rely on tagged version of pufferfish

COMBINE-lab · Nov 25, 2020 · e362d4d · e362d4d
1 parent 7bc3820
commit e362d4d
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Showing 2 changed files with 4 additions and 4 deletions.
diff --git a/scripts/fetchPufferfish.sh b/scripts/fetchPufferfish.sh
@@ -22,11 +22,11 @@ if [ -d ${INSTALL_DIR}/src/pufferfish ] ; then
     rm -fr ${INSTALL_DIR}/src/pufferfish
 fi
 
-#SVER=salmon-v1.3.0
-SVER=develop
+SVER=salmon-v1.4.0
+#SVER=develop
 #SVER=sketch-mode
 
-EXPECTED_SHA256=0176b2ec5fc45bbf68c60b5845fead28e63db72f91ff93499d67e7a571167fdf
+EXPECTED_SHA256=059207e8d3134060ed70595e53f4189954c9e5edfaa6361b46304f55d1b71bc7
 
 mkdir -p ${EXTERNAL_DIR}
 curl -k -L https://github.com/COMBINE-lab/pufferfish/archive/${SVER}.zip -o ${EXTERNAL_DIR}/pufferfish.zip

diff --git a/src/ProgramOptionsGenerator.cpp b/src/ProgramOptionsGenerator.cpp
@@ -358,7 +358,7 @@ namespace salmon {
        "Run naive per equivalence class deduplication, generating only total number of UMIs")
       (
        "noWhitelist", po::bool_switch()->default_value(alevin::defaults::noWhitelist),
-       "Stops the pipeline after UMI deduplication and quantification; not perform intelligent whitelisting.")
+       "Stops the pipeline after UMI deduplication and quantification; do not perform intelligent whitelisting.")
       (
        "noDedup", po::bool_switch()->default_value(alevin::defaults::noDedup),
        "Stops the pipeline after CB sequence correction and selective-alignment of reads.");