1. NetPathMiner
  2. configure.ac
Browse code

Use the local copy of boost library only on x86_64

For any other CPU architecture fall back to the system-wide boost
(installed by OS packages)

Signed-off-by: Martin Tzvetanov Grigorov <mgrigorov@apache.org>

Martin Tzvetanov Grigorov authored on 02/03/2023 08:38:20
Showing 1 changed files
configure.ac
History View file @ 06f7794
... ... 
@@ -26,12 +26,18 @@ AC_CHECK_LIB(sbml, readSBML, , [SBML=false])
26 26
27 27
28 28 
 #!/bin/sh
29 
-if test -d ./src/boost.tar.gz;
29 
+if test "$(uname -m)" == "x86_64";
30 30 
   then
31 
-      echo 'found boost header sources and tar archive;\n using what is there.'
32 
-  else
33 
-      echo "untarring boost include tree...";
34 
-      tar -zxf ./src/boost.tar.gz -C ./src;
31 
+    CPPFLAGS="-I. ${CPPFLAGS}"
32 
+    if test -d ./src/boost;
33 
+      then
34 
+          echo 'found boost header sources and tar archive;\n using what is there.'
35 
+      else
36 
+          echo "untarring boost include tree...";
37 
+          tar -zxf ./src/boost.tar.gz -C ./src;
38 
+      fi
39 
+   else
40 
+      echo "Non x86_64 architecture. Using system-wide boost installation!"
35 41 
 fi;
36 42
37 43 
 AC_DEFUN([CHECK_XML],[
Browse code

fix mac locate.database warning

Ahmed Mohamed authored on 02/03/2019 13:31:31
Showing 1 changed files
configure.ac
History View file @ e8bce05
... ... 
@@ -27,7 +27,7 @@ AC_CHECK_LIB(sbml, readSBML, , [SBML=false])
27 27
28 28 
 #!/bin/sh
29 29 
 if test -d ./src/boost.tar.gz;
30 
-  then
30 
+  then
31 31 
       echo 'found boost header sources and tar archive;\n using what is there.'
32 32 
   else
33 33 
       echo "untarring boost include tree...";
... ... 
@@ -45,42 +45,42 @@ PKG_LIBS="${LIBS}"
45 45
46 46 
 if ${SBML}
47 47 
   then
48 
-    echo 'libSBML found, finding configuration...';
49 
-    if type "pkg-config" > /dev/null
48 
+    echo 'libSBML found, finding configuration...';
49 
+    if type "pkg-config" > /dev/null
50 50 
       then
51 51 
           PKG_CONFIG="pkg-config"
52 52 
           echo "pkg-config tool found"
53 53 
       else
54 54 
         AC_PATH_PROG(PKG_CONFIG, pkg-config)
55 55 
     fi;
56 
-
56 
+
57 57 
     SBMLPC="libsbml"
58 58 
     if test -z `${PKG_CONFIG} --exists ${SBMLPC}`
59 59 
       then
60 
-        SBMLPC=`locate libsbml.pc`
60 
+        SBMLPC=`locate libsbml.pc 2>/dev/null`
61 61 
     fi;
62 
-
62 
+
63 63 
     if test -n "${SBMLPC}"
64 64 
       then
65 
-        echo "libsbml.pc found. Using pkg-config to extract it."
65 
+        echo "libsbml.pc found. Using pkg-config to extract it."
66 66 
         SBML_INCDIR="-DHAVE_SBML `${PKG_CONFIG} --cflags ${SBMLPC}`"
67 67 
         SBML_LIBS=`${PKG_CONFIG} --libs ${SBMLPC}`
68 68 
       else
69 69 
         echo "Couldn't find libsbml.pc. Searching for libsbml in candidate directories."
70 70 
         if test -d /usr/include/sbml
71 71 
           then SBML_INCDIR="-DHAVE_SBML -I/usr/include/"
72 
-          else
72 
+          else
73 73 
             if test -d /usr/local/include/sbml
74 74 
               then SBML_INCDIR="-DHAVE_SBML -I/usr/local/include/"
75 75 
             fi;
76 
-        fi;
76 
+        fi;
77 77 
     fi;
78 
-    CHECK_XML()
78 
+    CHECK_XML()
79 79 
         SBML_INCDIR="$LIBXML_INCDIR $SBML_INCDIR"
80 80 
         SBML_LIBS="$XML_LIBS"
81 81 
     CPPFLAGS="${CPPFLAGS} ${SBML_INCDIR}"
82 82 
     PKG_LIBS="${PKG_LIBS} ${SBML_LIBS} -lsbml"
83 
-
83 
+
84 84 
   else
85 85 
     echo 'SBML not found.';
86 86
Browse code

autoconf modification to not require the installation dir named NetPathMiner

ahmohamed authored on 19/09/2016 23:04:03
Showing 1 changed files
configure.ac
History View file @ 96c95b0
... ... 
@@ -1,4 +1,5 @@
1 1 
 AC_INIT([NetPathMiner]) dnl package name, version
2 
+AC_CONFIG_SRCDIR(DESCRIPTION) dnl make sure the dir is an R package
2 3
3 4 
 dnl A user-specifiable option
4 5
Browse code

BUGFIX: include libxml2 correctly when libSBML is not present

ahmohamed authored on 18/09/2016 17:02:39
Showing 1 changed files
configure.ac
History View file @ 3fdf079
... ... 
@@ -26,70 +26,72 @@ AC_CHECK_LIB(sbml, readSBML, , [SBML=false])
26 26
27 27 
 #!/bin/sh
28 28 
 if test -d ./src/boost.tar.gz;
29 
-	then
30 
-			echo 'found boost header sources and tar archive;\n using what is there.'
31 
-	else
32 
-		  echo "untarring boost include tree...";
33 
-		  tar -zxf ./src/boost.tar.gz -C ./src;
29 
+  then
30 
+      echo 'found boost header sources and tar archive;\n using what is there.'
31 
+  else
32 
+      echo "untarring boost include tree...";
33 
+      tar -zxf ./src/boost.tar.gz -C ./src;
34 34 
 fi;
35 35
36 36 
 AC_DEFUN([CHECK_XML],[
37 
-	AC_PATH_PROGS(XML_CONFIG, xml2-config)
38 
-	LIBXML_INCDIR="-DHAVE_XML `${XML_CONFIG} --cflags`"
39 
-	XML_LIBS=`${XML_CONFIG} --libs`
37 
+  AC_PATH_PROGS(XML_CONFIG, xml2-config)
38 
+  LIBXML_INCDIR="-DHAVE_XML `${XML_CONFIG} --cflags`"
39 
+  XML_LIBS=`${XML_CONFIG} --libs`
40 40 
 ])
41 41
42 42 
 PKG_LIBS="${LIBS}"
43 43
44 44
45 45 
 if ${SBML}
46 
-	then
47 
-		echo 'libSBML found, finding configuration...';
48 
-		if type "pkg-config" > /dev/null
49 
-			then
50 
-		  		PKG_CONFIG="pkg-config"
51 
-		  		echo "pkg-config tool found"
52 
-			else
53 
-				AC_PATH_PROG(PKG_CONFIG, pkg-config)
54 
-		fi;
55 
-
56 
-		SBMLPC="libsbml"
57 
-		if test -z `${PKG_CONFIG} --exists ${SBMLPC}`
58 
-			then
59 
-				SBMLPC=`locate libsbml.pc`
60 
-		fi;
61 
-
62 
-		if test -n "${SBMLPC}"
63 
-			then
64 
-				echo "libsbml.pc found. Using pkg-config to extract it."
65 
-				SBML_INCDIR="-DHAVE_SBML `${PKG_CONFIG} --cflags ${SBMLPC}`"
66 
-				SBML_LIBS=`${PKG_CONFIG} --libs ${SBMLPC}`
67 
-			else
68 
-				echo "Couldn't find libsbml.pc. Searching for libsbml in candidate directories."
69 
-				if test -d /usr/include/sbml
70 
-					then SBML_INCDIR="-DHAVE_SBML -I/usr/include/"
71 
-					else
72 
-						if test -d /usr/local/include/sbml
73 
-							then SBML_INCDIR="-DHAVE_SBML -I/usr/local/include/"
74 
-						fi;
75 
-				fi;
76 
-		fi;
77 
-		CHECK_XML()
46 
+  then
47 
+    echo 'libSBML found, finding configuration...';
48 
+    if type "pkg-config" > /dev/null
49 
+      then
50 
+          PKG_CONFIG="pkg-config"
51 
+          echo "pkg-config tool found"
52 
+      else
53 
+        AC_PATH_PROG(PKG_CONFIG, pkg-config)
54 
+    fi;
55 
+
56 
+    SBMLPC="libsbml"
57 
+    if test -z `${PKG_CONFIG} --exists ${SBMLPC}`
58 
+      then
59 
+        SBMLPC=`locate libsbml.pc`
60 
+    fi;
61 
+
62 
+    if test -n "${SBMLPC}"
63 
+      then
64 
+        echo "libsbml.pc found. Using pkg-config to extract it."
65 
+        SBML_INCDIR="-DHAVE_SBML `${PKG_CONFIG} --cflags ${SBMLPC}`"
66 
+        SBML_LIBS=`${PKG_CONFIG} --libs ${SBMLPC}`
67 
+      else
68 
+        echo "Couldn't find libsbml.pc. Searching for libsbml in candidate directories."
69 
+        if test -d /usr/include/sbml
70 
+          then SBML_INCDIR="-DHAVE_SBML -I/usr/include/"
71 
+          else
72 
+            if test -d /usr/local/include/sbml
73 
+              then SBML_INCDIR="-DHAVE_SBML -I/usr/local/include/"
74 
+            fi;
75 
+        fi;
76 
+    fi;
77 
+    CHECK_XML()
78 78 
         SBML_INCDIR="$LIBXML_INCDIR $SBML_INCDIR"
79 79 
         SBML_LIBS="$XML_LIBS"
80 
-		CPPFLAGS="${CPPFLAGS} ${SBML_INCDIR}"
81 
-		PKG_LIBS="${PKG_LIBS} ${SBML_LIBS} -lsbml"
82 
-
83 
-	else
84 
-		echo 'SBML not found.';
85 
-
86 
-	if ${XML}
87 
-		then
88 
-			echo 'libXML2 found'
89 
-			CHECK_XML()
90 
-		else
91 
-			echo 'XML not found.';
92 
-	fi;
80 
+    CPPFLAGS="${CPPFLAGS} ${SBML_INCDIR}"
81 
+    PKG_LIBS="${PKG_LIBS} ${SBML_LIBS} -lsbml"
82 
+
83 
+  else
84 
+    echo 'SBML not found.';
85 
+
86 
+  if ${XML}
87 
+    then
88 
+      echo 'libXML2 found'
89 
+      CHECK_XML()
90 
+      CPPFLAGS="${CPPFLAGS} ${LIBXML_INCDIR}"
91 
+      PKG_LIBS="${PKG_LIBS} ${XML_LIBS}"
92 
+    else
93 
+      echo 'XML not found.';
94 
+  fi;
93 95 
 fi;
94 96
95 97
Browse code

empty commit

Ahmed Mohamed authored on 04/07/2015 00:36:26
Showing 1 changed files
configure.ac
History View file @ 555ec75
1 1 
old mode 100644
2 2 
new mode 100755
Browse code

0.99.3

Bioconductor, No errors/warnings.

amfy10 authored on 09/04/2014 09:29:08
Showing 1 changed files
configure.ac
History View file @ 572c4aa
... ... 
@@ -35,7 +35,7 @@ fi;
35 35
36 36 
 AC_DEFUN([CHECK_XML],[
37 37 
 	AC_PATH_PROGS(XML_CONFIG, xml2-config)
38 
-	LIBXML_INCDIR=`${XML_CONFIG} --cflags`
38 
+	LIBXML_INCDIR="-DHAVE_XML `${XML_CONFIG} --cflags`"
39 39 
 	XML_LIBS=`${XML_CONFIG} --libs`
40 40 
 ])
41 41
... ... 
@@ -62,37 +62,33 @@ if ${SBML}
62 62 
 		if test -n "${SBMLPC}"
63 63 
 			then
64 64 
 				echo "libsbml.pc found. Using pkg-config to extract it."
65 
-				SBML_INCDIR=`${PKG_CONFIG} --cflags ${SBMLPC}`
65 
+				SBML_INCDIR="-DHAVE_SBML `${PKG_CONFIG} --cflags ${SBMLPC}`"
66 66 
 				SBML_LIBS=`${PKG_CONFIG} --libs ${SBMLPC}`
67 67 
 			else
68 68 
 				echo "Couldn't find libsbml.pc. Searching for libsbml in candidate directories."
69 69 
 				if test -d /usr/include/sbml
70 
-					then SBML_INCDIR="-I/usr/include/"
70 
+					then SBML_INCDIR="-DHAVE_SBML -I/usr/include/"
71 71 
 					else
72 72 
 						if test -d /usr/local/include/sbml
73 
-							then SBML_INCDIR="-I/usr/local/include/"
73 
+							then SBML_INCDIR="-DHAVE_SBML -I/usr/local/include/"
74 74 
 						fi;
75 
-				fi;
76 
-				CHECK_XML()
77 
-				SBML_INCDIR="$LIBXML_INCDIR $SBML_INCDIR"
78 
-				SBML_LIBS="$XML_LIBS"
75 
+				fi;
79 76 
 		fi;
77 
+		CHECK_XML()
78 
+        SBML_INCDIR="$LIBXML_INCDIR $SBML_INCDIR"
79 
+        SBML_LIBS="$XML_LIBS"
80 80 
 		CPPFLAGS="${CPPFLAGS} ${SBML_INCDIR}"
81 81 
 		PKG_LIBS="${PKG_LIBS} ${SBML_LIBS} -lsbml"
82 82
83 83 
 	else
84 
-		echo 'SBML not found.'; cd src; mv sbml_interface.cpp sbml_interface.c__;
85 
-		mv sbml_interface.h sbml_interface.h__; cd ..;
84 
+		echo 'SBML not found.';
86 85
87 86 
 	if ${XML}
88 87 
 		then
89 88 
 			echo 'libXML2 found'
90 
-			CHECK_XML()
91 
-			CPPFLAGS="${CPPFLAGS} ${LIBXML_INCDIR}"
92 
-			PKG_LIBS="${PKG_LIBS} ${XML_LIBS} -lxml2"
89 
+			CHECK_XML()
93 90 
 		else
94 
-			echo 'XML not found.'; cd src;
95 
-			mv kgml_interface.cpp kgml_interface.c__;  cd ..;
91 
+			echo 'XML not found.';
96 92 
 	fi;
97 93 
 fi;
98 94
... ... 
@@ -102,7 +98,6 @@ AC_SUBST(CPPFLAGS)
102 98 
 AC_SUBST(PKG_LIBS)
103 99
104 100 
 AC_OUTPUT(src/Makevars)
105 
-chmod +x cleanup
106 101
107 102 
 dnl cleanup after configure
108 103 
 mv src/Makevars.in src/_Makevars.in_;
Browse code

Release 0.99.0 Biocunductor submission

amfy10 authored on 10/03/2014 12:16:44
Showing 1 changed files
configure.ac
History View file @ 96e22bf
1 1 
new file mode 100644
... ... 
@@ -0,0 +1,109 @@
1 
+AC_INIT([NetPathMiner]) dnl package name, version
2 
+
3 
+dnl A user-specifiable option
4 
+
5 
+dnl Select an optional include path, from a configure option
6 
+dnl or from an environment variable.
7 
+
8 
+
9 
+
10 
+: ${R_HOME=`R RHOME`}
11 
+if test -z "${R_HOME}"; then
12 
+  echo "could not determine R_HOME"
13 
+  exit 1
14 
+fi
15 
+
16 
+CC=`"${R_HOME}/bin/R" CMD config CC`
17 
+CPP=`"${R_HOME}/bin/R" CMD config CPP`
18 
+CFLAGS=`"${R_HOME}/bin/R" CMD config CFLAGS`
19 
+CPPFLAGS=`"${R_HOME}/bin/R" CMD config CPPFLAGS`
20 
+AC_PROG_CC
21 
+AC_PROG_CPP
22 
+
23 
+AC_CHECK_LIB(xml2, xmlParseFile,, [XML=false])
24 
+AC_CHECK_LIB(sbml, readSBML, , [SBML=false])
25 
+
26 
+
27 
+#!/bin/sh
28 
+if test -d ./src/boost.tar.gz;
29 
+	then
30 
+			echo 'found boost header sources and tar archive;\n using what is there.'
31 
+	else
32 
+		  echo "untarring boost include tree...";
33 
+		  tar -zxf ./src/boost.tar.gz -C ./src;
34 
+fi;
35 
+
36 
+AC_DEFUN([CHECK_XML],[
37 
+	AC_PATH_PROGS(XML_CONFIG, xml2-config)
38 
+	LIBXML_INCDIR=`${XML_CONFIG} --cflags`
39 
+	XML_LIBS=`${XML_CONFIG} --libs`
40 
+])
41 
+
42 
+PKG_LIBS="${LIBS}"
43 
+
44 
+
45 
+if ${SBML}
46 
+	then
47 
+		echo 'libSBML found, finding configuration...';
48 
+		if type "pkg-config" > /dev/null
49 
+			then
50 
+		  		PKG_CONFIG="pkg-config"
51 
+		  		echo "pkg-config tool found"
52 
+			else
53 
+				AC_PATH_PROG(PKG_CONFIG, pkg-config)
54 
+		fi;
55 
+
56 
+		SBMLPC="libsbml"
57 
+		if test -z `${PKG_CONFIG} --exists ${SBMLPC}`
58 
+			then
59 
+				SBMLPC=`locate libsbml.pc`
60 
+		fi;
61 
+
62 
+		if test -n "${SBMLPC}"
63 
+			then
64 
+				echo "libsbml.pc found. Using pkg-config to extract it."
65 
+				SBML_INCDIR=`${PKG_CONFIG} --cflags ${SBMLPC}`
66 
+				SBML_LIBS=`${PKG_CONFIG} --libs ${SBMLPC}`
67 
+			else
68 
+				echo "Couldn't find libsbml.pc. Searching for libsbml in candidate directories."
69 
+				if test -d /usr/include/sbml
70 
+					then SBML_INCDIR="-I/usr/include/"
71 
+					else
72 
+						if test -d /usr/local/include/sbml
73 
+							then SBML_INCDIR="-I/usr/local/include/"
74 
+						fi;
75 
+				fi;
76 
+				CHECK_XML()
77 
+				SBML_INCDIR="$LIBXML_INCDIR $SBML_INCDIR"
78 
+				SBML_LIBS="$XML_LIBS"
79 
+		fi;
80 
+		CPPFLAGS="${CPPFLAGS} ${SBML_INCDIR}"
81 
+		PKG_LIBS="${PKG_LIBS} ${SBML_LIBS} -lsbml"
82 
+
83 
+	else
84 
+		echo 'SBML not found.'; cd src; mv sbml_interface.cpp sbml_interface.c__;
85 
+		mv sbml_interface.h sbml_interface.h__; cd ..;
86 
+
87 
+	if ${XML}
88 
+		then
89 
+			echo 'libXML2 found'
90 
+			CHECK_XML()
91 
+			CPPFLAGS="${CPPFLAGS} ${LIBXML_INCDIR}"
92 
+			PKG_LIBS="${PKG_LIBS} ${XML_LIBS} -lxml2"
93 
+		else
94 
+			echo 'XML not found.'; cd src;
95 
+			mv kgml_interface.cpp kgml_interface.c__;  cd ..;
96 
+	fi;
97 
+fi;
98 
+
99 
+
100 
+dnl subsutitute varialbles in makevars
101 
+AC_SUBST(CPPFLAGS)
102 
+AC_SUBST(PKG_LIBS)
103 
+
104 
+AC_OUTPUT(src/Makevars)
105 
+chmod +x cleanup
106 
+
107 
+dnl cleanup after configure
108 
+mv src/Makevars.in src/_Makevars.in_;
109 
+rm config.*