From 66fa7c2ad27dc526d585e384e32fef9d4b631ab9 Mon Sep 17 00:00:00 2001 From: guerler Date: Wed, 10 Jun 2015 03:13:38 -0400 Subject: [PATCH] Fix generic forms for modules --- client/galaxy/scripts/galaxy.workflows.js | 48 ++++++++++++++++++++++- static/maps/galaxy.workflows.js.map | 2 +- static/scripts/galaxy.workflows.js | 2 +- 3 files changed, 48 insertions(+), 4 deletions(-) diff --git a/client/galaxy/scripts/galaxy.workflows.js b/client/galaxy/scripts/galaxy.workflows.js index 3de89f31215..8aa42c9dbe0 100644 --- a/client/galaxy/scripts/galaxy.workflows.js +++ b/client/galaxy/scripts/galaxy.workflows.js @@ -473,12 +473,12 @@ function show_tool_form( text, node, callback ) { // check if tool form already exists if ($container.find('#' + id).length == 0) { var $el = $('
'); - if (Utils.isJSON(text)) { + if (node.type == 'tool') { var options = JSON.parse(text); options.datatypes = datatypes; $el.append((new ToolsForm.View(options)).$el); } else { - $el.append(text); + $el.append(generic_form_template( text, node )); } $container.append($el); } @@ -496,6 +496,50 @@ function show_tool_form( text, node, callback ) { }); } +function generic_form_template( text, node ) { + var $el = $('
').html( text ); + // Add metadata form to tool. + if (node && node.id != 'no-node') { + $el.find(".toolForm:first").after( "

\ +
Edit Step Attributes
\ +
\ + \ +
\ + \ +
Add an annotation or notes to this step; annotations are available when a workflow is viewed.
\ +
\ +
\ +
" ); + $el.find( "form" ).ajaxForm( { + type: 'POST', + dataType: 'json', + success: function( data ) { + workflow.active_form_has_changes = false; + node.update_field_data( data ); + show_workflow_parameters(); + }, + beforeSubmit: function( data ) { + data.push( { name: 'tool_state', value: node.tool_state } ); + data.push( { name: '_', value: "true" } ); + } + }).each( function() { + var form = this; + $(this).find( "select[refresh_on_change='true']").change( function() { + $(form).submit(); + }); + $(this).find( "input[refresh_on_change='true']").change( function() { + $(form).submit(); + }); + $(this).find("input,textarea,select").each( function() { + $(this).bind("focus click", function() { + workflow.active_form_has_changes = true; + }); + }); + }); + } + return $el; +} + function show_form_for_tool( text, node ) { $('.right-content').hide(); $("#right-content").show().html( text ); diff --git a/static/maps/galaxy.workflows.js.map b/static/maps/galaxy.workflows.js.map index 72449a87b15..b0a7c8dd1f5 100644 --- a/static/maps/galaxy.workflows.js.map +++ b/static/maps/galaxy.workflows.js.map @@ -1 +1 @@ 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\ No newline at end of file diff --git a/static/scripts/galaxy.workflows.js b/static/scripts/galaxy.workflows.js index 4d297b2d111..73d834147ea 100644 --- a/static/scripts/galaxy.workflows.js +++ b/static/scripts/galaxy.workflows.js @@ -1,2 +1,2 @@ -function reset(){workflow&&workflow.remove_all(),workflow=new Workflow($("#canvas-container"))}function scroll_to_nodes(){var a,b,c=$("#canvas-viewport"),d=$("#canvas-container");b=d.width().toolForm:last>.toolFormTitle>.buttons").click(function(){action_to_rem=$(this).closest(".toolForm",".action_tag").children(".action_tag:first").text(),$(this).closest(".toolForm").remove(),delete workflow.active_node.post_job_actions[action_to_rem],workflow.active_form_has_changes=!0})}function display_pja_list(){return pja_list}function display_file_list(a){addlist="",addlist}function new_pja(a,b,c){if(void 0===c.post_job_actions&&(c.post_job_actions={}),void 0===c.post_job_actions[a+b]){var d={};return 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Edit Step Attributes
Add an annotation or notes to this step; annotations are available when a workflow is viewed.
"),b&&"tool"==b.type){pjastr="

Edit Step Actions
"+display_pja_list()+"
"+display_file_list(b)+"
Create
",pjastr+="
Add actions to this step; actions are applied when this workflow step completes.
",$("#right-content").find(".toolForm").after(pjastr);for(var c in b.post_job_actions)"undefined"!=c&&display_pja(b.post_job_actions[c],b);$("#add_pja").click(function(){new_pja($("#new_pja_list").val(),$("#node_data_list").val(),b)})}$("#right-content").find("form").ajaxForm({type:"POST",dataType:"json",success:function(a){workflow.active_form_has_changes=!1,b.update_field_data(a),show_workflow_parameters()},beforeSubmit:function(a){a.push({name:"tool_state",value:b.tool_state}),a.push({name:"_",value:"true"})}}).each(function(){var a=this;$(this).find("select[refresh_on_change='true']").change(function(){$(a).submit()}),$(this).find("input[refresh_on_change='true']").change(function(){$(a).submit()}),$(this).find(".popupmenu").each(function(){var b=$(this).parents("div.form-row").attr("id"),c=$('▼'),d={};$(this).find("button").each(function(){var b=$(this).attr("name"),c=$(this).attr("value");d[$(this).text()]=function(){$(a).append("").submit()}}),c.insertAfter(this),$(this).remove(),make_popupmenu(c,d)}),$(this).find("input,textarea,select").each(function(){$(this).bind("focus click",function(){workflow.active_form_has_changes=!0})})})}$(function(){function a(){workflow.layout(),workflow.fit_canvas_to_nodes(),scroll_to_nodes(),canvas_manager.draw_overview()}function b(){workflow.clear_active_node(function(){$(".right-content").hide(),$("#edit-attributes").show()})}function c(){$.jStorage.set("overview-off",!1),$("#overview-border").css("right","0px"),$("#close-viewport").css("background-position","0px 0px")}function d(){$.jStorage.set("overview-off",!0),$("#overview-border").css("right","20000px"),$("#close-viewport").css("background-position","12px 0px")}if(window.lt_ie_7)return void show_modal("Browser not supported","Sorry, the workflow editor is not supported for IE6 and below.");$("#tool-search-query").click(function(){$(this).focus(),$(this).select()}).keyup(function(){if($(this).css("font-style","normal"),this.value.length<3)reset_tool_search(!1);else if(this.value!=this.lastValue){$(this).addClass("search_active");var a=this.value;this.timer&&clearTimeout(this.timer),$("#search-spinner").show();var b=galaxy_config.root+"api/tools";this.timer=setTimeout(function(){$.get(b,{q:a},function(a){if($("#search-no-results").hide(),$(".toolSectionWrapper").hide(),$(".toolSectionWrapper").find(".toolTitle").hide(),0!=a.length){var b=$.map(a,function(a){return"link-"+a});$(b).each(function(a,b){$("[id='"+b+"']").parent().addClass("search_match"),$("[id='"+b+"']").parent().show().parent().parent().show().parent().show()}),$(".toolPanelLabel").each(function(){for(var a=$(this),b=a.next(),c=!0;0!==b.length&&b.hasClass("toolTitle");){if(b.is(":visible")){c=!1;break}b=b.next()}c&&a.hide()})}else $("#search-no-results").show();$("#search-spinner").hide()},"json")},400)}this.lastValue=this.value}),canvas_manager=new CanvasManager($("#canvas-viewport"),$("#overview")),reset(),datatypes=JSON.parse($.ajax({type:"GET",url:galaxy_config.root+"api/datatypes",async:!1}).responseText),$.ajax({url:get_datatypes_url,dataType:"json",cache:!1,success:function(a){populate_datatype_info(a),$.ajax({url:load_workflow_url,data:{id:workflow_id,_:"true"},dataType:"json",cache:!1,success:function(a){reset(),workflow.from_simple(a),workflow.has_changes=!1,workflow.fit_canvas_to_nodes(),scroll_to_nodes(),canvas_manager.draw_overview(),upgrade_message="",$.each(a.upgrade_messages,function(a,b){upgrade_message+="
  • Step "+(parseInt(a,10)+1)+": "+workflow.nodes[a].name+"
      ",$.each(b,function(a,b){upgrade_message+="
    • "+b+"
      • "}),upgrade_message+="
    • "}),upgrade_message?show_modal("Workflow loaded with changes","Problems were encountered loading this workflow (possibly a result of tool upgrades). Please review the following parameters and then save.
      "+upgrade_message+"
    ",{Continue:hide_modal}):hide_modal(),show_workflow_parameters()},beforeSubmit:function(){show_message("Loading workflow","progress")}})}}),$(document).ajaxStart(function(){active_ajax_call=!0,$(document).bind("ajaxStop.global",function(){active_ajax_call=!1})}),$(document).ajaxError(function(a,b){var c=b.responseText||b.statusText||"Could not connect to server";return show_modal("Server error",c,{"Ignore error":hide_modal}),!1}),make_popupmenu($("#workflow-options-button"),{Save:save_current_workflow,Run:function(){window.location=run_workflow_url},"Edit Attributes":b,"Auto Re-layout":a,Close:close_editor}),overview_size=$.jStorage.get("overview-size"),void 0!==overview_size&&$("#overview-border").css({width:overview_size,height:overview_size}),$.jStorage.get("overview-off")?d():c(),$("#overview-border").bind("dragend",function(a,b){var c=$(this).offsetParent(),d=c.offset(),e=Math.max(c.width()-(b.offsetX-d.left),c.height()-(b.offsetY-d.top));$.jStorage.set("overview-size",e+"px")}),$("#close-viewport").click(function(){"0px"===$("#overview-border").css("right")?d():c()}),window.onbeforeunload=function(){return workflow&&workflow.has_changes?"There are unsaved changes to your workflow which will be lost.":void 0},$("div.toolSectionBody").hide(),$("div.toolSectionTitle > span").wrap("");var e=null;$("div.toolSectionTitle").each(function(){var a=$(this).next("div.toolSectionBody");$(this).click(function(){a.is(":hidden")?(e&&e.slideUp("fast"),e=a,a.slideDown("fast")):(a.slideUp("fast"),e=null)})}),async_save_text("workflow-name","workflow-name",rename_async_url,"new_name"),$("#workflow-tag").click(function(){return $(".tag-area").click(),!1}),async_save_text("workflow-annotation","workflow-annotation",annotate_async_url,"new_annotation",25,!0,4)});var close_editor=function(){workflow.check_changes_in_active_form(),workflow&&workflow.has_changes?(do_close=function(){window.onbeforeunload=void 0,window.document.location=workflow_index_url},show_modal("Close workflow editor","There are unsaved changes to your workflow which will be lost.",{Cancel:hide_modal,"Save Changes":function(){save_current_workflow(null,do_close)}},{"Don't Save":do_close})):window.document.location=workflow_index_url},save_current_workflow=function(a,b){if(show_message("Saving workflow","progress"),workflow.check_changes_in_active_form(),!workflow.has_changes)return hide_modal(),void(b&&b());workflow.rectify_workflow_outputs();var c=function(a){$.ajax({url:save_workflow_url,type:"POST",data:{id:workflow_id,workflow_data:function(){return JSON.stringify(workflow.to_simple())},_:"true"},dataType:"json",success:function(b){var c=$("
    ").text(b.message);if(b.errors){c.addClass("warningmark");var d=$("
      ");$.each(b.errors,function(a,b){$("
    • ").text(b).appendTo(d)}),c.append(d)}else c.addClass("donemark");workflow.name=b.name,workflow.has_changes=!1,workflow.stored=!0,show_workflow_parameters(),b.errors?show_modal("Saving workflow",c,{Ok:hide_modal}):(a&&a(),hide_modal())}})};active_ajax_call?$(document).bind("ajaxStop.save_workflow",function(){$(document).unbind("ajaxStop.save_workflow"),c(),$(document).unbind("ajaxStop.save_workflow"),active_ajax_call=!1}):c(b)}; +function reset(){workflow&&workflow.remove_all(),workflow=new Workflow($("#canvas-container"))}function scroll_to_nodes(){var a,b,c=$("#canvas-viewport"),d=$("#canvas-container");b=d.width().toolForm:last>.toolFormTitle>.buttons").click(function(){action_to_rem=$(this).closest(".toolForm",".action_tag").children(".action_tag:first").text(),$(this).closest(".toolForm").remove(),delete workflow.active_node.post_job_actions[action_to_rem],workflow.active_form_has_changes=!0})}function display_pja_list(){return pja_list}function display_file_list(a){addlist="",addlist}function new_pja(a,b,c){if(void 0===c.post_job_actions&&(c.post_job_actions={}),void 0===c.post_job_actions[a+b]){var d={};return d.action_type=a,d.output_name=b,c.post_job_actions[a+b]=null,c.post_job_actions[a+b]=d,display_pja(d,c),workflow.active_form_has_changes=!0,!0}return!1}function show_workflow_parameters(){var a=/\$\{.+?\}/g,b=[],c=$("#workflow-parameters-container"),d=$("#workflow-parameters-box"),e="",f=[];$.each(workflow.nodes,function(c,d){var e=d.form_html.match(a);e&&(f=f.concat(e)),d.post_job_actions&&($.each(d.post_job_actions,function(b,c){c.action_arguments&&$.each(c.action_arguments,function(b,c){var d=c.match(a);d&&(f=f.concat(d))})}),f&&$.each(f,function(a,c){-1===$.inArray(c,b)&&b.push(c)}))}),b&&0!==b.length?($.each(b,function(a,b){e+="
      "+b.substring(2,b.length-1)+"
      "}),c.html(e),d.show()):(c.html(e),d.hide())}function show_tool_form(a,b,c){require(["utils/utils","mvc/tools/tools-form-workflow"],function(d,e){var f="right-content",g=f+"-"+b.id,h=$("#"+f),i=h.find("#"+g);if(i.length>0&&0==i.find(".section-row").length&&i.remove(),0==h.find("#"+g).length){var j=$('
      ');if("tool"==b.type){var k=JSON.parse(a);k.datatypes=datatypes,j.append(new e.View(k).$el)}else j.append(generic_form_template(a,b));h.append(j)}$("."+f).hide(),h.find("#"+g).show(),h.show(),h.scrollTop(),c&&c()})}function generic_form_template(a,b){var c=$("
      ").html(a);return b&&"no-node"!=b.id&&(c.find(".toolForm:first").after("

      Edit Step Attributes
      Add an annotation or notes to this step; annotations are available when a workflow is viewed.
      "),c.find("form").ajaxForm({type:"POST",dataType:"json",success:function(a){workflow.active_form_has_changes=!1,b.update_field_data(a),show_workflow_parameters()},beforeSubmit:function(a){a.push({name:"tool_state",value:b.tool_state}),a.push({name:"_",value:"true"})}}).each(function(){var a=this;$(this).find("select[refresh_on_change='true']").change(function(){$(a).submit()}),$(this).find("input[refresh_on_change='true']").change(function(){$(a).submit()}),$(this).find("input,textarea,select").each(function(){$(this).bind("focus click",function(){workflow.active_form_has_changes=!0})})})),c}function show_form_for_tool(a,b){if($(".right-content").hide(),$("#right-content").show().html(a),b&&$("#right-content").find(".toolForm:first").after("

      Edit Step Attributes
      Add an annotation or notes to this step; annotations are available when a workflow is viewed.
      "),b&&"tool"==b.type){pjastr="

      Edit Step Actions
      "+display_pja_list()+"
      "+display_file_list(b)+"
      Create
      ",pjastr+="
      Add actions to this step; actions are applied when this workflow step completes.
      ",$("#right-content").find(".toolForm").after(pjastr);for(var c in b.post_job_actions)"undefined"!=c&&display_pja(b.post_job_actions[c],b);$("#add_pja").click(function(){new_pja($("#new_pja_list").val(),$("#node_data_list").val(),b)})}$("#right-content").find("form").ajaxForm({type:"POST",dataType:"json",success:function(a){workflow.active_form_has_changes=!1,b.update_field_data(a),show_workflow_parameters()},beforeSubmit:function(a){a.push({name:"tool_state",value:b.tool_state}),a.push({name:"_",value:"true"})}}).each(function(){var a=this;$(this).find("select[refresh_on_change='true']").change(function(){$(a).submit()}),$(this).find("input[refresh_on_change='true']").change(function(){$(a).submit()}),$(this).find(".popupmenu").each(function(){var b=$(this).parents("div.form-row").attr("id"),c=$('▼'),d={};$(this).find("button").each(function(){var b=$(this).attr("name"),c=$(this).attr("value");d[$(this).text()]=function(){$(a).append("").submit()}}),c.insertAfter(this),$(this).remove(),make_popupmenu(c,d)}),$(this).find("input,textarea,select").each(function(){$(this).bind("focus click",function(){workflow.active_form_has_changes=!0})})})}$(function(){function a(){workflow.layout(),workflow.fit_canvas_to_nodes(),scroll_to_nodes(),canvas_manager.draw_overview()}function b(){workflow.clear_active_node(function(){$(".right-content").hide(),$("#edit-attributes").show()})}function c(){$.jStorage.set("overview-off",!1),$("#overview-border").css("right","0px"),$("#close-viewport").css("background-position","0px 0px")}function d(){$.jStorage.set("overview-off",!0),$("#overview-border").css("right","20000px"),$("#close-viewport").css("background-position","12px 0px")}if(window.lt_ie_7)return void show_modal("Browser not supported","Sorry, the workflow editor is not supported for IE6 and below.");$("#tool-search-query").click(function(){$(this).focus(),$(this).select()}).keyup(function(){if($(this).css("font-style","normal"),this.value.length<3)reset_tool_search(!1);else if(this.value!=this.lastValue){$(this).addClass("search_active");var a=this.value;this.timer&&clearTimeout(this.timer),$("#search-spinner").show();var b=galaxy_config.root+"api/tools";this.timer=setTimeout(function(){$.get(b,{q:a},function(a){if($("#search-no-results").hide(),$(".toolSectionWrapper").hide(),$(".toolSectionWrapper").find(".toolTitle").hide(),0!=a.length){var b=$.map(a,function(a){return"link-"+a});$(b).each(function(a,b){$("[id='"+b+"']").parent().addClass("search_match"),$("[id='"+b+"']").parent().show().parent().parent().show().parent().show()}),$(".toolPanelLabel").each(function(){for(var a=$(this),b=a.next(),c=!0;0!==b.length&&b.hasClass("toolTitle");){if(b.is(":visible")){c=!1;break}b=b.next()}c&&a.hide()})}else $("#search-no-results").show();$("#search-spinner").hide()},"json")},400)}this.lastValue=this.value}),canvas_manager=new CanvasManager($("#canvas-viewport"),$("#overview")),reset(),datatypes=JSON.parse($.ajax({type:"GET",url:galaxy_config.root+"api/datatypes",async:!1}).responseText),$.ajax({url:get_datatypes_url,dataType:"json",cache:!1,success:function(a){populate_datatype_info(a),$.ajax({url:load_workflow_url,data:{id:workflow_id,_:"true"},dataType:"json",cache:!1,success:function(a){reset(),workflow.from_simple(a),workflow.has_changes=!1,workflow.fit_canvas_to_nodes(),scroll_to_nodes(),canvas_manager.draw_overview(),upgrade_message="",$.each(a.upgrade_messages,function(a,b){upgrade_message+="
    • Step "+(parseInt(a,10)+1)+": "+workflow.nodes[a].name+"
        ",$.each(b,function(a,b){upgrade_message+="
      • "+b+"
        • "}),upgrade_message+="
      • "}),upgrade_message?show_modal("Workflow loaded with changes","Problems were encountered loading this workflow (possibly a result of tool upgrades). Please review the following parameters and then save.
        "+upgrade_message+"
      ",{Continue:hide_modal}):hide_modal(),show_workflow_parameters()},beforeSubmit:function(){show_message("Loading workflow","progress")}})}}),$(document).ajaxStart(function(){active_ajax_call=!0,$(document).bind("ajaxStop.global",function(){active_ajax_call=!1})}),$(document).ajaxError(function(a,b){var c=b.responseText||b.statusText||"Could not connect to server";return show_modal("Server error",c,{"Ignore error":hide_modal}),!1}),make_popupmenu($("#workflow-options-button"),{Save:save_current_workflow,Run:function(){window.location=run_workflow_url},"Edit Attributes":b,"Auto Re-layout":a,Close:close_editor}),overview_size=$.jStorage.get("overview-size"),void 0!==overview_size&&$("#overview-border").css({width:overview_size,height:overview_size}),$.jStorage.get("overview-off")?d():c(),$("#overview-border").bind("dragend",function(a,b){var c=$(this).offsetParent(),d=c.offset(),e=Math.max(c.width()-(b.offsetX-d.left),c.height()-(b.offsetY-d.top));$.jStorage.set("overview-size",e+"px")}),$("#close-viewport").click(function(){"0px"===$("#overview-border").css("right")?d():c()}),window.onbeforeunload=function(){return workflow&&workflow.has_changes?"There are unsaved changes to your workflow which will be lost.":void 0},$("div.toolSectionBody").hide(),$("div.toolSectionTitle > span").wrap("");var e=null;$("div.toolSectionTitle").each(function(){var a=$(this).next("div.toolSectionBody");$(this).click(function(){a.is(":hidden")?(e&&e.slideUp("fast"),e=a,a.slideDown("fast")):(a.slideUp("fast"),e=null)})}),async_save_text("workflow-name","workflow-name",rename_async_url,"new_name"),$("#workflow-tag").click(function(){return $(".tag-area").click(),!1}),async_save_text("workflow-annotation","workflow-annotation",annotate_async_url,"new_annotation",25,!0,4)});var close_editor=function(){workflow.check_changes_in_active_form(),workflow&&workflow.has_changes?(do_close=function(){window.onbeforeunload=void 0,window.document.location=workflow_index_url},show_modal("Close workflow editor","There are unsaved changes to your workflow which will be lost.",{Cancel:hide_modal,"Save Changes":function(){save_current_workflow(null,do_close)}},{"Don't Save":do_close})):window.document.location=workflow_index_url},save_current_workflow=function(a,b){if(show_message("Saving workflow","progress"),workflow.check_changes_in_active_form(),!workflow.has_changes)return hide_modal(),void(b&&b());workflow.rectify_workflow_outputs();var c=function(a){$.ajax({url:save_workflow_url,type:"POST",data:{id:workflow_id,workflow_data:function(){return JSON.stringify(workflow.to_simple())},_:"true"},dataType:"json",success:function(b){var c=$("
      ").text(b.message);if(b.errors){c.addClass("warningmark");var d=$("
        ");$.each(b.errors,function(a,b){$("
      • ").text(b).appendTo(d)}),c.append(d)}else c.addClass("donemark");workflow.name=b.name,workflow.has_changes=!1,workflow.stored=!0,show_workflow_parameters(),b.errors?show_modal("Saving workflow",c,{Ok:hide_modal}):(a&&a(),hide_modal())}})};active_ajax_call?$(document).bind("ajaxStop.save_workflow",function(){$(document).unbind("ajaxStop.save_workflow"),c(),$(document).unbind("ajaxStop.save_workflow"),active_ajax_call=!1}):c(b)}; //# sourceMappingURL=../maps/galaxy.workflows.js.map \ No newline at end of file