comparison tool_dependencies.xml @ 6:321cacd4ae43 draft

Add dependencies and settings for sqlite and gdbm, so that python can build its packages for those.

5:fb4d95141633

<?xml version="1.0"?>
<tool_dependency>
  <package name="openssl" version="1.0.1g">
    <repository changeset_revision="23ebff671a20" name="package_openssl" owner="jankanis" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" />
  </package>

  <package name="python3" version="3.4.1">
    <install version="1.0">
      <actions>
        <action type="download_by_url">https://www.python.org/ftp/python/3.4.1/Python-3.4.1.tgz</action>
        <action type="set_environment_for_install">
          <repository changeset_revision="23ebff671a20" name="package_openssl" owner="jankanis" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu">
            <package name="openssl" version="1.0.1g" />
          </repository>
        </action>
        <!--
         Python3 config doesn't search for some optional dependencies
         in non-standard locations. Patch config.py to also look at
         the repositories we just installed above
         -->
        <action type="shell_command">
          patch &lt;&lt; EOF
--- a/setup.py
+++ b/setup.py
@@ -750,10 +750,14 @@
         exts.append( Extension('_socket', ['socketmodule.c'],
                                depends = ['socketmodule.h']) )
         # Detect SSL support for the socket module (via _ssl)
+        CUSTOM_OPENSSL = os.environ.get('OPENSSL_ROOT_DIR')
         search_for_ssl_incs_in = [
                               '/usr/local/ssl/include',
                               '/usr/contrib/ssl/include/'
                              ]
+        if CUSTOM_OPENSSL:
+            search_for_ssl_incs_in.append(os.path.join(CUSTOM_OPENSSL, 'include'))
+        
         ssl_incs = find_file('openssl/ssl.h', inc_dirs,
                              search_for_ssl_incs_in
                              )
@@ -762,10 +766,12 @@
                                ['/usr/kerberos/include'])
             if krb5_h:
                 ssl_incs += krb5_h
-        ssl_libs = find_library_file(self.compiler, 'ssl',lib_dirs,
-                                     ['/usr/local/ssl/lib',
-                                      '/usr/contrib/ssl/lib/'
-                                     ] )
+
+        search_for_ssl_libs_in = ['/usr/local/ssl/lib',
+                                  '/usr/contrib/ssl/lib/']
+        if CUSTOM_OPENSSL:
+            search_for_ssl_libs_in.append(os.path.join(CUSTOM_OPENSSL, 'lib'))
+        ssl_libs = find_library_file(self.compiler, 'ssl', lib_dirs, search_for_ssl_libs_in)
 
         if (ssl_incs is not None and
             ssl_libs is not None):
EOF
        </action>
        <action type="autoconf">--prefix=$INSTALL_DIR --with-ensurepip</action>
        <action type="set_environment">
          <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
          <!-- empty PYTHONPATH, otherwise we will get Galaxy's Python 2 libraries in the Python 3 path-->
          <environment_variable action="set_to" name="PYTHONPATH" />
          <environment_variable action="set_to" name="PYTHONHOME">$INSTALL_DIR</environment_variable>
          <environment_variable action="prepend_to" name="PKG_CONFIG_PATH">$INSTALL_DIR/lib/pkgconfig</environment_variable>
        </action>
      </actions>

6:321cacd4ae43

<?xml version="1.0"?>
<tool_dependency>
  <package name="openssl" version="1.0.1g">
    <repository changeset_revision="23ebff671a20" name="package_openssl" owner="jankanis" toolshed="http://toolshed.g2.bx.psu.edu" />
  </package>

  <package name="sqlite" version="3.8.3">
    <repository changeset_revision="706b1f3b1fc0" name="package_sqlite_3_8_3" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu" />
  </package>

  <package name="gdbm" version="1.11">
    <repository changeset_revision="15e7435c2663" name="package_gdbm_1_11" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu" />
  </package>

  
  <package name="python3" version="3.4.1">
    <install version="1.0">
      <actions>
        <action type="download_by_url">https://www.python.org/ftp/python/3.4.1/Python-3.4.1.tgz</action>
        <action type="set_environment_for_install">
          <repository changeset_revision="23ebff671a20" name="package_openssl" owner="jankanis" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu">
            <package name="openssl" version="1.0.1g" />
          </repository>
          <repository changeset_revision="706b1f3b1fc0" name="package_sqlite_3_8_3" owner="iuc" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu">
            <package name="sqlite" version="3.8.3" />
          </repository>
          <repository changeset_revision="15e7435c2663" name="package_gdbm_1_11" owner="iuc" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu">
            <package name="gdbm" version="1.11" />
          </repository>
        </action>

	<action type="set_environment">
	  <environment_variable action="set_to" name="CFLAGS">$CFLAGS -I$SQLITE_ROOT_DIR/lib -I$GDBM_ROOT_PATH/lib -I$OPENSSL_ROOT_DIR/lib</environment_variable>
	  <environment_variable action="set_to" name="CPPFLAGS">$CPPFLAGS -I$SQLITE_ROOT_DIR/lib -I$GDBM_ROOT_PATH/lib -I$OPENSSL_ROOT_DIR/lib</environment_variable>
	  <environment_variable action="set_to" name="LDFLAGS">$LDFLAGS -L$SQLITE_ROOT_DIR/include -L$GDBM_ROOT_PATH/include -L$OPENSSL_ROOT_DIR/include</environment_variable>
	</action>

        <action type="autoconf">--prefix=$INSTALL_DIR --with-ensurepip --enable-loadable-sqlite-extensions</action>
        <action type="set_environment">
          <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
          <!-- empty PYTHONPATH, otherwise we will get Galaxy's Python 2 libraries in the Python 3 path -->
          <environment_variable action="set_to" name="PYTHONPATH" />
          <environment_variable action="set_to" name="PYTHONHOME">$INSTALL_DIR</environment_variable>
          <environment_variable action="prepend_to" name="PKG_CONFIG_PATH">$INSTALL_DIR/lib/pkgconfig</environment_variable>
        </action>
      </actions>