we are pulling from puff develop

COMBINE-lab · Nov 25, 2020 · 93e8d7c · 93e8d7c
1 parent abc5513
commit 93e8d7c
Show file tree

Hide file tree

Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/scripts/fetchPufferfish.sh b/scripts/fetchPufferfish.sh
@@ -43,7 +43,7 @@ fi
 if [ -z "${hashcheck-}" ]; then
     echo "Couldn't find shasum command; can't verify contents of downloaded pufferfish";
 else
-    if [[ $SVER != sketch-mode ]]; then
+    if [[ $SVER != develop ]]; then
         echo "${EXPECTED_SHA256}  ${EXTERNAL_DIR}/pufferfish.zip" | ${hashcheck} -c - || { echo "pufferfish.zip did not match expected SHA1! Exiting."; exit 1; }
     else
         echo "not testing sha since pulling from develop"

diff --git a/src/ProgramOptionsGenerator.cpp b/src/ProgramOptionsGenerator.cpp
@@ -375,7 +375,7 @@ namespace salmon {
       ("rad,justAlign,j", po::bool_switch()->default_value(alevin::defaults::just_align),
        "just selectively align the data and write the results to a RAD file.  Do not perform "
        "the rest of the quantification procedure.")
-      ("sketch,sketchMode", po::bool_switch()->default_value(alevin::defaults::sketch_mode),
+      ("sketch", po::bool_switch()->default_value(alevin::defaults::sketch_mode),
        "perform sketching rather than selective alignment and write the results to a RAD file. "
        "Requires the `--justAlign` flag. Do not perform the rest of the quantification procedure." 
       )