3b7094b836ca282f03f54eb70c3778efab444042
braney
  Wed May 1 10:54:51 2024 -0700
did this work awhile ago but didn't commit the doc

diff --git src/hg/makeDb/doc/hg38/multiz470way.txt src/hg/makeDb/doc/hg38/multiz470way.txt
index c6c610c..579dc32 100644
--- src/hg/makeDb/doc/hg38/multiz470way.txt
+++ src/hg/makeDb/doc/hg38/multiz470way.txt
@@ -2034,31 +2034,31 @@
 
     cd ..
 
     #   situation
     ln -s `pwd`/*.mod `pwd`/*.bw `pwd`/*.txt \
       /usr/local/apache/htdocs-hgdownload/goldenPath/hg38/phyloP470way
 
 #############################################################################
 # hgPal downloads (DONE - 2017-11-06 - Hiram)
 #   FASTA from 470-way for knownGene, refGene and knownCanonical
 
     ssh hgwdev
     screen -S hg38HgPal
     mkdir /hive/data/genomes/hg38/bed/multiz470way/pal
     cd /hive/data/genomes/hg38/bed/multiz470way/pal
-    cat ../species.list | tr '[ ]' '[\n]' > order.list
+    cat ../species.list.txt | tr '[ ]' '[\n]' > order.list
 
     ### knownCanonical with full CDS
     cd /hive/data/genomes/hg38/bed/multiz470way/pal
     export mz=multiz470way
     export gp=knownCanonical
     export db=hg38
     mkdir exonAA exonNuc knownCanonical
 
     time cut -f1 ../../../chrom.sizes | while read C
     do
         echo $C 1>&2
 	hgsql hg38 -N -e "select chrom, chromStart, chromEnd, transcript from knownCanonical where chrom='$C'" > knownCanonical/$C.known.bed
     done
 
     ls knownCanonical/*.known.bed | while read F