83907f5791ff62eaef130ea0b0ded3f437ff7ad6
markd
  Tue Aug 15 14:58:47 2023 -0700
t2t-chm13 file fix

diff --git src/hg/makeDb/doc/hs1/t2t-supplied.txt src/hg/makeDb/doc/hs1/t2t-supplied.txt
index 1401a41..7685623 100644
--- src/hg/makeDb/doc/hs1/t2t-supplied.txt
+++ src/hg/makeDb/doc/hs1/t2t-supplied.txt
@@ -388,15 +388,29 @@
 2022-05-23
 # due to the number of problems with the bigRmsk code, we are temporarily converting it to
 # a bigBed and added colors.
 
   cd /hive/data/genomes/asmHubs/genbankBuild/GCA/009/914/755/GCA_009914755.4_T2T-CHM13v2.0/trackData/t2tRepeatMasker
   bigBedToBed chm13v2.0_rmsk.align.bb stdout |  awk -f addItemRgb.awk >chm13v2.0_rmsk.align.rgb.bed
 
 
 lngbdb t2tRepeatMasker/*.bb
 
 ================================================================
 Problems:
 - hub groups doesn't have phenDis, so put clinvar and GWAS in varRep
   FIX THIS
 ================================================================
+
+================================================================
+proseq update (2023-08-15 markd)
+----------------------------------------------------------------
+Supplied by Savannah Hoyt <savannah.klein@uconn.edu>
+two files were discovered to be missing chr1 and recreated.
+
+from T2T Globus /team-epigenetics/PROseq-RNAseq_chm13v1.1/MappedToCHM13v1.1/PROseq_Bowtie2/
+renaming files to something not as long
+
+    PROseq_k100_AB.markersandlength_meryl-21mer-chm13v1.1_neg.bigwig -> PROseq_k100_dual_21mer_neg.bw
+    PROseq_k100_AB.markersandlength_meryl-21mer-chm13v1.1_pos.bigwig -> PROseq_k100_dual_21mer_pos.bw
+
+and put in /hive/data/genomes/hs1/bed/proseq/, which still symlinked in /gbdb/