Index: galaxy-central/database/files/000/dataset_1.dat =================================================================== --- galaxy-central/database/files/000/dataset_1.dat (revision 3) +++ galaxy-central/database/files/000/dataset_1.dat (revision 3) @@ -0,0 +1,2 @@ +1 gene1 +2 gene2 Index: galaxy-central/database/files/000/dataset_2.dat =================================================================== --- galaxy-central/database/files/000/dataset_2.dat (revision 3) +++ galaxy-central/database/files/000/dataset_2.dat (revision 3) @@ -0,0 +1,2 @@ +chr1 gene1 +chr2 gene2 Index: galaxy-central/database/compiled_templates/tool_executed.mako.py =================================================================== --- galaxy-central/database/compiled_templates/tool_executed.mako.py (revision 3) +++ galaxy-central/database/compiled_templates/tool_executed.mako.py (revision 3) @@ -0,0 +1,68 @@ +from mako import runtime, filters, cache +UNDEFINED = runtime.UNDEFINED +__M_dict_builtin = dict +__M_locals_builtin = locals +_magic_number = 5 +_modified_time = 1287725813.3330619 +_template_filename='templates/tool_executed.mako' +_template_uri='tool_executed.mako' +_template_cache=cache.Cache(__name__, _modified_time) +_source_encoding=None +_exports = [] + + +def render_body(context,**pageargs): + context.caller_stack._push_frame() + try: + __M_locals = __M_dict_builtin(pageargs=pageargs) + h = context.get('h', UNDEFINED) + tool = context.get('tool', UNDEFINED) + trans = context.get('trans', UNDEFINED) + out_data = context.get('out_data', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 1 + __M_writer(u'\n\n\n\nGalaxy\n\n\n\n\n\n\n\n\n
\n\n

The following job has been successfully added to the queue:

\n\n') + # SOURCE LINE 51 + for data in out_data.values(): + # SOURCE LINE 52 + __M_writer(u'
') + __M_writer(unicode(data.hid)) + __M_writer(u': ') + __M_writer(unicode(data.name)) + __M_writer(u'
\n') + # SOURCE LINE 54 + __M_writer(u"\n

\nYou can check the status of queued jobs and view the resulting \ndata by refreshing the History pane. When the job has been run\nthe status will change from 'running' to 'finished' if completed \nsuccessfully or 'error' if problems were encountered.\n

\n\n") + # SOURCE LINE 62 + if tool.options.refresh: + # SOURCE LINE 63 + __M_writer(u'
\n') + # SOURCE LINE 65 + __M_writer(u'\n\n\n\n\n\n') + return '' + finally: + context.caller_stack._pop_frame() + + Index: galaxy-central/database/compiled_templates/message.mako.py =================================================================== --- galaxy-central/database/compiled_templates/message.mako.py (revision 3) +++ galaxy-central/database/compiled_templates/message.mako.py (revision 3) @@ -0,0 +1,220 @@ +from mako import runtime, filters, cache +UNDEFINED = runtime.UNDEFINED +__M_dict_builtin = dict +__M_locals_builtin = locals +_magic_number = 5 +_modified_time = 1287725818.341774 +_template_filename=u'templates/message.mako' +_template_uri=u'/message.mako' +_template_cache=cache.Cache(__name__, _modified_time) +_source_encoding=None +_exports = ['body', 'render_msg', 'center_panel', 'init', 'render_large_message', 'javascripts'] + + +# SOURCE LINE 1 + +def inherit(context): + if context.get('use_panels'): + if context.get('webapp'): + webapp = context.get('webapp') + else: + webapp = 'galaxy' + return '/webapps/%s/base_panels.mako' % webapp + else: + return '/base.mako' + + +def _mako_get_namespace(context, name): + try: + return context.namespaces[(__name__, name)] + except KeyError: + _mako_generate_namespaces(context) + return context.namespaces[(__name__, name)] +def _mako_generate_namespaces(context): + pass +def _mako_inherit(template, context): + _mako_generate_namespaces(context) + return runtime._inherit_from(context, (inherit(context)), _template_uri) +def render_body(context,**pageargs): + context.caller_stack._push_frame() + try: + __M_locals = __M_dict_builtin(pageargs=pageargs) + n_ = context.get('n_', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 11 + __M_writer(u'\n') + # SOURCE LINE 12 + __M_writer(u'\n') + # SOURCE LINE 13 + _=n_ + + __M_locals.update(__M_dict_builtin([(__M_key, __M_locals_builtin()[__M_key]) for __M_key in ['_'] if __M_key in __M_locals_builtin()])) + __M_writer(u'\n\n') + # SOURCE LINE 22 + __M_writer(u'\n\n') + # SOURCE LINE 66 + __M_writer(u'\n\n') + # SOURCE LINE 71 + __M_writer(u'\n') + # SOURCE LINE 74 + __M_writer(u'\n\n') + # SOURCE LINE 78 + __M_writer(u'\n\n') + # SOURCE LINE 83 + __M_writer(u'\n\n') + # SOURCE LINE 89 + __M_writer(u'\n\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_body(context): + context.caller_stack._push_frame() + try: + status = context.get('status', UNDEFINED) + message = context.get('message', UNDEFINED) + def render_large_message(message,status): + return render_render_large_message(context,message,status) + __M_writer = context.writer() + # SOURCE LINE 76 + __M_writer(u'\n ') + # SOURCE LINE 77 + __M_writer(unicode(render_large_message( message, status ))) + __M_writer(u'\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_render_msg(context,msg,status='done'): + context.caller_stack._push_frame() + try: + _ = context.get('_', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 86 + __M_writer(u'\n
') + __M_writer(unicode(_(msg))) + __M_writer(u'
\n
\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_center_panel(context): + context.caller_stack._push_frame() + try: + status = context.get('status', UNDEFINED) + message = context.get('message', UNDEFINED) + def render_large_message(message,status): + return render_render_large_message(context,message,status) + __M_writer = context.writer() + # SOURCE LINE 72 + __M_writer(u'\n ') + # SOURCE LINE 73 + __M_writer(unicode(render_large_message( message, status ))) + __M_writer(u'\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_init(context): + context.caller_stack._push_frame() + try: + self = context.get('self', UNDEFINED) + active_view = context.get('active_view', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 15 + __M_writer(u'\n') + # SOURCE LINE 16 + + self.has_left_panel=False + self.has_right_panel=False + self.active_view=active_view + self.message_box_visible=False + + + # SOURCE LINE 21 + __M_writer(u'\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_render_large_message(context,message,status): + context.caller_stack._push_frame() + try: + _ = context.get('_', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 81 + __M_writer(u'\n
') + __M_writer(unicode(_(message))) + __M_writer(u'
\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_javascripts(context): + context.caller_stack._push_frame() + try: + parent = context.get('parent', UNDEFINED) + int = context.get('int', UNDEFINED) + h = context.get('h', UNDEFINED) + app = context.get('app', UNDEFINED) + refresh_frames = context.get('refresh_frames', UNDEFINED) + trans = context.get('trans', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 24 + __M_writer(u'\n ') + # SOURCE LINE 25 + __M_writer(unicode(parent.javascripts())) + __M_writer(u'\n \n') + return '' + finally: + context.caller_stack._pop_frame() + + Index: galaxy-central/database/compiled_templates/webapps/galaxy/base_panels.mako.py =================================================================== --- galaxy-central/database/compiled_templates/webapps/galaxy/base_panels.mako.py (revision 3) +++ galaxy-central/database/compiled_templates/webapps/galaxy/base_panels.mako.py (revision 3) @@ -0,0 +1,298 @@ +from mako import runtime, filters, cache +UNDEFINED = runtime.UNDEFINED +__M_dict_builtin = dict +__M_locals_builtin = locals +_magic_number = 5 +_modified_time = 1287725326.7917881 +_template_filename=u'templates/webapps/galaxy/base_panels.mako' +_template_uri=u'/webapps/galaxy/base_panels.mako' +_template_cache=cache.Cache(__name__, _modified_time) +_source_encoding=None +_exports = ['masthead', 'title'] + + +def _mako_get_namespace(context, name): + try: + return context.namespaces[(__name__, name)] + except KeyError: + _mako_generate_namespaces(context) + return context.namespaces[(__name__, name)] +def _mako_generate_namespaces(context): + pass +def _mako_inherit(template, context): + _mako_generate_namespaces(context) + return runtime._inherit_from(context, u'/base_panels.mako', _template_uri) +def render_body(context,**pageargs): + context.caller_stack._push_frame() + try: + __M_locals = __M_dict_builtin(pageargs=pageargs) + __M_writer = context.writer() + # SOURCE LINE 1 + __M_writer(u'\n\n') + # SOURCE LINE 4 + __M_writer(u'\n\n') + # SOURCE LINE 172 + __M_writer(u'\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_masthead(context): + context.caller_stack._push_frame() + try: + h = context.get('h', UNDEFINED) + app = context.get('app', UNDEFINED) + trans = context.get('trans', UNDEFINED) + def tab(id,display,href,target='_parent',visible=True,extra_class='',menu_options=None): + context.caller_stack._push_frame() + try: + self = context.get('self', UNDEFINED) + len = context.get('len', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 15 + __M_writer(u'\n') + # SOURCE LINE 18 + __M_writer(u' \n ') + # SOURCE LINE 19 + + cls = "tab" + if extra_class: + cls += " " + extra_class + if self.active_view == id: + cls += " active" + style = "" + if not visible: + style = "display: none;" + + + # SOURCE LINE 28 + __M_writer(u'\n \n') + # SOURCE LINE 30 + if href: + # SOURCE LINE 31 + __M_writer(u' ') + __M_writer(unicode(display)) + __M_writer(u'\n') + # SOURCE LINE 32 + else: + # SOURCE LINE 33 + __M_writer(u' ') + __M_writer(unicode(display)) + __M_writer(u'\n') + # SOURCE LINE 35 + if menu_options: + # SOURCE LINE 36 + __M_writer(u'
\n \n
\n') + # SOURCE LINE 57 + __M_writer(u' \n ') + return '' + finally: + context.caller_stack._pop_frame() + __M_writer = context.writer() + # SOURCE LINE 7 + __M_writer(u'\n\n') + # SOURCE LINE 10 + __M_writer(u'
\n \n \n \n \n ') + # SOURCE LINE 58 + __M_writer(u'\n \n\n') + # SOURCE LINE 62 + __M_writer(u' ') + __M_writer(unicode(tab( "analysis", "Analyze Data", h.url_for( controller='/root', action='index' ) ))) + __M_writer(u'\n \n') + # SOURCE LINE 65 + __M_writer(u' ') + __M_writer(unicode(tab( "workflow", "Workflow", h.url_for( controller='/workflow', action='index' ) ))) + __M_writer(u'\n \n') + # SOURCE LINE 68 + __M_writer(u' ') + + menu_options = [ + [ 'Data Libraries', h.url_for( controller='/library', action='index') ], + None, + [ 'Published Histories', h.url_for( controller='/history', action='list_published' ) ], + [ 'Published Workflows', h.url_for( controller='/workflow', action='list_published' ) ], + [ 'Published Visualizations', h.url_for( controller='/visualization', action='list_published' ) ], + [ 'Published Pages', h.url_for( controller='/page', action='list_published' ) ] + ] + tab( "shared", "Shared Data", h.url_for( controller='/library', action='index'), menu_options=menu_options ) + + + # SOURCE LINE 78 + __M_writer(u'\n \n') + # SOURCE LINE 81 + __M_writer(u' ') + + menu_options = [ + [ 'Sequencing Requests', h.url_for( controller='/requests', action='index' ) ], + [ 'Find Samples', h.url_for( controller='/requests', action='find_samples_index' ) ], + [ 'Help', app.config.get( "lims_doc_url", "http://main.g2.bx.psu.edu/u/rkchak/p/sts" ), "galaxy_main" ] + ] + tab( "lab", "Lab", None, menu_options=menu_options, visible=( trans.user and trans.user.requests ) ) + + + # SOURCE LINE 88 + __M_writer(u'\n\n') + # SOURCE LINE 91 + if app.config.get_bool( 'enable_tracks', False ): + # SOURCE LINE 92 + __M_writer(u' ') + + menu_options = [ + ['New Track Browser', h.url_for( controller='/tracks', action='index' ) ], + ['Saved Visualizations', h.url_for( controller='/visualization', action='list' ) ] + ] + tab( "visualization", "Visualization", h.url_for( controller='/visualization', action='list'), menu_options=menu_options ) + + + # SOURCE LINE 98 + __M_writer(u'\n') + # SOURCE LINE 100 + __M_writer(u'\n') + # SOURCE LINE 102 + __M_writer(u' ') + __M_writer(unicode(tab( "admin", "Admin", h.url_for( controller='/admin', action='index' ), extra_class="admin-only", visible=( trans.user and app.config.is_admin_user( trans.user ) ) ))) + __M_writer(u'\n \n') + # SOURCE LINE 105 + __M_writer(u' ') + + menu_options = [ + ['Email comments, bug reports, or suggestions', app.config.get( "bugs_email", "mailto:galaxy-bugs@bx.psu.edu" ) ], + ['Galaxy Wiki', app.config.get( "wiki_url", "http://bitbucket.org/galaxy/galaxy-central/wiki" ), "_blank" ], + ['Video tutorials (screencasts)', app.config.get( "screencasts_url", "http://galaxycast.org" ), "_blank" ], + ['How to Cite Galaxy', app.config.get( "screencasts_url", "http://bitbucket.org/galaxy/galaxy-central/wiki/Citations" ), "_blank" ] + ] + tab( "help", "Help", None, menu_options=menu_options) + + + # SOURCE LINE 113 + __M_writer(u'\n \n') + # SOURCE LINE 116 + __M_writer(u' ') + + # Menu for user who is not logged in. + menu_options = [ [ "Login", h.url_for( controller='/user', action='login' ), "galaxy_main" ] ] + if app.config.allow_user_creation: + menu_options.append( [ "Register", h.url_for( controller='/user', action='create' ), "galaxy_main" ] ) + extra_class = "loggedout-only" + visible = ( trans.user == None ) + tab( "user", "User", None, visible=visible, menu_options=menu_options ) + + # Menu for user who is logged in. + if trans.user: + email = trans.user.email + else: + email = "" + menu_options = [ [ '
  • Logged in as %s
    • ' % email ] ] + if app.config.use_remote_user: + if app.config.remote_user_logout_href: + menu_options.append( [ 'Logout', app.config.remote_user_logout_href, "galaxy_main" ] ) + else: + menu_options.append( [ 'Preferences', h.url_for( controller='/user', action='index' ), "galaxy_main" ] ) + if app.config.get_bool( 'enable_tracks', False ): + menu_options.append( [ 'Custom Builds', h.url_for( controller='/user', action='dbkeys' ), "galaxy_main" ] ) + if app.config.require_login: + logout_url = h.url_for( controller='/root', action='index', m_c='user', m_a='logout' ) + else: + logout_url = h.url_for( controller='/user', action='logout' ) + menu_options.append( [ 'Logout', logout_url, "_top" ] ) + menu_options.append( None ) + menu_options.append( [ 'Saved Histories', h.url_for( controller='/history', action='list' ), "galaxy_main" ] ) + menu_options.append( [ 'Saved Datasets', h.url_for( controller='/dataset', action='list' ), "galaxy_main" ] ) + if app.config.get_bool( 'enable_pages', False ): + menu_options.append( [ 'Saved Pages', h.url_for( controller='/page', action='list' ), "_top" ] ) + if app.config.enable_api: + menu_options.append( [ 'API Keys', h.url_for( controller='/user', action='api_keys' ), "galaxy_main" ] ) + + extra_class = "loggedin-only" + visible = ( trans.user != None ) + tab( "user", "User", None, visible=visible, menu_options=menu_options ) + + + # SOURCE LINE 154 + __M_writer(u'\n \n \n
    \n \n
    \n \n') + # SOURCE LINE 162 + __M_writer(u'
    \n \n \n Galaxy\n') + # SOURCE LINE 166 + if app.config.brand: + # SOURCE LINE 167 + __M_writer(u" / ") + __M_writer(unicode(app.config.brand)) + __M_writer(u'\n') + # SOURCE LINE 169 + __M_writer(u' \n
    \n \n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_title(context): + context.caller_stack._push_frame() + try: + __M_writer = context.writer() + # SOURCE LINE 4 + __M_writer(u'Galaxy') + return '' + finally: + context.caller_stack._pop_frame() + + Index: galaxy-central/database/compiled_templates/root/index.mako.py =================================================================== --- galaxy-central/database/compiled_templates/root/index.mako.py (revision 3) +++ galaxy-central/database/compiled_templates/root/index.mako.py (revision 3) @@ -0,0 +1,259 @@ +from mako import runtime, filters, cache +UNDEFINED = runtime.UNDEFINED +__M_dict_builtin = dict +__M_locals_builtin = locals +_magic_number = 5 +_modified_time = 1287725326.7005551 +_template_filename='templates/root/index.mako' +_template_uri='root/index.mako' +_template_cache=cache.Cache(__name__, _modified_time) +_source_encoding=None +_exports = ['init', 'left_panel', 'center_panel', 'late_javascripts', 'right_panel'] + + +def _mako_get_namespace(context, name): + try: + return context.namespaces[(__name__, name)] + except KeyError: + _mako_generate_namespaces(context) + return context.namespaces[(__name__, name)] +def _mako_generate_namespaces(context): + pass +def _mako_inherit(template, context): + _mako_generate_namespaces(context) + return runtime._inherit_from(context, u'/webapps/galaxy/base_panels.mako', _template_uri) +def render_body(context,**pageargs): + context.caller_stack._push_frame() + try: + __M_locals = __M_dict_builtin(pageargs=pageargs) + __M_writer = context.writer() + # SOURCE LINE 1 + __M_writer(u'\n\n') + # SOURCE LINE 156 + __M_writer(u'\n\n') + # SOURCE LINE 176 + __M_writer(u'\n\n') + # SOURCE LINE 190 + __M_writer(u'\n\n') + # SOURCE LINE 212 + __M_writer(u'\n\n') + # SOURCE LINE 226 + __M_writer(u'\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_init(context): + context.caller_stack._push_frame() + try: + self = context.get('self', UNDEFINED) + trans = context.get('trans', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 158 + __M_writer(u'\n') + # SOURCE LINE 159 + + if trans.app.config.cloud_controller_instance: + self.has_left_panel=False + self.has_right_panel=False + self.active_view="cloud" + else: + self.has_left_panel=True + self.has_right_panel=True + self.active_view="analysis" + + + # SOURCE LINE 168 + __M_writer(u'\n') + # SOURCE LINE 169 + if trans.app.config.require_login and not trans.user: + # SOURCE LINE 170 + __M_writer(u' \n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_left_panel(context): + context.caller_stack._push_frame() + try: + h = context.get('h', UNDEFINED) + _ = context.get('_', UNDEFINED) + n_ = context.get('n_', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 178 + __M_writer(u'\n
    \n
    \n
    \n ') + # SOURCE LINE 182 + __M_writer(unicode(_('Options'))) + __M_writer(u'\n
    \n ') + # SOURCE LINE 184 + __M_writer(unicode(n_('Tools'))) + __M_writer(u'\n
    \n
    \n
    \n \n
    \n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_center_panel(context): + context.caller_stack._push_frame() + try: + tool_id = context.get('tool_id', UNDEFINED) + m_c = context.get('m_c', UNDEFINED) + h = context.get('h', UNDEFINED) + m_a = context.get('m_a', UNDEFINED) + workflow_id = context.get('workflow_id', UNDEFINED) + trans = context.get('trans', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 192 + __M_writer(u'\n\n') + # SOURCE LINE 195 + __M_writer(u' ') + + if trans.app.config.require_login and not trans.user: + center_url = h.url_for( controller='user', action='login' ) + elif tool_id is not None: + center_url = h.url_for( 'tool_runner', tool_id=tool_id, from_noframe=True ) + elif workflow_id is not None: + center_url = h.url_for( controller='workflow', action='run', id=workflow_id ) + elif m_c is not None: + center_url = h.url_for( controller=m_c, action=m_a ) + elif trans.app.config.cloud_controller_instance: + center_url = h.url_for( controller='cloud', action='list' ) + else: + center_url = h.url_for( '/static/welcome.html' ) + + + # SOURCE LINE 208 + __M_writer(u'\n \n \n\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_late_javascripts(context): + context.caller_stack._push_frame() + try: + h = context.get('h', UNDEFINED) + trans = context.get('trans', UNDEFINED) + parent = context.get('parent', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 3 + __M_writer(u'\n ') + # SOURCE LINE 4 + __M_writer(unicode(parent.late_javascripts())) + __M_writer(u'\n \n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_right_panel(context): + context.caller_stack._push_frame() + try: + h = context.get('h', UNDEFINED) + _ = context.get('_', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 214 + __M_writer(u'\n
    \n
    \n
    \n ') + __M_writer(unicode(_('Options'))) + __M_writer(u'\n
    \n
    ') + # SOURCE LINE 220 + __M_writer(unicode(_('History'))) + __M_writer(u'
    \n
    \n
    \n
    \n \n
    \n') + return '' + finally: + context.caller_stack._pop_frame() + + Index: galaxy-central/database/compiled_templates/root/history_common.mako.py =================================================================== --- galaxy-central/database/compiled_templates/root/history_common.mako.py (revision 3) +++ galaxy-central/database/compiled_templates/root/history_common.mako.py (revision 3) @@ -0,0 +1,410 @@ +from mako import runtime, filters, cache +UNDEFINED = runtime.UNDEFINED +__M_dict_builtin = dict +__M_locals_builtin = locals +_magic_number = 5 +_modified_time = 1287725327.4199979 +_template_filename=u'templates/root/history_common.mako' +_template_uri=u'root/history_common.mako' +_template_cache=cache.Cache(__name__, _modified_time) +_source_encoding=None +_exports = ['render_dataset'] + + +def render_body(context,**pageargs): + context.caller_stack._push_frame() + try: + __M_locals = __M_dict_builtin(pageargs=pageargs) + n_ = context.get('n_', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 1 + _=n_ + + __M_locals.update(__M_dict_builtin([(__M_key, __M_locals_builtin()[__M_key]) for __M_key in ['_'] if __M_key in __M_locals_builtin()])) + __M_writer(u'\n') + # SOURCE LINE 208 + __M_writer(u'\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_render_dataset(context,data,hid,show_deleted_on_refresh=False,for_editing=True): + context.caller_stack._push_frame() + try: + h = context.get('h', UNDEFINED) + app = context.get('app', UNDEFINED) + def render_dataset(data,hid,show_deleted_on_refresh=False,for_editing=True): + return render_render_dataset(context,data,hid,show_deleted_on_refresh,for_editing) + request = context.get('request', UNDEFINED) + len = context.get('len', UNDEFINED) + enumerate = context.get('enumerate', UNDEFINED) + trans = context.get('trans', UNDEFINED) + _ = context.get('_', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 3 + __M_writer(u'\n \n ') + # SOURCE LINE 5 + + if data.state in ['no state','',None]: + data_state = "queued" + else: + data_state = data.state + current_user_roles = trans.get_current_user_roles() + + + # SOURCE LINE 11 + __M_writer(u'\n') + # SOURCE LINE 12 + if not trans.user_is_admin() and not trans.app.security_agent.can_access_dataset( current_user_roles, data.dataset ): + # SOURCE LINE 13 + __M_writer(u'
    \n') + # SOURCE LINE 14 + else: + # SOURCE LINE 15 + __M_writer(u'
    \n') + # SOURCE LINE 17 + __M_writer(u' \n') + # SOURCE LINE 18 + if data.deleted: + # SOURCE LINE 19 + __M_writer(u'
    \n This dataset has been deleted. Click here to undelete.\n
    \n') + # SOURCE LINE 23 + __M_writer(u'\n') + # SOURCE LINE 24 + if data.visible is False: + # SOURCE LINE 25 + __M_writer(u'
    \n This dataset has been hidden. Click here to unhide.\n
    \n') + # SOURCE LINE 29 + __M_writer(u'\n\n') + # SOURCE LINE 32 + __M_writer(u'
    \n
    \n') + # SOURCE LINE 34 + if data_state == "upload": + # SOURCE LINE 38 + __M_writer(u" \n") + # SOURCE LINE 39 + if for_editing: + # SOURCE LINE 40 + __M_writer(u" \n") + # SOURCE LINE 42 + else: + # SOURCE LINE 43 + __M_writer(u' ') + + dataset_id = trans.security.encode_id( data.id ) + if for_editing: + display_url = h.url_for( controller='dataset', action='display', dataset_id=dataset_id, preview=True, filename='' ) + else: + # Get URL for display only. + if data.history.user and data.history.user.username: + display_url = h.url_for( controller='dataset', action='display_by_username_and_slug', + username=data.history.user.username, slug=dataset_id ) + else: + # HACK: revert to for_editing display URL when there is no user/username. This should only happen when + # there's no user/username because dataset is being displayed by history/view after error reported. + # There are no security concerns here because both dataset/display and dataset/display_by_username_and_slug + # check user permissions (to the same degree) before displaying. + display_url = h.url_for( controller='dataset', action='display', dataset_id=dataset_id, preview=True, filename='' ) + + + # SOURCE LINE 58 + __M_writer(u'\n \n') + # SOURCE LINE 64 + if for_editing: + # SOURCE LINE 65 + __M_writer(u' \n') + # SOURCE LINE 68 + if for_editing: + # SOURCE LINE 69 + __M_writer(u' \n') + # SOURCE LINE 71 + __M_writer(u'
    \n \n ') + # SOURCE LINE 73 + __M_writer(unicode(hid)) + __M_writer(u': ') + __M_writer(unicode(data.display_name())) + __M_writer(u'\n
    \n \n') + # SOURCE LINE 77 + __M_writer(u' \n
    \n') + # SOURCE LINE 79 + if not trans.user_is_admin() and not trans.app.security_agent.can_access_dataset( current_user_roles, data.dataset ): + # SOURCE LINE 80 + __M_writer(u'
    You do not have permission to view this dataset.
    \n') + # SOURCE LINE 81 + elif data_state == "upload": + # SOURCE LINE 82 + __M_writer(u'
    Dataset is uploading
    \n') + # SOURCE LINE 83 + elif data_state == "queued": + # SOURCE LINE 84 + __M_writer(u'
    ') + __M_writer(unicode(_('Job is waiting to run'))) + __M_writer(u'
    \n') + # SOURCE LINE 85 + elif data_state == "running": + # SOURCE LINE 86 + __M_writer(u'
    ') + __M_writer(unicode(_('Job is currently running'))) + __M_writer(u'
    \n') + # SOURCE LINE 87 + elif data_state == "error": + # SOURCE LINE 88 + __M_writer(u'
    \n An error occurred running this job: ') + # SOURCE LINE 89 + __M_writer(unicode(data.display_info().strip())) + __M_writer(u'\n
    \n
    \n \n \n
    \n') + # SOURCE LINE 95 + elif data_state == "discarded": + # SOURCE LINE 96 + __M_writer(u'
    \n The job creating this dataset was cancelled before completion.\n
    \n') + # SOURCE LINE 99 + elif data_state == 'setting_metadata': + # SOURCE LINE 100 + __M_writer(u'
    ') + __M_writer(unicode(_('Metadata is being Auto-Detected.'))) + __M_writer(u'
    \n') + # SOURCE LINE 101 + elif data_state == "empty": + # SOURCE LINE 102 + __M_writer(u'
    ') + __M_writer(unicode(_('No data: '))) + __M_writer(u'') + __M_writer(unicode(data.display_info())) + __M_writer(u'
    \n') + # SOURCE LINE 103 + elif data_state in [ "ok", "failed_metadata" ]: + # SOURCE LINE 104 + if data_state == "failed_metadata": + # SOURCE LINE 105 + __M_writer(u'
    \n An error occurred setting the metadata for this dataset. You may be able to set it manually or retry auto-detection.\n
    \n') + # SOURCE LINE 109 + __M_writer(u'
    \n ') + # SOURCE LINE 110 + __M_writer(unicode(data.blurb)) + __M_writer(u',\n format: ') + __M_writer(unicode(data.ext)) + __M_writer(u', \n database:\n') + # SOURCE LINE 113 + if data.dbkey == '?': + # SOURCE LINE 114 + __M_writer(u' ') + __M_writer(unicode(_(data.dbkey))) + __M_writer(u'\n') + # SOURCE LINE 115 + else: + # SOURCE LINE 116 + __M_writer(u' ') + __M_writer(unicode(_(data.dbkey))) + __M_writer(u'\n') + # SOURCE LINE 118 + __M_writer(u'
    \n
    ') + # SOURCE LINE 119 + __M_writer(unicode(_('Info: '))) + __M_writer(unicode(data.display_info())) + __M_writer(u'
    \n
    \n ') + # SOURCE LINE 121 + dataset_id=trans.security.encode_id( data.id ) + + __M_writer(u'\n') + # SOURCE LINE 122 + if data.has_data(): + # SOURCE LINE 123 + __M_writer(u' \n') + # SOURCE LINE 124 + if for_editing: + # SOURCE LINE 125 + __M_writer(u' \n') + # SOURCE LINE 126 + if app.config.get_bool( 'enable_tracks', False ) and data.ext in app.datatypes_registry.get_available_tracks(): + # SOURCE LINE 127 + __M_writer(u' \n') + # SOURCE LINE 131 + if trans.user: + # SOURCE LINE 132 + __M_writer(u'
    \n \n \n
    \n
    \n \n \n \n') + # SOURCE LINE 147 + else: + # SOURCE LINE 150 + __M_writer(u'
    \n') + # SOURCE LINE 152 + __M_writer(u' \t\t
    \n') + # SOURCE LINE 153 + for display_app in data.datatype.get_display_types(): + # SOURCE LINE 154 + __M_writer(u' ') + target_frame, display_links = data.datatype.get_display_links( data, display_app, app, request.base ) + + __M_writer(u'\n') + # SOURCE LINE 155 + if len( display_links ) > 0: + # SOURCE LINE 156 + __M_writer(u' | ') + __M_writer(unicode(data.datatype.get_display_label(display_app))) + __M_writer(u'\n') + # SOURCE LINE 157 + for display_name, display_link in display_links: + # SOURCE LINE 158 + __M_writer(u' ') + __M_writer(unicode(_(display_name))) + __M_writer(u' \n') + # SOURCE LINE 162 + for display_app in data.get_display_applications( trans ).itervalues(): + # SOURCE LINE 163 + __M_writer(u' | ') + __M_writer(unicode(display_app.name)) + __M_writer(u' \n') + # SOURCE LINE 164 + for link_app in display_app.links.itervalues(): + # SOURCE LINE 165 + __M_writer(u' ') + __M_writer(unicode(_(link_app.name))) + __M_writer(u' \n') + # SOURCE LINE 168 + elif for_editing: + # SOURCE LINE 169 + __M_writer(u' \n') + # SOURCE LINE 171 + __M_writer(u' \n
    \n') + # SOURCE LINE 173 + if data.peek != "no peek": + # SOURCE LINE 174 + __M_writer(u' 
    ')
+                __M_writer(unicode(_(data.display_peek())))
+                __M_writer(u'
    \n') + # SOURCE LINE 176 + else: + # SOURCE LINE 177 + __M_writer(u'
    ') + __M_writer(unicode(_('Error: unknown dataset state "%s".') % data_state)) + __M_writer(u'
    \n') + # SOURCE LINE 179 + __M_writer(u' \n') + # SOURCE LINE 181 + __M_writer(u' \n') + # SOURCE LINE 182 + if len( data.children ) > 0: + # SOURCE LINE 185 + __M_writer(u' ') + + children = [] + for child in data.children: + if child.visible: + children.append( child ) + + + # SOURCE LINE 190 + __M_writer(u'\n') + # SOURCE LINE 191 + if len( children ) > 0: + # SOURCE LINE 192 + __M_writer(u'
    \n There are ') + # SOURCE LINE 193 + __M_writer(unicode(len( children ))) + __M_writer(u' secondary datasets.\n') + # SOURCE LINE 194 + for idx, child in enumerate(children): + # SOURCE LINE 195 + __M_writer(u' ') + __M_writer(unicode(render_dataset( child, idx + 1, show_deleted_on_refresh = show_deleted_on_refresh ))) + __M_writer(u'\n') + # SOURCE LINE 197 + __M_writer(u'
    \n') + # SOURCE LINE 200 + __M_writer(u'\n
    \n\n
    \n \n \n
    \n\n') + return '' + finally: + context.caller_stack._pop_frame() + + Index: galaxy-central/database/compiled_templates/root/history_item.mako.py =================================================================== --- galaxy-central/database/compiled_templates/root/history_item.mako.py (revision 3) +++ galaxy-central/database/compiled_templates/root/history_item.mako.py (revision 3) @@ -0,0 +1,43 @@ +from mako import runtime, filters, cache +UNDEFINED = runtime.UNDEFINED +__M_dict_builtin = dict +__M_locals_builtin = locals +_magic_number = 5 +_modified_time = 1287725817.5901711 +_template_filename='templates/root/history_item.mako' +_template_uri='root/history_item.mako' +_template_cache=cache.Cache(__name__, _modified_time) +_source_encoding=None +_exports = [] + + +def _mako_get_namespace(context, name): + try: + return context.namespaces[(__name__, name)] + except KeyError: + _mako_generate_namespaces(context) + return context.namespaces[(__name__, name)] +def _mako_generate_namespaces(context): + # SOURCE LINE 1 + ns = runtime.Namespace('__anon_0x10aacc110', context._clean_inheritance_tokens(), templateuri=u'history_common.mako', callables=None, calling_uri=_template_uri, module=None) + context.namespaces[(__name__, '__anon_0x10aacc110')] = ns + +def render_body(context,**pageargs): + context.caller_stack._push_frame() + try: + __M_locals = __M_dict_builtin(pageargs=pageargs) + _import_ns = {} + _mako_get_namespace(context, '__anon_0x10aacc110')._populate(_import_ns, [u'render_dataset']) + hid = _import_ns.get('hid', context.get('hid', UNDEFINED)) + data = _import_ns.get('data', context.get('data', UNDEFINED)) + render_dataset = _import_ns.get('render_dataset', context.get('render_dataset', UNDEFINED)) + __M_writer = context.writer() + __M_writer(u'\n\n') + # SOURCE LINE 3 + __M_writer(unicode(render_dataset( data, hid ))) + __M_writer(u' \n') + return '' + finally: + context.caller_stack._pop_frame() + + Index: galaxy-central/database/compiled_templates/root/history.mako.py =================================================================== --- galaxy-central/database/compiled_templates/root/history.mako.py (revision 3) +++ galaxy-central/database/compiled_templates/root/history.mako.py (revision 3) @@ -0,0 +1,245 @@ +from mako import runtime, filters, cache +UNDEFINED = runtime.UNDEFINED +__M_dict_builtin = dict +__M_locals_builtin = locals +_magic_number = 5 +_modified_time = 1287725327.3004439 +_template_filename='templates/root/history.mako' +_template_uri='root/history.mako' +_template_cache=cache.Cache(__name__, _modified_time) +_source_encoding=None +_exports = [] + + +def _mako_get_namespace(context, name): + try: + return context.namespaces[(__name__, name)] + except KeyError: + _mako_generate_namespaces(context) + return context.namespaces[(__name__, name)] +def _mako_generate_namespaces(context): + # SOURCE LINE 364 + ns = runtime.Namespace('__anon_0x110c0db10', context._clean_inheritance_tokens(), templateuri=u'../tagging_common.mako', callables=None, calling_uri=_template_uri, module=None) + context.namespaces[(__name__, '__anon_0x110c0db10')] = ns + + # SOURCE LINE 365 + ns = runtime.Namespace('__anon_0x110c0dc10', context._clean_inheritance_tokens(), templateuri=u'history_common.mako', callables=None, calling_uri=_template_uri, module=None) + context.namespaces[(__name__, '__anon_0x110c0dc10')] = ns + +def render_body(context,**pageargs): + context.caller_stack._push_frame() + try: + __M_locals = __M_dict_builtin(pageargs=pageargs) + _import_ns = {} + _mako_get_namespace(context, '__anon_0x110c0db10')._populate(_import_ns, [u'render_individual_tagging_element']) + _mako_get_namespace(context, '__anon_0x110c0dc10')._populate(_import_ns, [u'render_dataset']) + datasets = _import_ns.get('datasets', context.get('datasets', UNDEFINED)) + show_deleted = _import_ns.get('show_deleted', context.get('show_deleted', UNDEFINED)) + h = _import_ns.get('h', context.get('h', UNDEFINED)) + reversed = _import_ns.get('reversed', context.get('reversed', UNDEFINED)) + render_dataset = _import_ns.get('render_dataset', context.get('render_dataset', UNDEFINED)) + trans = _import_ns.get('trans', context.get('trans', UNDEFINED)) + dict = _import_ns.get('dict', context.get('dict', UNDEFINED)) + show_hidden = _import_ns.get('show_hidden', context.get('show_hidden', UNDEFINED)) + render_individual_tagging_element = _import_ns.get('render_individual_tagging_element', context.get('render_individual_tagging_element', UNDEFINED)) + n_ = _import_ns.get('n_', context.get('n_', UNDEFINED)) + hda_id = _import_ns.get('hda_id', context.get('hda_id', UNDEFINED)) + bool = _import_ns.get('bool', context.get('bool', UNDEFINED)) + annotation = _import_ns.get('annotation', context.get('annotation', UNDEFINED)) + history = _import_ns.get('history', context.get('history', UNDEFINED)) + __M_writer = context.writer() + # SOURCE LINE 1 + _=n_ + + __M_locals.update(__M_dict_builtin([(__M_key, __M_locals_builtin()[__M_key]) for __M_key in ['_'] if __M_key in __M_locals_builtin()])) + __M_writer(u'\n\n\n\n\n\n') + # SOURCE LINE 7 + __M_writer(unicode(_('Galaxy History'))) + __M_writer(u'\n\n') + # SOURCE LINE 10 + if bool( [ data for data in history.active_datasets if data.state in ['running', 'queued', '', None ] ] ): + # SOURCE LINE 11 + __M_writer(u'\n') + # SOURCE LINE 13 + __M_writer(u'\n\n\n\n') + # SOURCE LINE 17 + __M_writer(unicode(h.css( "base", "history", "autocomplete_tagging" ))) + __M_writer(u'\n') + # SOURCE LINE 18 + __M_writer(unicode(h.js( "jquery", "jquery.tipsy", "galaxy.base", "json2", "class", "jquery.jstore", "jquery.autocomplete", "autocomplete_tagging" ))) + __M_writer(u'\n\n\n\n\n\n\n\n\n\n\n\n\n
    \n\n') + # SOURCE LINE 335 + if show_deleted: + # SOURCE LINE 336 + __M_writer(u'
    \n ') + __M_writer(unicode(_('hide deleted'))) + __M_writer(u'\n
    \n') + # SOURCE LINE 340 + __M_writer(u'\n') + # SOURCE LINE 341 + if show_hidden: + # SOURCE LINE 342 + __M_writer(u'
    \n ') + __M_writer(unicode(_('hide hidden'))) + __M_writer(u'\n
    \n') + # SOURCE LINE 346 + __M_writer(u'\n\n\n') + # SOURCE LINE 357 + if history.deleted: + # SOURCE LINE 358 + __M_writer(u'
    \n ') + # SOURCE LINE 359 + __M_writer(unicode(_('You are currently viewing a deleted history!'))) + __M_writer(u'\n
    \n

    \n') + # SOURCE LINE 363 + __M_writer(u'\n') + # SOURCE LINE 364 + __M_writer(u'\n') + # SOURCE LINE 365 + __M_writer(u'\n\n') + # SOURCE LINE 367 + if trans.get_user() is not None: + # SOURCE LINE 368 + __M_writer(u'
    \n') + # SOURCE LINE 370 + __M_writer(u' \n \n') + # SOURCE LINE 376 + __M_writer(u' \n \n
    \n') + # SOURCE LINE 391 + __M_writer(u'\n') + # SOURCE LINE 392 + if not datasets: + # SOURCE LINE 393 + __M_writer(u'\n
    \n\n') + # SOURCE LINE 396 + else: + # SOURCE LINE 397 + __M_writer(u'\n') + # SOURCE LINE 399 + for data in reversed( datasets ): + # SOURCE LINE 400 + if data.visible or show_hidden: + # SOURCE LINE 401 + __M_writer(u'
    \n ') + # SOURCE LINE 402 + __M_writer(unicode(render_dataset( data, data.hid, show_deleted_on_refresh = show_deleted, for_editing = True ))) + __M_writer(u'\n
    \n') + # SOURCE LINE 406 + __M_writer(u'\n \n\n\n\n') + return '' + finally: + context.caller_stack._pop_frame() + + Index: galaxy-central/database/compiled_templates/root/tool_menu.mako.py =================================================================== --- galaxy-central/database/compiled_templates/root/tool_menu.mako.py (revision 3) +++ galaxy-central/database/compiled_templates/root/tool_menu.mako.py (revision 3) @@ -0,0 +1,333 @@ +from mako import runtime, filters, cache +UNDEFINED = runtime.UNDEFINED +__M_dict_builtin = dict +__M_locals_builtin = locals +_magic_number = 5 +_modified_time = 1287725327.091922 +_template_filename='templates/root/tool_menu.mako' +_template_uri='/root/tool_menu.mako' +_template_cache=cache.Cache(__name__, _modified_time) +_source_encoding=None +_exports = ['render_label', 'render_tool', 'render_workflow'] + + +def render_body(context,**pageargs): + context.caller_stack._push_frame() + try: + __M_locals = __M_dict_builtin(pageargs=pageargs) + _ = context.get('_', UNDEFINED) + h = context.get('h', UNDEFINED) + def render_label(label): + return render_render_label(context.locals_(__M_locals),label) + t = context.get('t', UNDEFINED) + str = context.get('str', UNDEFINED) + recent_tools = context.get('recent_tools', UNDEFINED) + toolbox = context.get('toolbox', UNDEFINED) + trans = context.get('trans', UNDEFINED) + def render_tool(tool,section): + return render_render_tool(context.locals_(__M_locals),tool,section) + def render_workflow(key,workflow,section): + return render_render_workflow(context.locals_(__M_locals),key,workflow,section) + __M_writer = context.writer() + # SOURCE LINE 25 + __M_writer(u'\n\n') + # SOURCE LINE 37 + __M_writer(u'\n\n') + # SOURCE LINE 44 + __M_writer(u'\n\n\n\n \n ') + # SOURCE LINE 49 + __M_writer(unicode(_('Galaxy Tools'))) + __M_writer(u'\n \n \n \n\n') + # SOURCE LINE 55 + __M_writer(u' ') + __M_writer(unicode(h.js( "jquery", "galaxy.base", "json2" ))) + __M_writer(u'\n\n \n \n\n \n
    \n \n') + # SOURCE LINE 243 + __M_writer(u' ') + + show_tool_search = False + if trans.user: + show_tool_search = trans.user.preferences.get( "show_tool_search", "False" ) + + if show_tool_search == "True": + display = "block" + else: + display = "none" + + + __M_locals.update(__M_dict_builtin([(__M_key, __M_locals_builtin()[__M_key]) for __M_key in ['display','show_tool_search'] if __M_key in __M_locals_builtin()])) + # SOURCE LINE 252 + __M_writer(u'\n \n \n') + # SOURCE LINE 259 + if trans.user: + # SOURCE LINE 260 + __M_writer(u' ') + + if trans.user.preferences.get( 'show_recently_used_menu', 'False' ) == 'True': + display = "block" + pref_class = "user_pref_visible" + else: + display = "none" + pref_class = "user_pref_hidden" + + + __M_locals.update(__M_dict_builtin([(__M_key, __M_locals_builtin()[__M_key]) for __M_key in ['pref_class','display'] if __M_key in __M_locals_builtin()])) + # SOURCE LINE 267 + __M_writer(u'\n
    \n
    \n Recently Used\n
    \n
    \n
    \n') + # SOURCE LINE 275 + for tool in recent_tools: + # SOURCE LINE 276 + __M_writer(u' ') + __M_writer(unicode(render_tool( tool, True ))) + __M_writer(u'\n') + # SOURCE LINE 278 + __M_writer(u'
    \n
    \n
    \n
    \n') + # SOURCE LINE 283 + __M_writer(u' \n') + # SOURCE LINE 285 + for key, val in toolbox.tool_panel.items(): + # SOURCE LINE 286 + __M_writer(u'
    \n') + # SOURCE LINE 287 + if key.startswith( 'tool' ): + # SOURCE LINE 288 + __M_writer(u' ') + __M_writer(unicode(render_tool( val, False ))) + __M_writer(u'\n') + # SOURCE LINE 289 + elif key.startswith( 'workflow' ): + # SOURCE LINE 290 + __M_writer(u' ') + __M_writer(unicode(render_workflow( key, val, False ))) + __M_writer(u'\n') + # SOURCE LINE 291 + elif key.startswith( 'section' ): + # SOURCE LINE 292 + __M_writer(u' ') + section = val + + __M_locals.update(__M_dict_builtin([(__M_key, __M_locals_builtin()[__M_key]) for __M_key in ['section'] if __M_key in __M_locals_builtin()])) + __M_writer(u'\n
    \n ') + # SOURCE LINE 294 + __M_writer(unicode(section.name)) + __M_writer(u'\n
    \n
    \n
    \n') + # SOURCE LINE 298 + for section_key, section_val in section.elems.items(): + # SOURCE LINE 299 + if section_key.startswith( 'tool' ): + # SOURCE LINE 300 + __M_writer(u' ') + __M_writer(unicode(render_tool( section_val, True ))) + __M_writer(u'\n') + # SOURCE LINE 301 + elif section_key.startswith( 'workflow' ): + # SOURCE LINE 302 + __M_writer(u' ') + __M_writer(unicode(render_workflow( section_key, section_val, True ))) + __M_writer(u'\n') + # SOURCE LINE 303 + elif section_key.startswith( 'label' ): + # SOURCE LINE 304 + __M_writer(u' ') + __M_writer(unicode(render_label( section_val ))) + __M_writer(u'\n') + # SOURCE LINE 307 + __M_writer(u'
    \n
    \n') + # SOURCE LINE 309 + elif key.startswith( 'label' ): + # SOURCE LINE 310 + __M_writer(u' ') + __M_writer(unicode(render_label( val ))) + __M_writer(u'\n') + # SOURCE LINE 312 + __M_writer(u'
    \n
    \n') + # SOURCE LINE 315 + __M_writer(u' \n') + # SOURCE LINE 317 + __M_writer(u' \n \n') + # SOURCE LINE 324 + __M_writer(u' \n') + # SOURCE LINE 325 + if t.user: + # SOURCE LINE 326 + __M_writer(u'
    \n
    \n
    \n Workflows\n
    \n
    \n
    \n') + # SOURCE LINE 333 + if t.user.stored_workflow_menu_entries: + # SOURCE LINE 334 + for m in t.user.stored_workflow_menu_entries: + # SOURCE LINE 335 + __M_writer(u'
    \n ') + __M_writer(unicode(m.stored_workflow.name)) + __M_writer(u'\n
    \n') + # SOURCE LINE 340 + __M_writer(u'
    \n All workflows\n
    \n
    \n
    \n') + # SOURCE LINE 346 + __M_writer(u' \n
    \n
    \n \n\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_render_label(context,label): + context.caller_stack._push_frame() + try: + __M_writer = context.writer() + # SOURCE LINE 40 + __M_writer(u'\n
    \n ') + # SOURCE LINE 42 + __M_writer(unicode(label.text)) + __M_writer(u'\n
    \n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_render_tool(context,tool,section): + context.caller_stack._push_frame() + try: + h = context.get('h', UNDEFINED) + t = context.get('t', UNDEFINED) + _ = context.get('_', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 2 + __M_writer(u'\n') + # SOURCE LINE 3 + if not tool.hidden: + # SOURCE LINE 4 + if section: + # SOURCE LINE 5 + __M_writer(u'
    \n') + # SOURCE LINE 6 + else: + # SOURCE LINE 7 + __M_writer(u'
    \n') + # SOURCE LINE 9 + __M_writer(u' ') + + if tool.input_required: + link = h.url_for( controller='tool_runner', tool_id=tool.id ) + else: + link = h.url_for( tool.action, ** tool.get_static_param_values( t ) ) + + + # SOURCE LINE 14 + __M_writer(u'\n') + # SOURCE LINE 18 + if tool.name: + # SOURCE LINE 19 + __M_writer(u' ') + __M_writer(unicode(_(tool.name))) + __M_writer(u' ') + __M_writer(unicode(tool.description)) + __M_writer(u' \n') + # SOURCE LINE 20 + else: + # SOURCE LINE 21 + __M_writer(u' ') + __M_writer(unicode(tool.description)) + __M_writer(u'\n') + # SOURCE LINE 23 + __M_writer(u'
    \n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_render_workflow(context,key,workflow,section): + context.caller_stack._push_frame() + try: + h = context.get('h', UNDEFINED) + _ = context.get('_', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 28 + __M_writer(u'\n') + # SOURCE LINE 29 + if section: + # SOURCE LINE 30 + __M_writer(u'
    \n') + # SOURCE LINE 31 + else: + # SOURCE LINE 32 + __M_writer(u'
    \n') + # SOURCE LINE 34 + __M_writer(u' ') + encoded_id = key.lstrip( 'workflow_' ) + + __M_writer(u'\n ') + __M_writer(unicode(_(workflow.name))) + __M_writer(u'\n
    \n') + return '' + finally: + context.caller_stack._pop_frame() + + Index: galaxy-central/database/compiled_templates/dataset/edit_attributes.mako.py =================================================================== --- galaxy-central/database/compiled_templates/dataset/edit_attributes.mako.py (revision 3) +++ galaxy-central/database/compiled_templates/dataset/edit_attributes.mako.py (revision 3) @@ -0,0 +1,337 @@ +from mako import runtime, filters, cache +UNDEFINED = runtime.UNDEFINED +__M_dict_builtin = dict +__M_locals_builtin = locals +_magic_number = 5 +_modified_time = 1287725818.302273 +_template_filename='templates/dataset/edit_attributes.mako' +_template_uri='/dataset/edit_attributes.mako' +_template_cache=cache.Cache(__name__, _modified_time) +_source_encoding=None +_exports = ['stylesheets', 'datatype', 'javascripts', 'title'] + + +def _mako_get_namespace(context, name): + try: + return context.namespaces[(__name__, name)] + except KeyError: + _mako_generate_namespaces(context) + return context.namespaces[(__name__, name)] +def _mako_generate_namespaces(context): + # SOURCE LINE 163 + ns = runtime.Namespace('__anon_0x10ab4e150', context._clean_inheritance_tokens(), templateuri=u'/dataset/security_common.mako', callables=None, calling_uri=_template_uri, module=None) + context.namespaces[(__name__, '__anon_0x10ab4e150')] = ns + + # SOURCE LINE 2 + ns = runtime.Namespace('__anon_0x10aad7dd0', context._clean_inheritance_tokens(), templateuri=u'/message.mako', callables=None, calling_uri=_template_uri, module=None) + context.namespaces[(__name__, '__anon_0x10aad7dd0')] = ns + +def _mako_inherit(template, context): + _mako_generate_namespaces(context) + return runtime._inherit_from(context, u'/base.mako', _template_uri) +def render_body(context,**pageargs): + context.caller_stack._push_frame() + try: + __M_locals = __M_dict_builtin(pageargs=pageargs) + _import_ns = {} + _mako_get_namespace(context, '__anon_0x10ab4e150')._populate(_import_ns, [u'render_permission_form']) + _mako_get_namespace(context, '__anon_0x10aad7dd0')._populate(_import_ns, [u'render_msg']) + status = _import_ns.get('status', context.get('status', UNDEFINED)) + render_permission_form = _import_ns.get('render_permission_form', context.get('render_permission_form', UNDEFINED)) + render_msg = _import_ns.get('render_msg', context.get('render_msg', UNDEFINED)) + all_roles = _import_ns.get('all_roles', context.get('all_roles', UNDEFINED)) + data_annotation = _import_ns.get('data_annotation', context.get('data_annotation', UNDEFINED)) + def datatype(dataset,datatypes): + return render_datatype(context.locals_(__M_locals),dataset,datatypes) + h = _import_ns.get('h', context.get('h', UNDEFINED)) + current_user_roles = _import_ns.get('current_user_roles', context.get('current_user_roles', UNDEFINED)) + len = _import_ns.get('len', context.get('len', UNDEFINED)) + message = _import_ns.get('message', context.get('message', UNDEFINED)) + trans = _import_ns.get('trans', context.get('trans', UNDEFINED)) + data = _import_ns.get('data', context.get('data', UNDEFINED)) + datatypes = _import_ns.get('datatypes', context.get('datatypes', UNDEFINED)) + _ = _import_ns.get('_', context.get('_', UNDEFINED)) + __M_writer = context.writer() + # SOURCE LINE 1 + __M_writer(u'\n') + # SOURCE LINE 2 + __M_writer(u'\n\n') + # SOURCE LINE 4 + __M_writer(u'\n\n') + # SOURCE LINE 8 + __M_writer(u'\n\n') + # SOURCE LINE 13 + __M_writer(u'\n\n') + # SOURCE LINE 25 + __M_writer(u'\n\n') + # SOURCE LINE 27 + if message: + # SOURCE LINE 28 + __M_writer(u' ') + __M_writer(unicode(render_msg( message, status ))) + __M_writer(u'\n') + # SOURCE LINE 30 + __M_writer(u'\n
    \n
    ') + # SOURCE LINE 32 + __M_writer(unicode(_('Edit Attributes'))) + __M_writer(u'
    \n
    \n
    \n \n
    \n \n
    \n \n
    \n
    \n
    \n
    \n \n
    \n \n
    \n
    \n
    \n') + # SOURCE LINE 54 + if trans.get_user() is not None: + # SOURCE LINE 55 + __M_writer(u'
    \n \n
    \n \n
    \n
    \n
    Add an annotation or notes to a dataset; annotations are available when a history is viewed.
    \n
    \n') + # SOURCE LINE 66 + for name, spec in data.metadata.spec.items(): + # SOURCE LINE 67 + if spec.visible: + # SOURCE LINE 68 + __M_writer(u'
    \n \n
    \n ') + # SOURCE LINE 73 + __M_writer(unicode(data.metadata.get_html_by_name( name, trans=trans ))) + __M_writer(u'\n
    \n
    \n
    \n') + # SOURCE LINE 79 + __M_writer(u'
    \n \n
    \n
    \n
    \n \n
    \n
    \n \n
    \n
    \n This will inspect the dataset and attempt to correct the above column values if they are not accurate.\n
    \n
    \n
    \n') + # SOURCE LINE 94 + if data.missing_meta(): + # SOURCE LINE 95 + __M_writer(u'
    \n
    ') + # SOURCE LINE 96 + __M_writer(unicode(_('Required metadata values are missing. Some of these values may not be editable by the user. Selecting "Auto-detect" will attempt to fix these values.'))) + __M_writer(u'
    \n
    \n') + # SOURCE LINE 99 + __M_writer(u'
    \n
    \n

    \n') + # SOURCE LINE 102 + converters = data.get_converter_types() + + __M_locals.update(__M_dict_builtin([(__M_key, __M_locals_builtin()[__M_key]) for __M_key in ['converters'] if __M_key in __M_locals_builtin()])) + __M_writer(u'\n') + # SOURCE LINE 103 + if len( converters ) > 0: + # SOURCE LINE 104 + __M_writer(u'

    \n
    ') + # SOURCE LINE 105 + __M_writer(unicode(_('Convert to new format'))) + __M_writer(u'
    \n
    \n
    \n \n
    \n
    \n \n
    \n
    \n This will create a new dataset with the contents of this dataset converted to a new format. \n
    \n
    \n
    \n
    \n \n
    \n
    \n
    \n
    \n

    \n') + # SOURCE LINE 130 + __M_writer(u'\n

    \n
    ') + # SOURCE LINE 132 + __M_writer(unicode(_('Change data type'))) + __M_writer(u'
    \n
    \n') + # SOURCE LINE 134 + if data.datatype.allow_datatype_change: + # SOURCE LINE 135 + __M_writer(u'
    \n \n
    \n \n
    \n ') + # SOURCE LINE 142 + __M_writer(unicode(datatype( data, datatypes ))) + __M_writer(u'\n
    \n
    \n ') + # SOURCE LINE 145 + __M_writer(unicode(_('This will change the datatype of the existing dataset but not modify its contents. Use this if Galaxy has incorrectly guessed the type of your dataset.'))) + __M_writer(u'\n
    \n
    \n
    \n
    \n \n
    \n
    \n') + # SOURCE LINE 153 + else: + # SOURCE LINE 154 + __M_writer(u'
    \n
    ') + # SOURCE LINE 155 + __M_writer(unicode(_('Changing the datatype of this dataset is not allowed.'))) + __M_writer(u'
    \n
    \n') + # SOURCE LINE 158 + __M_writer(u'
    \n
    \n

    \n\n') + # SOURCE LINE 162 + if trans.app.security_agent.can_manage_dataset( current_user_roles, data.dataset ): + # SOURCE LINE 163 + __M_writer(u' ') + __M_writer(u'\n ') + # SOURCE LINE 164 + __M_writer(unicode(render_permission_form( data.dataset, data.get_display_name(), h.url_for( controller='root', action='edit', id=data.id ), all_roles ))) + __M_writer(u'\n') + # SOURCE LINE 165 + elif trans.user: + # SOURCE LINE 166 + __M_writer(u'

    \n
    View Permissions
    \n
    \n
    \n') + # SOURCE LINE 170 + if data.dataset.actions: + # SOURCE LINE 171 + __M_writer(u'
      \n') + # SOURCE LINE 172 + for action, roles in trans.app.security_agent.get_permissions( data.dataset ).items(): + # SOURCE LINE 173 + if roles: + # SOURCE LINE 174 + __M_writer(u'
    • ') + __M_writer(unicode(action.description)) + __M_writer(u'
      • \n
        \n') + # SOURCE LINE 176 + for role in roles: + # SOURCE LINE 177 + __M_writer(u'
      • ') + __M_writer(unicode(role.name)) + __M_writer(u'
        • \n') + # SOURCE LINE 179 + __M_writer(u'
      \n') + # SOURCE LINE 182 + __M_writer(u'
    \n') + # SOURCE LINE 183 + else: + # SOURCE LINE 184 + __M_writer(u'

    This dataset is accessible by everyone (it is public).

    \n') + # SOURCE LINE 186 + __M_writer(u'
    \n
    \n
    \n') + # SOURCE LINE 190 + __M_writer(u'

    \n

    \n
    Copy History Item
    \n
    \n
    \n
    \n \n
    \n Make a copy of this history item in your current history or any of your active histories.\n
    \n
    \n
    \n
    \n
    \n
    \n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_stylesheets(context): + context.caller_stack._push_frame() + try: + _import_ns = {} + _mako_get_namespace(context, '__anon_0x10ab4e150')._populate(_import_ns, [u'render_permission_form']) + _mako_get_namespace(context, '__anon_0x10aad7dd0')._populate(_import_ns, [u'render_msg']) + h = _import_ns.get('h', context.get('h', UNDEFINED)) + __M_writer = context.writer() + # SOURCE LINE 6 + __M_writer(u'\n ') + # SOURCE LINE 7 + __M_writer(unicode(h.css( "base", "autocomplete_tagging" ))) + __M_writer(u'\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_datatype(context,dataset,datatypes): + context.caller_stack._push_frame() + try: + _import_ns = {} + _mako_get_namespace(context, '__anon_0x10ab4e150')._populate(_import_ns, [u'render_permission_form']) + _mako_get_namespace(context, '__anon_0x10aad7dd0')._populate(_import_ns, [u'render_msg']) + _ = _import_ns.get('_', context.get('_', UNDEFINED)) + __M_writer = context.writer() + # SOURCE LINE 15 + __M_writer(u'\n \n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_javascripts(context): + context.caller_stack._push_frame() + try: + _import_ns = {} + _mako_get_namespace(context, '__anon_0x10ab4e150')._populate(_import_ns, [u'render_permission_form']) + _mako_get_namespace(context, '__anon_0x10aad7dd0')._populate(_import_ns, [u'render_msg']) + h = _import_ns.get('h', context.get('h', UNDEFINED)) + parent = _import_ns.get('parent', context.get('parent', UNDEFINED)) + __M_writer = context.writer() + # SOURCE LINE 10 + __M_writer(u'\n ') + # SOURCE LINE 11 + __M_writer(unicode(parent.javascripts())) + __M_writer(u'\n ') + # SOURCE LINE 12 + __M_writer(unicode(h.js( "galaxy.base", "jquery.autocomplete", "autocomplete_tagging" ))) + __M_writer(u'\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_title(context): + context.caller_stack._push_frame() + try: + _import_ns = {} + _mako_get_namespace(context, '__anon_0x10ab4e150')._populate(_import_ns, [u'render_permission_form']) + _mako_get_namespace(context, '__anon_0x10aad7dd0')._populate(_import_ns, [u'render_msg']) + _ = _import_ns.get('_', context.get('_', UNDEFINED)) + __M_writer = context.writer() + # SOURCE LINE 4 + __M_writer(unicode(_('Edit Dataset Attributes'))) + return '' + finally: + context.caller_stack._pop_frame() + + Index: galaxy-central/database/compiled_templates/dataset/security_common.mako.py =================================================================== --- galaxy-central/database/compiled_templates/dataset/security_common.mako.py (revision 3) +++ galaxy-central/database/compiled_templates/dataset/security_common.mako.py (revision 3) @@ -0,0 +1,180 @@ +from mako import runtime, filters, cache +UNDEFINED = runtime.UNDEFINED +__M_dict_builtin = dict +__M_locals_builtin = locals +_magic_number = 5 +_modified_time = 1287725818.3254099 +_template_filename=u'templates/dataset/security_common.mako' +_template_uri=u'/dataset/security_common.mako' +_template_cache=cache.Cache(__name__, _modified_time) +_source_encoding=None +_exports = ['render_permission_form', 'render_select'] + + +def render_body(context,**pageargs): + context.caller_stack._push_frame() + try: + __M_locals = __M_dict_builtin(pageargs=pageargs) + __M_writer = context.writer() + # SOURCE LINE 37 + __M_writer(u'\n\n') + # SOURCE LINE 123 + __M_writer(u'\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_render_permission_form(context,obj,obj_name,form_url,all_roles,do_not_render=[]): + context.caller_stack._push_frame() + try: + trans = context.get('trans', UNDEFINED) + def render_select(current_actions,action_key,action,all_roles): + return render_render_select(context,current_actions,action_key,action,all_roles) + isinstance = context.get('isinstance', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 40 + __M_writer(u'\n ') + # SOURCE LINE 41 + + if isinstance( obj, trans.app.model.User ): + current_actions = obj.default_permissions + permitted_actions = trans.app.model.Dataset.permitted_actions.items() + obj_str = 'user %s' % obj_name + obj_type = 'dataset' + elif isinstance( obj, trans.app.model.History ): + current_actions = obj.default_permissions + permitted_actions = trans.app.model.Dataset.permitted_actions.items() + obj_str = 'history %s' % obj_name + obj_type = 'dataset' + elif isinstance( obj, trans.app.model.Dataset ): + current_actions = obj.actions + permitted_actions = trans.app.model.Dataset.permitted_actions.items() + obj_str = obj_name + obj_type = 'dataset' + elif isinstance( obj, trans.app.model.LibraryDatasetDatasetAssociation ): + current_actions = obj.actions + obj.dataset.actions + permitted_actions = trans.app.model.Dataset.permitted_actions.items() + trans.app.model.Library.permitted_actions.items() + obj_str = obj_name + obj_type = 'dataset' + elif isinstance( obj, trans.app.model.Library ): + current_actions = obj.actions + permitted_actions = trans.app.model.Library.permitted_actions.items() + obj_str = 'library %s' % obj_name + obj_type = 'library' + elif isinstance( obj, trans.app.model.LibraryDataset ): + current_actions = obj.actions + permitted_actions = trans.app.model.Library.permitted_actions.items() + obj_str = 'library dataset %s' % obj_name + obj_type = 'library' + elif isinstance( obj, trans.app.model.LibraryFolder ): + current_actions = obj.actions + permitted_actions = trans.app.model.Library.permitted_actions.items() + obj_str = 'library folder %s' % obj_name + obj_type = 'library' + else: + current_actions = [] + permitted_actions = {}.items() + obj_str = 'unknown object %s' %obj_name + obj_type = '' + + + # SOURCE LINE 82 + __M_writer(u'\n \n
    \n
    Manage ') + # SOURCE LINE 105 + __M_writer(unicode(obj_type)) + __M_writer(u' permissions on ') + __M_writer(unicode(obj_str)) + __M_writer(u'
    \n
    \n
    \n
    \n') + # SOURCE LINE 109 + for k, v in permitted_actions: + # SOURCE LINE 110 + if k not in do_not_render: + # SOURCE LINE 111 + __M_writer(u'
    \n ') + # SOURCE LINE 112 + __M_writer(unicode(render_select( current_actions, k, v, all_roles ))) + __M_writer(u'\n
    \n') + # SOURCE LINE 116 + __M_writer(u'
    \n \n
    \n
    \n
    \n
    \n

    \n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_render_select(context,current_actions,action_key,action,all_roles): + context.caller_stack._push_frame() + try: + filter = context.get('filter', UNDEFINED) + x = context.get('x', UNDEFINED) + trans = context.get('trans', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 1 + __M_writer(u'\n ') + # SOURCE LINE 2 + + import sets + in_roles = sets.Set() + for a in current_actions: + if a.action == action.action: + in_roles.add( a.role ) + out_roles = filter( lambda x: x not in in_roles, all_roles ) + + + # SOURCE LINE 9 + __M_writer(u'\n

    \n ') + # SOURCE LINE 11 + __M_writer(unicode(action.action)) + __M_writer(u': ') + __M_writer(unicode(action.description)) + __M_writer(u'\n') + # SOURCE LINE 12 + if action == trans.app.security_agent.permitted_actions.DATASET_ACCESS: + # SOURCE LINE 13 + __M_writer(u'
    \n NOTE: Users must have every role associated with this dataset in order to access it\n') + # SOURCE LINE 16 + __M_writer(u'

    \n
    \n
    \n Roles associated:
    \n
    \n
    \n
    \n
    \n Roles not associated:
    \n
    \n \n
    \n
    \n') + return '' + finally: + context.caller_stack._pop_frame() + + Index: galaxy-central/database/compiled_templates/tagging_common.mako.py =================================================================== --- galaxy-central/database/compiled_templates/tagging_common.mako.py (revision 3) +++ galaxy-central/database/compiled_templates/tagging_common.mako.py (revision 3) @@ -0,0 +1,311 @@ +from mako import runtime, filters, cache +UNDEFINED = runtime.UNDEFINED +__M_dict_builtin = dict +__M_locals_builtin = locals +_magic_number = 5 +_modified_time = 1287725327.3571129 +_template_filename=u'templates/tagging_common.mako' +_template_uri=u'root/../tagging_common.mako' +_template_cache=cache.Cache(__name__, _modified_time) +_source_encoding=None +_exports = ['render_tagging_element_html', 'render_individual_tagging_element', 'render_community_tagging_element'] + + +# SOURCE LINE 1 + +from cgi import escape +from galaxy.web.framework.helpers import iff +from random import random +from sys import maxint +from math import floor +from galaxy.model import Tag, ItemTagAssociation + + +def render_body(context,**pageargs): + context.caller_stack._push_frame() + try: + __M_locals = __M_dict_builtin(pageargs=pageargs) + in_form = context.get('in_form', UNDEFINED) + def render_community_tagging_element(tagged_item=None,elt_context=None,use_toggle_link=False,tag_click_fn='default_tag_click_fn'): + return render_render_community_tagging_element(context.locals_(__M_locals),tagged_item,elt_context,use_toggle_link,tag_click_fn) + elt_context = context.get('elt_context', UNDEFINED) + use_toggle_link = context.get('use_toggle_link', UNDEFINED) + user = context.get('user', UNDEFINED) + def render_individual_tagging_element(user=None,tagged_item=None,elt_context=None,use_toggle_link=True,in_form=False,input_size='15',tag_click_fn='default_tag_click_fn',get_toggle_link_text_fn='default_get_toggle_link_text_fn',editable=True,render_add_tag_button=True): + return render_render_individual_tagging_element(context.locals_(__M_locals),user,tagged_item,elt_context,use_toggle_link,in_form,input_size,tag_click_fn,get_toggle_link_text_fn,editable,render_add_tag_button) + tag_click_fn = context.get('tag_click_fn', UNDEFINED) + input_size = context.get('input_size', UNDEFINED) + tagged_item = context.get('tagged_item', UNDEFINED) + tag_type = context.get('tag_type', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 8 + __M_writer(u'\n\n') + # SOURCE LINE 11 + if tagged_item is not None: + # SOURCE LINE 12 + if tag_type == "individual": + # SOURCE LINE 13 + __M_writer(u' ') + __M_writer(unicode(render_individual_tagging_element( user=user, tagged_item=tagged_item, elt_context=elt_context, in_form=in_form, input_size=input_size, tag_click_fn=tag_click_fn, use_toggle_link=use_toggle_link ))) + __M_writer(u'\n') + # SOURCE LINE 14 + elif tag_type == "community": + # SOURCE LINE 15 + __M_writer(u' ') + __M_writer(unicode(render_community_tagging_element(tagged_item=tagged_item, elt_context=elt_context, tag_click_fn=tag_click_fn))) + __M_writer(u'\n') + # SOURCE LINE 18 + __M_writer(u'\n') + # SOURCE LINE 85 + __M_writer(u'\n\n') + # SOURCE LINE 103 + __M_writer(u'\n\n\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_render_tagging_element_html(context,elt_id=None,tags=None,editable=True,use_toggle_link=True,input_size='15',in_form=False,tag_type='individual',render_add_tag_button=True): + context.caller_stack._push_frame() + try: + h = context.get('h', UNDEFINED) + unicode = context.get('unicode', UNDEFINED) + isinstance = context.get('isinstance', UNDEFINED) + len = context.get('len', UNDEFINED) + str = context.get('str', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 20 + __M_writer(u'\n') + # SOURCE LINE 22 + __M_writer(u' ') + + num_tags = len( tags ) + + + # SOURCE LINE 24 + __M_writer(u'\n \n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_render_individual_tagging_element(context,user=None,tagged_item=None,elt_context=None,use_toggle_link=True,in_form=False,input_size='15',tag_click_fn='default_tag_click_fn',get_toggle_link_text_fn='default_get_toggle_link_text_fn',editable=True,render_add_tag_button=True): + context.caller_stack._push_frame() + try: + isinstance = context.get('isinstance', UNDEFINED) + unicode = context.get('unicode', UNDEFINED) + int = context.get('int', UNDEFINED) + h = context.get('h', UNDEFINED) + self = context.get('self', UNDEFINED) + dict = context.get('dict', UNDEFINED) + str = context.get('str', UNDEFINED) + trans = context.get('trans', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 107 + __M_writer(u'\n') + # SOURCE LINE 109 + __M_writer(u' ') + + # Useful ids. + tagged_item_id = str( trans.security.encode_id ( tagged_item.id ) ) + elt_id = int ( floor ( random()*maxint ) ) + + # Get list of user's item tags. TODO: this could be moved to a database query for speed purposes. + item_tags = [ tag for tag in tagged_item.tags if ( tag.user == user ) ] + + + # SOURCE LINE 116 + __M_writer(u'\n \n') + # SOURCE LINE 119 + __M_writer(u' ') + __M_writer(unicode(self.render_tagging_element_html(elt_id=elt_id, tags=item_tags, editable=editable, use_toggle_link=use_toggle_link, input_size=input_size, in_form=in_form, render_add_tag_button=render_add_tag_button))) + __M_writer(u'\n \n') + # SOURCE LINE 122 + __M_writer(u' \n \n") + # SOURCE LINE 203 + __M_writer(u' \n\n \n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_render_community_tagging_element(context,tagged_item=None,elt_context=None,use_toggle_link=False,tag_click_fn='default_tag_click_fn'): + context.caller_stack._push_frame() + try: + int = context.get('int', UNDEFINED) + self = context.get('self', UNDEFINED) + trans = context.get('trans', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 88 + __M_writer(u'\n') + # SOURCE LINE 90 + __M_writer(u' ') + + elt_id = int ( floor ( random()*maxint ) ) + community_tags = trans.app.tag_handler.get_community_tags( trans, item=tagged_item, limit=5 ) + + + # SOURCE LINE 93 + __M_writer(u'\n ') + # SOURCE LINE 94 + __M_writer(unicode(self.render_tagging_element_html(elt_id=elt_id, \ + tags=community_tags, \ + use_toggle_link=use_toggle_link, \ + editable=False, tag_type="community"))) + # SOURCE LINE 97 + __M_writer(u'\n \n') + # SOURCE LINE 100 + __M_writer(u' \n') + return '' + finally: + context.caller_stack._pop_frame() + + Index: galaxy-central/database/compiled_templates/base.mako.py =================================================================== --- galaxy-central/database/compiled_templates/base.mako.py (revision 3) +++ galaxy-central/database/compiled_templates/base.mako.py (revision 3) @@ -0,0 +1,103 @@ +from mako import runtime, filters, cache +UNDEFINED = runtime.UNDEFINED +__M_dict_builtin = dict +__M_locals_builtin = locals +_magic_number = 5 +_modified_time = 1287725818.353277 +_template_filename='templates/base.mako' +_template_uri='/base.mako' +_template_cache=cache.Cache(__name__, _modified_time) +_source_encoding=None +_exports = ['stylesheets', 'javascripts', 'metas', 'title'] + + +def render_body(context,**pageargs): + context.caller_stack._push_frame() + try: + __M_locals = __M_dict_builtin(pageargs=pageargs) + self = context.get('self', UNDEFINED) + next = context.get('next', UNDEFINED) + n_ = context.get('n_', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 1 + _=n_ + + __M_locals.update(__M_dict_builtin([(__M_key, __M_locals_builtin()[__M_key]) for __M_key in ['_'] if __M_key in __M_locals_builtin()])) + __M_writer(u'\n\n\n\n\n') + # SOURCE LINE 6 + __M_writer(unicode(self.title())) + __M_writer(u'\n\n') + # SOURCE LINE 8 + __M_writer(unicode(self.metas())) + __M_writer(u'\n') + # SOURCE LINE 9 + __M_writer(unicode(self.stylesheets())) + __M_writer(u'\n') + # SOURCE LINE 10 + __M_writer(unicode(self.javascripts())) + __M_writer(u'\n\n\n \n ') + # SOURCE LINE 14 + __M_writer(unicode(next.body())) + __M_writer(u'\n \n\n\n') + # SOURCE LINE 19 + __M_writer(u'\n\n') + # SOURCE LINE 24 + __M_writer(u'\n\n') + # SOURCE LINE 32 + __M_writer(u'\n\n') + # SOURCE LINE 35 + __M_writer(u'\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_stylesheets(context): + context.caller_stack._push_frame() + try: + h = context.get('h', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 22 + __M_writer(u'\n ') + # SOURCE LINE 23 + __M_writer(unicode(h.css('base'))) + __M_writer(u'\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_javascripts(context): + context.caller_stack._push_frame() + try: + h = context.get('h', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 27 + __M_writer(u'\n') + # SOURCE LINE 31 + __M_writer(u' ') + __M_writer(unicode(h.js( "jquery", "galaxy.base" ))) + __M_writer(u'\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_metas(context): + context.caller_stack._push_frame() + try: + __M_writer = context.writer() + return '' + finally: + context.caller_stack._pop_frame() + + +def render_title(context): + context.caller_stack._push_frame() + try: + __M_writer = context.writer() + return '' + finally: + context.caller_stack._pop_frame() + + Index: galaxy-central/database/compiled_templates/base_panels.mako.py =================================================================== --- galaxy-central/database/compiled_templates/base_panels.mako.py (revision 3) +++ galaxy-central/database/compiled_templates/base_panels.mako.py (revision 3) @@ -0,0 +1,285 @@ +from mako import runtime, filters, cache +UNDEFINED = runtime.UNDEFINED +__M_dict_builtin = dict +__M_locals_builtin = locals +_magic_number = 5 +_modified_time = 1287725326.8172879 +_template_filename=u'templates/base_panels.mako' +_template_uri=u'/base_panels.mako' +_template_cache=cache.Cache(__name__, _modified_time) +_source_encoding=None +_exports = ['message_box_content', 'overlay', 'late_javascripts', 'stylesheets', 'init', 'masthead', 'javascripts'] + + +def render_body(context,**pageargs): + context.caller_stack._push_frame() + try: + __M_locals = __M_dict_builtin(pageargs=pageargs) + self = context.get('self', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 2 + __M_writer(u'\n\n') + # SOURCE LINE 4 + + self.has_left_panel=True + self.has_right_panel=True + self.message_box_visible=False + self.overlay_visible=False + self.message_box_class="" + self.active_view=None + self.body_class="" + + + # SOURCE LINE 12 + __M_writer(u'\n \n') + # SOURCE LINE 16 + __M_writer(u'\n\n') + # SOURCE LINE 37 + __M_writer(u'\n\n') + # SOURCE LINE 48 + __M_writer(u'\n\n') + # SOURCE LINE 151 + __M_writer(u'\n\n') + # SOURCE LINE 156 + __M_writer(u'\n\n') + # SOURCE LINE 191 + __M_writer(u'\n\n') + # SOURCE LINE 195 + __M_writer(u'\n\n') + # SOURCE LINE 198 + __M_writer(u'\n ') + # SOURCE LINE 199 + __M_writer(unicode(self.init())) + __M_writer(u' \n \n ') + # SOURCE LINE 201 + __M_writer(unicode(self.title())) + __M_writer(u'\n \n ') + # SOURCE LINE 203 + __M_writer(unicode(self.stylesheets())) + __M_writer(u'\n ') + # SOURCE LINE 204 + __M_writer(unicode(self.javascripts())) + __M_writer(u'\n \n \n \n\t
    \n') + # SOURCE LINE 210 + __M_writer(u'
    \n') + # SOURCE LINE 212 + __M_writer(u'
    \n ') + # SOURCE LINE 213 + __M_writer(unicode(self.masthead())) + __M_writer(u'\n
    \n
    \n') + # SOURCE LINE 216 + if self.message_box_visible: + # SOURCE LINE 217 + __M_writer(u' ') + __M_writer(unicode(self.message_box_content())) + __M_writer(u'\n') + # SOURCE LINE 219 + __M_writer(u'
    \n ') + # SOURCE LINE 220 + __M_writer(unicode(self.overlay())) + __M_writer(u'\n') + # SOURCE LINE 221 + if self.has_left_panel: + # SOURCE LINE 222 + __M_writer(u'
    \n ') + # SOURCE LINE 223 + __M_writer(unicode(self.left_panel())) + __M_writer(u'\n
    \n
    \n \n
    \n') + # SOURCE LINE 229 + __M_writer(u'
    \n ') + # SOURCE LINE 230 + __M_writer(unicode(self.center_panel())) + __M_writer(u'\n
    \n') + # SOURCE LINE 232 + if self.has_right_panel: + # SOURCE LINE 233 + __M_writer(u'
    \n \n') + # SOURCE LINE 238 + __M_writer(u'\t
    \n') + # SOURCE LINE 240 + __M_writer(u' \n') + # SOURCE LINE 243 + __M_writer(u' ') + __M_writer(unicode(self.late_javascripts())) + __M_writer(u'\n\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_message_box_content(context): + context.caller_stack._push_frame() + try: + __M_writer = context.writer() + # SOURCE LINE 194 + __M_writer(u'\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_overlay(context,title='',content=''): + context.caller_stack._push_frame() + try: + self = context.get('self', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 158 + __M_writer(u'\n ') + # SOURCE LINE 159 + __M_writer(u'\n ') + # SOURCE LINE 160 + __M_writer(u'\n\n \n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_late_javascripts(context): + context.caller_stack._push_frame() + try: + h = context.get('h', UNDEFINED) + self = context.get('self', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 51 + __M_writer(u'\n') + # SOURCE LINE 54 + __M_writer(u' ') + __M_writer(unicode(h.js( 'jquery.event.drag', 'jquery.event.hover', 'jquery.form', 'jquery.rating', 'galaxy.base', 'galaxy.panels' ))) + __M_writer(u'\n \n') + # SOURCE LINE 72 + __M_writer(u' \n \n \n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_stylesheets(context): + context.caller_stack._push_frame() + try: + h = context.get('h', UNDEFINED) + self = context.get('self', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 19 + __M_writer(u'\n ') + # SOURCE LINE 20 + __M_writer(unicode(h.css('base','panel_layout','jquery.rating'))) + __M_writer(u'\n \n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_init(context): + context.caller_stack._push_frame() + try: + __M_writer = context.writer() + # SOURCE LINE 14 + __M_writer(u'\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_masthead(context): + context.caller_stack._push_frame() + try: + __M_writer = context.writer() + # SOURCE LINE 154 + __M_writer(u'\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_javascripts(context): + context.caller_stack._push_frame() + try: + h = context.get('h', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 40 + __M_writer(u'\n \n \n ") + # SOURCE LINE 47 + __M_writer(unicode(h.js( 'jquery' ))) + __M_writer(u'\n') + return '' + finally: + context.caller_stack._pop_frame() + + Index: galaxy-central/database/compiled_templates/tool_form.mako.py =================================================================== --- galaxy-central/database/compiled_templates/tool_form.mako.py (revision 3) +++ galaxy-central/database/compiled_templates/tool_form.mako.py (revision 3) @@ -0,0 +1,427 @@ +from mako import runtime, filters, cache +UNDEFINED = runtime.UNDEFINED +__M_dict_builtin = dict +__M_locals_builtin = locals +_magic_number = 5 +_modified_time = 1287725781.101141 +_template_filename='templates/tool_form.mako' +_template_uri='tool_form.mako' +_template_cache=cache.Cache(__name__, _modified_time) +_source_encoding=None +_exports = ['do_inputs', 'row_for_param'] + + +def render_body(context,**pageargs): + context.caller_stack._push_frame() + try: + __M_locals = __M_dict_builtin(pageargs=pageargs) + add_frame = context.get('add_frame', UNDEFINED) + errors = context.get('errors', UNDEFINED) + h = context.get('h', UNDEFINED) + tool = context.get('tool', UNDEFINED) + def do_inputs(inputs,tool_state,errors,prefix,other_values=None): + return render_do_inputs(context.locals_(__M_locals),inputs,tool_state,errors,prefix,other_values) + len = context.get('len', UNDEFINED) + util = context.get('util', UNDEFINED) + unicode = context.get('unicode', UNDEFINED) + type = context.get('type', UNDEFINED) + tool_state = context.get('tool_state', UNDEFINED) + trans = context.get('trans', UNDEFINED) + AttributeError = context.get('AttributeError', UNDEFINED) + app = context.get('app', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 1 + __M_writer(u'\n\n\n') + # SOURCE LINE 4 + + from galaxy.util.expressions import ExpressionContext + + + __M_locals.update(__M_dict_builtin([(__M_key, __M_locals_builtin()[__M_key]) for __M_key in ['ExpressionContext'] if __M_key in __M_locals_builtin()])) + # SOURCE LINE 6 + __M_writer(u'\n\n\n\n\nGalaxy\n\n') + # SOURCE LINE 13 + __M_writer(unicode(h.css( "base", "autocomplete_tagging" ))) + __M_writer(u'\n') + # SOURCE LINE 14 + __M_writer(unicode(h.js( "jquery", "galaxy.base", "jquery.autocomplete" ))) + __M_writer(u'\n\n\n\n\n ') + # SOURCE LINE 128 + __M_writer(u'\n \n ') + # SOURCE LINE 169 + __M_writer(u'\n \n') + # SOURCE LINE 171 + if add_frame.from_noframe: + # SOURCE LINE 172 + __M_writer(u'
    \n Welcome to Galaxy\n
    \n It appears that you found this tool from a link outside of Galaxy.\n If you\'re not familiar with Galaxy, please consider visiting the\n welcome page.\n To learn more about what Galaxy is and what it can do for you, please visit\n the Galaxy wiki.\n
    \n
    \n') + # SOURCE LINE 183 + __M_writer(u' \n') + # SOURCE LINE 186 + __M_writer(u' ') + + try: + tool_url = h.url_for(tool.action) + except AttributeError: + assert len(tool.action) == 2 + tool_url = tool.action[0] + h.url_for(tool.action[1]) + + + __M_locals.update(__M_dict_builtin([(__M_key, __M_locals_builtin()[__M_key]) for __M_key in ['tool_url'] if __M_key in __M_locals_builtin()])) + # SOURCE LINE 192 + __M_writer(u'
    \n') + # SOURCE LINE 193 + if tool.has_multiple_pages: + # SOURCE LINE 194 + __M_writer(u'
    ') + __M_writer(unicode(tool.name)) + __M_writer(u' (step ') + __M_writer(unicode(tool_state.page+1)) + __M_writer(u' of ') + __M_writer(unicode(tool.npages)) + __M_writer(u')
    \n') + # SOURCE LINE 195 + else: + # SOURCE LINE 196 + __M_writer(u'
    ') + __M_writer(unicode(tool.name)) + __M_writer(u'
    \n') + # SOURCE LINE 198 + __M_writer(u'
    \n
    \n \n \n') + # SOURCE LINE 202 + if tool.display_by_page[tool_state.page]: + # SOURCE LINE 203 + __M_writer(u' ') + __M_writer(unicode(trans.fill_template_string( tool.display_by_page[tool_state.page], context=tool.get_param_html_map( trans, tool_state.page, tool_state.inputs ) ))) + __M_writer(u'\n \n') + # SOURCE LINE 205 + else: + # SOURCE LINE 206 + __M_writer(u' ') + __M_writer(unicode(do_inputs( tool.inputs_by_page[ tool_state.page ], tool_state.inputs, errors, "" ))) + __M_writer(u'\n
    \n') + # SOURCE LINE 208 + if tool_state.page == tool.last_page: + # SOURCE LINE 209 + __M_writer(u' \n') + # SOURCE LINE 210 + else: + # SOURCE LINE 211 + __M_writer(u' \n') + # SOURCE LINE 213 + __M_writer(u'
    \n') + # SOURCE LINE 215 + __M_writer(u'
    \n
    \n
    \n') + # SOURCE LINE 218 + if tool.help: + # SOURCE LINE 219 + __M_writer(u'
    \n
    \n ') + # SOURCE LINE 221 + + if tool.has_multiple_pages: + tool_help = tool.help_by_page[tool_state.page] + else: + tool_help = tool.help + + # Convert to unicode to display non-ascii characters. + if type( tool_help ) is not unicode: + tool_help = unicode( tool_help, 'utf-8') + + + __M_locals.update(__M_dict_builtin([(__M_key, __M_locals_builtin()[__M_key]) for __M_key in ['tool_help'] if __M_key in __M_locals_builtin()])) + # SOURCE LINE 230 + __M_writer(u'\n ') + # SOURCE LINE 231 + __M_writer(unicode(tool_help)) + __M_writer(u'\n
    \n
    \n') + # SOURCE LINE 235 + __M_writer(u'\n\n\n\n\n') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_do_inputs(context,inputs,tool_state,errors,prefix,other_values=None): + context.caller_stack._push_frame() + try: + def row_for_param(prefix,param,parent_state,parent_errors,other_values): + return render_row_for_param(context,prefix,param,parent_state,parent_errors,other_values) + h = context.get('h', UNDEFINED) + def do_inputs(inputs,tool_state,errors,prefix,other_values=None): + return render_do_inputs(context,inputs,tool_state,errors,prefix,other_values) + len = context.get('len', UNDEFINED) + range = context.get('range', UNDEFINED) + dict = context.get('dict', UNDEFINED) + str = context.get('str', UNDEFINED) + enumerate = context.get('enumerate', UNDEFINED) + trans = context.get('trans', UNDEFINED) + ExpressionContext = context.get('ExpressionContext', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 55 + __M_writer(u'\n ') + # SOURCE LINE 56 + other_values = ExpressionContext( tool_state, other_values ) + + __M_writer(u'\n') + # SOURCE LINE 57 + for input_index, input in enumerate( inputs.itervalues() ): + # SOURCE LINE 58 + if input.type == "repeat": + # SOURCE LINE 59 + __M_writer(u'
    \n
    ') + # SOURCE LINE 60 + __M_writer(unicode(input.title_plural)) + __M_writer(u'
    \n ') + # SOURCE LINE 61 + repeat_state = tool_state[input.name] + + __M_writer(u'\n') + # SOURCE LINE 62 + for i in range( len( repeat_state ) ): + # SOURCE LINE 63 + __M_writer(u'
    \n ') + # SOURCE LINE 64 + + if input.name in errors: + rep_errors = errors[input.name][i] + else: + rep_errors = dict() + index = repeat_state[i]['__index__'] + + + # SOURCE LINE 70 + __M_writer(u'\n
    ') + # SOURCE LINE 71 + __M_writer(unicode(input.title)) + __M_writer(u' ') + __M_writer(unicode(i + 1)) + __M_writer(u'
    \n ') + # SOURCE LINE 72 + __M_writer(unicode(do_inputs( input.inputs, repeat_state[i], rep_errors, prefix + input.name + "_" + str(index) + "|", other_values ))) + __M_writer(u'\n
    \n
    \n') + # SOURCE LINE 75 + if rep_errors.has_key( '__index__' ): + # SOURCE LINE 76 + __M_writer(u'
     ') + __M_writer(unicode(rep_errors['__index__'])) + __M_writer(u'
    \n') + # SOURCE LINE 79 + __M_writer(u'
    \n
    \n') + # SOURCE LINE 81 + elif input.type == "conditional": + # SOURCE LINE 82 + __M_writer(u' ') + + group_state = tool_state[input.name] + group_errors = errors.get( input.name, {} ) + current_case = group_state['__current_case__'] + group_prefix = prefix + input.name + "|" + + + # SOURCE LINE 87 + __M_writer(u'\n') + # SOURCE LINE 88 + if input.value_ref_in_group: + # SOURCE LINE 89 + __M_writer(u' ') + __M_writer(unicode(row_for_param( group_prefix, input.test_param, group_state, group_errors, other_values ))) + __M_writer(u'\n') + # SOURCE LINE 91 + __M_writer(u' ') + __M_writer(unicode(do_inputs( input.cases[current_case].inputs, group_state, group_errors, group_prefix, other_values ))) + __M_writer(u'\n') + # SOURCE LINE 92 + elif input.type == "upload_dataset": + # SOURCE LINE 93 + if input.get_datatype( trans, other_values ).composite_type is None: #have non-composite upload appear as before + # SOURCE LINE 94 + __M_writer(u' ') + + if input.name in errors: + rep_errors = errors[input.name][0] + else: + rep_errors = dict() + + + # SOURCE LINE 99 + __M_writer(u'\n ') + # SOURCE LINE 100 + __M_writer(unicode(do_inputs( input.inputs, tool_state[input.name][0], rep_errors, prefix + input.name + "_" + str( 0 ) + "|", other_values ))) + __M_writer(u'\n') + # SOURCE LINE 101 + else: + # SOURCE LINE 102 + __M_writer(u'
    \n
    ') + # SOURCE LINE 103 + __M_writer(unicode(input.group_title( other_values ))) + __M_writer(u'
    \n ') + # SOURCE LINE 104 + + repeat_state = tool_state[input.name] + + + # SOURCE LINE 106 + __M_writer(u'\n') + # SOURCE LINE 107 + for i in range( len( repeat_state ) ): + # SOURCE LINE 108 + __M_writer(u'
    \n ') + # SOURCE LINE 109 + + if input.name in errors: + rep_errors = errors[input.name][i] + else: + rep_errors = dict() + index = repeat_state[i]['__index__'] + + + # SOURCE LINE 115 + __M_writer(u'\n
    File Contents for ') + # SOURCE LINE 116 + __M_writer(unicode(input.title_by_index( trans, i, other_values ))) + __M_writer(u'
    \n ') + # SOURCE LINE 117 + __M_writer(unicode(do_inputs( input.inputs, repeat_state[i], rep_errors, prefix + input.name + "_" + str(index) + "|", other_values ))) + __M_writer(u'\n') + # SOURCE LINE 119 + __M_writer(u'
    \n') + # SOURCE LINE 122 + __M_writer(u'
    \n') + # SOURCE LINE 124 + else: + # SOURCE LINE 125 + __M_writer(u' ') + __M_writer(unicode(row_for_param( prefix, input, tool_state, errors, other_values ))) + __M_writer(u'\n') + # SOURCE LINE 128 + __M_writer(u' ') + return '' + finally: + context.caller_stack._pop_frame() + + +def render_row_for_param(context,prefix,param,parent_state,parent_errors,other_values): + context.caller_stack._push_frame() + try: + h = context.get('h', UNDEFINED) + trans = context.get('trans', UNDEFINED) + type = context.get('type', UNDEFINED) + unicode = context.get('unicode', UNDEFINED) + __M_writer = context.writer() + # SOURCE LINE 130 + __M_writer(u'\n ') + # SOURCE LINE 131 + + if parent_errors.has_key( param.name ): + cls = "form-row form-row-error" + else: + cls = "form-row" + + + # SOURCE LINE 136 + __M_writer(u'\n
    \n ') + # SOURCE LINE 138 + label = param.get_label() + + __M_writer(u'\n') + # SOURCE LINE 139 + if label: + # SOURCE LINE 140 + __M_writer(u' \n') + # SOURCE LINE 144 + __M_writer(u' ') + + field = param.get_html_field( trans, parent_state[ param.name ], other_values ) + field.refresh_on_change = param.refresh_on_change + + # Field may contain characters submitted by user and these characters may be unicode; handle non-ascii characters gracefully. + field_html = field.get_html( prefix ) + if type( field_html ) is not unicode: + field_html = unicode( field_html, 'utf-8' ) + + + # SOURCE LINE 152 + __M_writer(u'\n
    ') + # SOURCE LINE 153 + __M_writer(unicode(field_html)) + __M_writer(u'
    \n') + # SOURCE LINE 154 + if parent_errors.has_key( param.name ): + # SOURCE LINE 155 + __M_writer(u'
    \n
     ') + __M_writer(unicode(parent_errors[param.name])) + __M_writer(u'
    \n
    \n') + # SOURCE LINE 159 + __M_writer(u' \n') + # SOURCE LINE 160 + if param.help: + # SOURCE LINE 161 + __M_writer(u'
    \n ') + # SOURCE LINE 162 + __M_writer(unicode(param.help)) + __M_writer(u'\n
    \n') + # SOURCE LINE 165 + __M_writer(u' \n
    \n \n
    \n ') + return '' + finally: + context.caller_stack._pop_frame() + +