fix configure

Zilong-Li · Dec 21, 2024 · 64b9ae7 · 64b9ae7
1 parent dc309b1
commit 64b9ae7
Show file tree

Hide file tree

Showing 2 changed files with 7 additions and 5 deletions.
diff --git a/configure b/configure
@@ -8,8 +8,8 @@ HTSLIB_DIR="src/htslib-1.21"
 echo "Configuring HTSlib in $HTSLIB_DIR"
 cd $HTSLIB_DIR
 ./configure \
-    --without-libdeflate \
-    CFLAGS="-O2 -fPIC"
-
+    CFLAGS="-O2 -fPIC" \
+    LDFLAGS=$(${R_HOME}/bin/R CMD config LDFLAG)
+    
 make libhts.a
 
diff --git a/configure.win b/configure.win
@@ -3,9 +3,11 @@
 HTSLIB_DIR="src/htslib-1.21"
 echo "Configuring HTSlib in $HTSLIB_DIR"
 cd $HTSLIB_DIR
+## fix symbolic linking error
+cp htscodecs_bundled.mk htscodecs.mk 
 ./configure \
-    --without-libdeflate \
-    CFLAGS="-O2 -fPIC"
+    CFLAGS="-O2 -fPIC" \
+    LDFLAGS=$(${R_HOME}/bin/R CMD config LDFLAG)
 
 make libhts.a