Changeset 2868

Timestamp:

Nov 12, 2012, 10:28:40 PM (9 years ago)

Author:

Peter

Message:

refs #729. Add configure tests for samtools

Location:

trunk

Files:

• configure.ac (modified) (3 diffs)
• m4/Makefile.am (modified) (1 diff)
• m4/yat_cblas.m4 (modified) (1 diff)
• m4/yat_check_libbam.m4 (added)

trunk/configure.ac

@@ -240 +240 @@
 
 
+# samtools API from http://samtools.sourceforge.net
+AC_ARG_WITH([samtools],
+            [AS_HELP_STRING([--without-samtools],
+                            [disable samtools support])],
+            [],
+            [with_samtools=yes])
+
+AS_IF([test x"$with_samtools" != x"no"], [
+  AC_CHECK_HEADER([zlib.h], [], [YAT_MSG_ERROR([zlib.h was not found])])
+AC_SEARCH_LIBS([inflateEnd], [z])
+  AC_CHECK_LIB([z], [inflateEnd], [], [YAT_MSG_ERROR([libz was not found])])
+  AC_CHECK_HEADER([bam.h], [], [YAT_MSG_ERROR([bam.h was not found])])
+  # try link against libbam
+  YAT_CHECK_LIBBAM([LIBS="$BAM_LIBS $LIBS"],
+                   [YAT_MSG_ERROR([libbam was not found])])
+])
+AM_CONDITIONAL([HAVE_SAMTOOLS], [test x"$with_samtools" = x"yes"])
+
 #support for large files
 AC_SYS_LARGEFILE
@@ -435 +453 @@
 ])
 
-AC_MSG_RESULT([----------------------------------------------------------------])
-AC_MSG_RESULT([Creating yat configuration])
 # Create output.
 AC_OUTPUT
@@ -448 +464 @@
   Build Static Library: $enable_static
   Build Documentation:  $doxygen_message
+  Enable Bam Support:   $with_bam
 
 Options used to compile and link:

trunk/m4/Makefile.am

@@ -26 +26 @@
 aclocal_DATA += m4/yat_am_macros.m4
 aclocal_DATA += m4/yat_cblas.m4
+aclocal_DATA += m4/yat_check_libbam.m4
 aclocal_DATA += m4/yat_common.m4
 aclocal_DATA += m4/yat_gsl.m4

trunk/m4/yat_cblas.m4

@@ -39 +39 @@
 
 #
-# serial 0  
+# serial 0
 #