diff --git a/.gitignore b/.gitignore
index 1af3c9c..9479611 100644
--- a/.gitignore
+++ b/.gitignore
@@ -1,4 +1,4 @@
 .DS_store
-a.out
 build
 target
+a.out
diff --git a/hash/cpu/bench/Blake3/Unix/build.sh b/hash/cpu/bench/Blake3/Unix/build.sh
index 98984ae..de9a3c4 100755
--- a/hash/cpu/bench/Blake3/Unix/build.sh
+++ b/hash/cpu/bench/Blake3/Unix/build.sh
@@ -1,7 +1,7 @@
 #!/bin/bash
 
 ORIG=`pwd`
-cd ../../src/Blake3/
+cd ../../../src/Blake3/
 IMPL=`pwd`
 
 cd $IMPL
@@ -11,7 +11,10 @@ cd $IMPL/b3sum
 cargo build --release
 
 cd $ORIG
-cp $IMPL/b3sum/target/release/b3sum .
 
-gcc -O3 fakedata.c -o fakedata
+mkdir -p build
+
+cp $IMPL/b3sum/target/release/b3sum build/
+
+gcc -O3 fakedata.c -o build/fakedata
 
diff --git a/hash/cpu/bench/Blake3/Unix/run.sh b/hash/cpu/bench/Blake3/Unix/run.sh
old mode 100644
new mode 100755
index eec4f89..ba8ed0e
--- a/hash/cpu/bench/Blake3/Unix/run.sh
+++ b/hash/cpu/bench/Blake3/Unix/run.sh
@@ -1,2 +1,14 @@
 #!/bin/bash
-./fakedata $ZKBENCH_MEGABYTES | ./b3sum --num-threads $ZKBENCH_NTHREADS -
\ No newline at end of file
+
+if [ -z ${ZKBENCH_NTHREADS}  ]; then 
+ZKBENCH_NTHREADS=1    
+fi
+
+if [ -z ${ZKBENCH_MEGABYTES} ]; then 
+ZKBENCH_MEGABYTES=256
+fi
+
+echo "NTHREADS  = $ZKBENCH_NTHREADS"
+echo "MEGABYTES = $ZKBENCH_MEGABYTES"
+
+./build/fakedata $ZKBENCH_MEGABYTES | ./build/b3sum --num-threads $ZKBENCH_NTHREADS -
diff --git a/hash/cpu/bench/Poseidon2/Zikkurat/build.sh b/hash/cpu/bench/Poseidon2/Zikkurat/build.sh
index d022657..2113157 100755
--- a/hash/cpu/bench/Poseidon2/Zikkurat/build.sh
+++ b/hash/cpu/bench/Poseidon2/Zikkurat/build.sh
@@ -3,6 +3,8 @@ echo "build"
 
 ZIK_PATH="../../../src/zikkurat-algebra/"
 
+mkdir -p build
+
 gcc -O3 \
   -I ${ZIK_PATH}/lib/cbits/bigint/             \
   -I ${ZIK_PATH}/lib/cbits/curves/fields/std/  \
@@ -11,4 +13,4 @@ gcc -O3 \
   ${ZIK_PATH}/lib/cbits/curves/fields/std/bn128_r_std.c    \
   ${ZIK_PATH}/lib/cbits/curves/fields/mont/bn128_r_mont.c  \
   poseidon2.c \
-  -o a.out
+  -o build/a.out
diff --git a/hash/cpu/bench/Poseidon2/Zikkurat/run.sh b/hash/cpu/bench/Poseidon2/Zikkurat/run.sh
index 4540b8e..a17a67b 100755
--- a/hash/cpu/bench/Poseidon2/Zikkurat/run.sh
+++ b/hash/cpu/bench/Poseidon2/Zikkurat/run.sh
@@ -1,3 +1,14 @@
 #!/bin/bash
 
-./a.out $ZKBENCH_TREE_DEPTH $ZKBENCH_NTHREADS
\ No newline at end of file
+if [ -z ${ZKBENCH_NTHREADS}  ]; then 
+ZKBENCH_NTHREADS=1    
+fi
+
+if [ -z ${ZKBENCH_TREE_DEPTH} ]; then 
+ZKBENCH_TREE_DEPTH=16
+fi
+
+echo "NTHREADS   = $ZKBENCH_NTHREADS"
+echo "TREE_DEPTH = $ZKBENCH_TREE_DEPTH"
+
+./build/a.out $ZKBENCH_TREE_DEPTH $ZKBENCH_NTHREADS
\ No newline at end of file
diff --git a/hash/cpu/bench/Poseidon2/Zikkurat/setup.sh b/hash/cpu/bench/Poseidon2/Zikkurat/setup.sh
deleted file mode 100755
index 934e19e..0000000
--- a/hash/cpu/bench/Poseidon2/Zikkurat/setup.sh
+++ /dev/null
@@ -1,2 +0,0 @@
-#!/bin/bash
-echo "setup"
\ No newline at end of file
diff --git a/hash/cpu/bench/SHA256/C/build.sh b/hash/cpu/bench/SHA256/C/build.sh
index bb1c9b5..9b99e35 100755
--- a/hash/cpu/bench/SHA256/C/build.sh
+++ b/hash/cpu/bench/SHA256/C/build.sh
@@ -1,4 +1,6 @@
 #!/bin/bash
 
-gcc -O3 sha2.c bench_linear.c -o bench_linear
-gcc -O3 sha2.c bench_merkle.c -o bench_merkle
+mkdir -p build
+
+gcc -O3 sha2.c bench_linear.c -o build/bench_linear
+gcc -O3 sha2.c bench_merkle.c -o build/bench_merkle
diff --git a/hash/cpu/bench/SHA256/C/run.sh b/hash/cpu/bench/SHA256/C/run.sh
new file mode 100755
index 0000000..274b2e6
--- /dev/null
+++ b/hash/cpu/bench/SHA256/C/run.sh
@@ -0,0 +1,30 @@
+#!/bin/bash
+
+if [ -z ${ZKBENCH_WHICH} ]; then 
+ZKBENCH_WHICH="LINEAR"    
+fi
+
+if [ -z ${ZKBENCH_NTHREADS} ]; then 
+ZKBENCH_NTHREADS=1    
+fi
+
+if [ -z ${ZKBENCH_MEGABYTES} ]; then 
+ZKBENCH_MEGABYTES=128
+fi
+
+echo "WHICH     = $ZKBENCH_WHICH"
+echo "NTHREADS  = $ZKBENCH_NTHREADS"
+echo "MEGABYTES = $ZKBENCH_MEGABYTES"
+
+case $ZKBENCH_WHICH in
+  LINEAR)
+    build/bench_linear $ZKBENCH_MEGABYTES
+    ;;
+  MERKLE)
+    build/bench_merkle $ZKBENCH_MEGABYTES $ZKBENCH_NTHREADS
+    ;;
+  *)
+    echo "unknown selector: \`$ZKBENCH_WHICH\`"
+    exit 99
+    ;;
+esac
diff --git a/hash/cpu/bench/SHA256/C/setup.sh b/hash/cpu/bench/SHA256/C/setup.sh
deleted file mode 100755
index 934e19e..0000000
--- a/hash/cpu/bench/SHA256/C/setup.sh
+++ /dev/null
@@ -1,2 +0,0 @@
-#!/bin/bash
-echo "setup"
\ No newline at end of file
diff --git a/hash/cpu/bench/SHA256/C/sha2.c b/hash/cpu/bench/SHA256/C/sha2.c
old mode 100755
new mode 100644
diff --git a/hash/cpu/bench/SHA256/C/sha2.h b/hash/cpu/bench/SHA256/C/sha2.h
old mode 100755
new mode 100644
diff --git a/hash/cpu/bench/SHA256/Unix/build.sh b/hash/cpu/bench/SHA256/Unix/build.sh
index e28c492..40147ac 100755
--- a/hash/cpu/bench/SHA256/Unix/build.sh
+++ b/hash/cpu/bench/SHA256/Unix/build.sh
@@ -1,3 +1,5 @@
 #!/bin/bash
 
-gcc -O3 fakedata.c -o fakedata
+mkdir -p build
+
+gcc -O3 fakedata.c -o build/fakedata
diff --git a/hash/cpu/bench/SHA256/Unix/run.sh b/hash/cpu/bench/SHA256/Unix/run.sh
index 6187869..e3562c7 100755
--- a/hash/cpu/bench/SHA256/Unix/run.sh
+++ b/hash/cpu/bench/SHA256/Unix/run.sh
@@ -1,3 +1,9 @@
 #!/bin/bash
 
-./fakedata $ZKBENCH_MEGABYTES | shasum -a256 -b -
\ No newline at end of file
+if [ -z ${ZKBENCH_MEGABYTES} ]; then 
+ZKBENCH_MEGABYTES=128
+fi
+
+echo "MEGABYTES = $ZKBENCH_MEGABYTES"
+
+./build/fakedata $ZKBENCH_MEGABYTES | shasum -a256 -b -
\ No newline at end of file
diff --git a/hash/cpu/bench/SHA256/Unix/setup.sh b/hash/cpu/bench/SHA256/Unix/setup.sh
deleted file mode 100755
index 934e19e..0000000
--- a/hash/cpu/bench/SHA256/Unix/setup.sh
+++ /dev/null
@@ -1,2 +0,0 @@
-#!/bin/bash
-echo "setup"
\ No newline at end of file