From 2c624fb05b83741d06e7672438d103ec3683e1ba Mon Sep 17 00:00:00 2001 From: Zhongli Jiang Date: Sat, 30 Apr 2022 18:52:00 -0400 Subject: [PATCH] add full path for adj of GTEx --- script/adj_portal_gtex.sh | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/script/adj_portal_gtex.sh b/script/adj_portal_gtex.sh index 6c84f51..e53b7b4 100755 --- a/script/adj_portal_gtex.sh +++ b/script/adj_portal_gtex.sh @@ -11,10 +11,10 @@ usage() { pheno=$($SIGNET_ROOT/signet -s --pheno | sed -r '/^\s*$/d') tissue=$($SIGNET_ROOT/signet -s --tissue | sed -r '/^\s*$/d') -anno=$($SIGNET_ROOT/signet -s --anno | sed -r '/^\s*$/d') -resa=$($SIGNET_ROOT/signet -s --resa.gtex | sed -r '/^\s*$/d') -resg=$($SIGNET_ROOT/signet -s --resg.gtex | sed -r '/^\s*$/d') -rest=$($SIGNET_ROOT/signet -s --rest.gtex | sed -r '/^\s*$/d') +anno=$($SIGNET_ROOT/signet -s --anno | sed -r '/^\s*$/d' | readlink -f ) +resa=$($SIGNET_ROOT/signet -s --resa.gtex | sed -r '/^\s*$/d' | readlink -f ) +resg=$($SIGNET_ROOT/signet -s --resg.gtex | sed -r '/^\s*$/d' | readlink -f) +rest=$($SIGNET_ROOT/signet -s --rest.gtex | sed -r '/^\s*$/d' | readlink -f) forcerm=$($SIGNET_ROOT/signet -s --forcerm | sed -r '/^\s*$/d') ARGS=`getopt -a -o a:r -l h:,pheno:,resa:,help -- "$@"`