Update run_clair3.sh

update PHASING_PCT setting for guppy5
HKU-BAL · Mar 15, 2022 · 2f1e4c5 · 2f1e4c5
1 parent 1b73a33
commit 2f1e4c5
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/run_clair3.sh b/run_clair3.sh
@@ -195,7 +195,7 @@ if [ "${PLATFORM}" != "ont" ] && [ "${PRO}" = "0" ]; then PRO=0.3; fi
 
 # show default high quality hete variant proportion for whatshap phasing, 0.8 for ont guppy5 and 0.7 for others
 if [ "${PHASING_PCT}" = "0" ]; then PHASING_PCT=0.7; fi
-BASE_MODEL=$(basename ${MODEL_PATH})C
+BASE_MODEL=$(basename ${MODEL_PATH})
 if [ "${BASE_MODEL}" = "r941_prom_sup_g5014" ] || [ "${BASE_MODEL}" = "r941_prom_hac_g5014" ] || [ "${BASE_MODEL}" = "ont_guppy5" ]; then PHASING_PCT=0.8; fi
 
 # remove the last '/' character in directory input
@@ -332,4 +332,4 @@ ${SCRIPT_PATH}/scripts/clair3.sh \
     --enable_long_indel=${ENABLE_LONG_INDEL}
 
 
-)) |& tee ${OUTPUT_FOLDER}/run_clair3.log
+)) |& tee ${OUTPUT_FOLDER}/run_clair3.log