566f26928ab033f905f3fd87493ec5d94db4c59d
lrnassar
  Mon Feb 9 17:11:08 2026 -0800
Adding the hgFixed table for the PFMs show up on the TFs hgc pages, refs #36264

diff --git src/hg/makeDb/doc/hg38/jaspar.txt src/hg/makeDb/doc/hg38/jaspar.txt
index 50162eb8cb2..95abab0caf0 100644
--- src/hg/makeDb/doc/hg38/jaspar.txt
+++ src/hg/makeDb/doc/hg38/jaspar.txt
@@ -1,68 +1,70 @@
 # JASPAR Track integration by Daniel 8/20/21
     #trackDb copied in the hg19.txt makeDoc
     cd /hive/data/genomes/hg38/bed
     mkdir jaspar
     cd jaspar
     wget http://expdata.cmmt.ubc.ca/JASPAR/downloads/UCSC_tracks/2018/hg38/JASPAR2018_hg38_all_chr.bb
     wget http://expdata.cmmt.ubc.ca/JASPAR/downloads/UCSC_tracks/2020/JASPAR2020_hg38.bb
     mv JASPAR2020_hg38.bb JASPAR2020.bb
     mv JASPAR2018_hg38_all_chr.bb JASPAR2018.bb
     cd /gbdb/hg38
     mkdir jaspar
     cd jaspar
     ln -s /hive/data/genomes/hg38/bed/jaspar/JASPAR2018.bb .
     ln -s /hive/data/genomes/hg38/bed/jaspar/JASPAR2020.bb .
 ###############################################################################
 
 
 # JASPAR 2022 track addition by Daniel 10/11/21
 cd ~/kent/src/hg/makeDb/trackDb
 # trackDb copied in the hg19.txt makeDoc
 cd /hive/data/genomes/hg38/bed/jaspar
 wget http://expdata.cmmt.ubc.ca/JASPAR/downloads/UCSC_tracks/2022/JASPAR2022_hg38.bb
 mv JASPAR2022_hg38.bb JASPAR2022.bb
 cd /gbdb/hg38/jaspar
 ln -s /hive/data/genomes/hg38/bed/jaspar/JASPAR2022.bb .
 
 ###############################################################################
 
 # JASPAR$ 2022 bigBed update 12/7/21
 cd /hive/data/genomes/hg38/bed/jaspar
 wget http://expdata.cmmt.ubc.ca/JASPAR/downloads/UCSC_tracks/2022/JASPAR2022_hg38.bb
 rm JASPAR2022.bb
 mv JASPAR2022_hg38.bb JASPAR2022.bb
 ls -lh
 ls -lh /gbdb/hg19/jaspar
 
 ###############################################################################
 
 # JASPAR$ 2022 bigBed update 1/3/22
 cd /hive/data/genomes/hg38/bed/jaspar
 wget http://expdata.cmmt.ubc.ca/JASPAR/downloads/UCSC_tracks/2022/JASPAR2022_hg38.bb
 rm JASPAR2022.bb
 mv JASPAR2022_hg38.bb JASPAR2022.bb
 ls -lh
 ls -lh /gbdb/hg19/jaspar
 
 
 ###############################################################################
 # JASPAR 2024 bigBed update 11/13/24
 
 cd /hive/data/genomes/hg38/bed/jaspar
 wget https://frigg.uio.no/JASPAR/JASPAR_genome_browser_tracks/current/hg38/JASPAR2024_hg38.bb
 mv JASPAR2024_hg38.bb JASPAR2024.bb
 ln -s JASPAR2024.bb /gbdb/hg38/jaspar/JASPAR2024.bb
 
 ###############################################################################
 # JASPAR 2026 bigBed update 2/4/26
 
 cd /hive/data/outside/jaspar/
 mkdir 2026
 cd 2026/
 hubClone -skipMissingAssemblies -download https://mencius.uio.no/JASPAR/JASPAR_genome_browser_tracks/current/hub.txt
 #cd into the hub dir
-for D in ce11 ci3 danRer11 dm6 hg38 mm39 sacCer3; do
+for D in galGal6 ce11 ci3 danRer11 dm6 hg38 mm39 sacCer3; do
     mv $D/JASPAR2026*.bb $D/JASPAR2026.bb
     mkdir -p /gbdb/$D/jaspar
     ln -sf $(realpath $D/JASPAR2026.bb) /gbdb/$D/jaspar/JASPAR2026.bb
 done
+
+# Also added the new PFMs table, see hgFixed makedoc for that