From 91fb99fe5a55525379548a7135bf4d6507fcc3eb Mon Sep 17 00:00:00 2001
From: egluckthaler <emilegluckthaler@gmail.com>
Date: Sun, 17 Dec 2023 21:48:44 -0600
Subject: [PATCH] update Makefile with CC flags

---
 CNEFinder/Makefile | 2 --
 build.sh           | 2 +-
 2 files changed, 1 insertion(+), 3 deletions(-)

diff --git a/CNEFinder/Makefile b/CNEFinder/Makefile
index e3e4c253..18e98b34 100644
--- a/CNEFinder/Makefile
+++ b/CNEFinder/Makefile
@@ -1,7 +1,5 @@
 MF=     Makefile
  
-CC=     x86_64-conda-linux-gnu-g++
- 
 CFLAGS= -g -fopenmp -D_USE_OMP -msse4.2 -O3 -fomit-frame-pointer -funroll-loops  
  
 LFLAGS= -std=c++11 -I ./
diff --git a/build.sh b/build.sh
index fd8ed0b7..ba152f1e 100644
--- a/build.sh
+++ b/build.sh
@@ -1,7 +1,7 @@
 # compile CNEFinder
 cd $SRC_DIR/CNEFinder/
 ./pre-install.sh
-make -f Makefile
+make -f Makefile CC=$PREFIX/bin/x86_64-conda-linux-gnu-gcc CXX=$PREFIX/bin/x86_64-conda-linux-gnu-g++
 mv cnef ../bin/
 
 # copy git directory structure to conda package location