Update gexp_prep_gtex.sh

jiang548 · May 20, 2022 · 82fba7d · 82fba7d
1 parent d76aef4
commit 82fba7d
Showing 1 changed file with 3 additions and 4 deletions.
diff --git a/script/gexp_prep/gexp_prep_gtex.sh b/script/gexp_prep/gexp_prep_gtex.sh
@@ -7,13 +7,13 @@ cp $SIGNET_TMP_ROOT/tmpg/subjid_wb_common.txt subjid_wb_common.txt
 
 awk '{print $2}' $reads | tail -n+4 > GTEx_genename
 
-echo -e "Looking for the samples for $tissue tissue \n"
+echo -e "Looking for the samples for $tissue tissue... \n"
 
 Rscript $SIGNET_SCRIPT_ROOT/gexp_prep/gexp_prep_gtex.R "reads='$reads'" "tpm='$tpm'" "tissue='$tissue'" "anno='$anno'" &&
 
 tabix -l $SIGNET_TMP_ROOT/tmpg/GTEx_snp.vcf.gz > vcf_chr_list
 
-echo -e "Begin normalizing \n"
+echo -e "Normalizing gene expressions...\n"
 
 python3 $SIGNET_SCRIPT_ROOT/gexp_prep/eqtl_prepare_expression_igt2log.py $tpm \
 	$reads \
@@ -25,5 +25,4 @@ python3 $SIGNET_SCRIPT_ROOT/gexp_prep/eqtl_prepare_expression_igt2log.py $tpm \
 	--sample_id_list sample_ids_tissue.txt
 
 
-echo -e "Normalizing finished \n"
-
+echo -e "Normalizing gene expressions... Completed!\n"