proCapNet color 230,159,0 shortLabel K562 Contribution longLabel K562 (ENCSR740IPL) ProCapNet sequence-contribution scores priority 15 track proCapNet_MCF10A_contrib superTrack proCapNet hide type bigWig bigDataUrl /gbdb/hg38/proCapNet/contrib/MCF10A.proCapNet-contrib.bw logo on autoScale on alwaysZero on maxHeightPixels 100:40:8 configurable on html proCapNet color 86,180,233 shortLabel MCF10A Contribution longLabel MCF10A (ENCSR860TYZ) ProCapNet sequence-contribution scores priority 16