0f3ca3eaf5792df01b7c600a5428d2d0b2809fcd
max
  Fri Sep 20 13:18:01 2024 -0700
Revert "more features to hubtools: search in both parent and subdirs, better docs"

This reverts commit 05e67c59a20a5d00b810a981aef3b00c5bef82e1.

diff --git src/hg/makeDb/scripts/prsEmerge/prs2bigBed.sh src/hg/makeDb/scripts/prsEmerge/prs2bigBed.sh
index 409ab13..7a1420e 100644
--- src/hg/makeDb/scripts/prsEmerge/prs2bigBed.sh
+++ src/hg/makeDb/scripts/prsEmerge/prs2bigBed.sh
@@ -1,19 +1,17 @@
 # written by Zia Truong and slightly adapted by Max and committed
 echo "Converting PRS files to BED files..."
 mkdir output
 wait
 
 python3 ~/kent/src/hg/makeDb/scripts/prsEmerge/prs2bed.py # iterates over files in data/, writes to output/
 
 echo "Converting BED files to bigBED files..."
 #looping through files for loop code based on https://stackoverflow.com/a/10523501
 for bed in ./output/*.bed
 do
-  baseName=`basename $bed .bed`
   sort -k1,1 -k2,2n "${bed}" -o "${bed}"
-  bedToBigBed -as=prs.as -type=bed9+2 "${bed}" /hive/data/genomes/hg19/chrom.sizes bigBed/${baseName}.bb
+  bedToBigBed -as=prs.as -type=bed9+2 "${bed}" /hive/data/genomes/hg19/chrom.sizes "${bed}.bb"
   rm ${bed}
 done
 
 echo "Done!"
-echo do not forget symlinks in /gbdb/hg19/prsEmerge/