mirror of
https://github.com/galaxyproject/galaxy.git
synced 2026-09-24 16:30:27 +08:00
Merge branch 'dev' into fix_search_icons
This commit is contained in:
guerler
@@ -18,6 +18,7 @@ database/files
|
||||
database/jobs_directory
|
||||
database/job_working_directory
|
||||
database/pbs
|
||||
database/shed_tools
|
||||
database/test_errors
|
||||
database/tmp
|
||||
database/*.sqlite
|
||||
|
||||
+1
-1
@@ -112,5 +112,5 @@ If no existing Galaxy issue seems appropriate, a new issue can be opened using
|
||||
this repository - please checkout the
|
||||
[tools-iuc](https://github.com/galaxyproject/tools-iuc) repository on GitHub.
|
||||
|
||||
More information about tool development can be found [on the comunity
|
||||
More information about tool development can be found [on the community
|
||||
hub](https://galaxyproject.org/develop).
|
||||
|
||||
@@ -89,7 +89,6 @@ Disabled
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
</div>
|
||||
```
|
||||
|
||||
```vue
|
||||
|
||||
@@ -16,7 +16,7 @@
|
||||
<table v-if="match(plugin)">
|
||||
<tr class="ui-thumbnails-item" @click="select(plugin)">
|
||||
<td>
|
||||
<img v-if="plugin.logo" class="ui-thumbnails-image" :src="plugin.logo" />
|
||||
<img v-if="plugin.logo" alt="ui thumbnails" class="ui-thumbnails-image" :src="plugin.logo" />
|
||||
<div v-else class="ui-thumbnails-icon fa fa-eye" />
|
||||
</td>
|
||||
<td>
|
||||
|
||||
@@ -50,8 +50,8 @@ function TagModel(props = {}) {
|
||||
enumerable: false,
|
||||
get: function() {
|
||||
if (!this.text.length) return false;
|
||||
if (this.text == "name:") return false;
|
||||
return true;
|
||||
return this.text != "name:";
|
||||
|
||||
}
|
||||
});
|
||||
}
|
||||
|
||||
@@ -0,0 +1,53 @@
|
||||
<template>
|
||||
<b-card>
|
||||
<h4 slot="header" class="mb-0">
|
||||
References
|
||||
</h4>
|
||||
<table>
|
||||
<tr v-for="(xref, index) in xrefs" v-bind:key="index">
|
||||
<th> - {{xref.reftype}}: </th>
|
||||
<td>
|
||||
<template v-if="xref.reftype == 'bio.tools'">
|
||||
<a :href="`https://bio.tools/${xref.value}`" target="_blank">{{xref.value}}</a>
|
||||
</template>
|
||||
<template v-else>
|
||||
{{ xref.value }}
|
||||
</template>
|
||||
</td>
|
||||
</tr>
|
||||
</table>
|
||||
</b-card>
|
||||
</template>
|
||||
<script>
|
||||
import { getAppRoot } from "onload/loadConfig";
|
||||
import axios from "axios";
|
||||
|
||||
export default {
|
||||
props: {
|
||||
source: {
|
||||
type: String,
|
||||
required: true
|
||||
},
|
||||
id: {
|
||||
type: String,
|
||||
required: true
|
||||
}
|
||||
},
|
||||
data() {
|
||||
return {
|
||||
xrefs: [],
|
||||
errors: []
|
||||
};
|
||||
},
|
||||
created: function() {
|
||||
axios
|
||||
.get(`${getAppRoot()}api/${this.source}/${this.id}/xrefs`)
|
||||
.then(response => {
|
||||
this.xrefs = response.data;
|
||||
})
|
||||
.catch(e => {
|
||||
console.error(e);
|
||||
});
|
||||
}
|
||||
};
|
||||
</script>
|
||||
@@ -88,8 +88,7 @@ export const getAnalysisRouter = Galaxy =>
|
||||
const instance = Vue.extend(component);
|
||||
const container = document.createElement("div");
|
||||
this.page.display(container);
|
||||
const vm = new instance(props).$mount(container);
|
||||
return vm;
|
||||
return new instance(props).$mount(container);
|
||||
},
|
||||
|
||||
show_tours: function(tour_id) {
|
||||
|
||||
@@ -92,13 +92,12 @@ export const CommunicationServerView = Backbone.View.extend({
|
||||
|
||||
/**renders the chat icon as a nav item*/
|
||||
render: function() {
|
||||
const navItem = {
|
||||
return {
|
||||
id: "show-chat-online",
|
||||
icon: "fa-comment-o",
|
||||
tooltip: _l("Chat online"),
|
||||
visible: false,
|
||||
onclick: this.makeModalIframe
|
||||
};
|
||||
return navItem;
|
||||
}
|
||||
});
|
||||
|
||||
@@ -99,7 +99,7 @@ const View = Backbone.View.extend({
|
||||
return `
|
||||
<nav id="masthead" class="navbar navbar-expand justify-content-center navbar-dark">
|
||||
<a class="navbar-brand">
|
||||
<img class="navbar-brand-image"/>
|
||||
<img alt="navigation brand image" class="navbar-brand-image"/>
|
||||
<span class="navbar-brand-title"/>
|
||||
</a>
|
||||
<ul class="navbar-nav"/>
|
||||
|
||||
@@ -134,8 +134,7 @@ var DatasetDCE = DATASET_MODEL.DatasetAssociation.extend(
|
||||
return `${getAppRoot()}api/datasets`;
|
||||
}
|
||||
const datasetId = this._getDatasetId();
|
||||
const url = `${getAppRoot()}api/histories/${this.get("history_id")}/contents/${datasetId}`;
|
||||
return url;
|
||||
return `${getAppRoot()}api/histories/${this.get("history_id")}/contents/${datasetId}`;
|
||||
},
|
||||
|
||||
_getDatasetId: function() {
|
||||
|
||||
@@ -1491,8 +1491,7 @@ var PairedCollectionCreator = Backbone.View.extend(baseMVC.LoggableMixin)
|
||||
//this.debug( '_pairDragstart', ev, pair )
|
||||
// auto select the pair causing the event and move all selected
|
||||
pair.$el.addClass("selected");
|
||||
var $selected = this.$(".paired-columns .dataset.selected");
|
||||
this.$dragging = $selected;
|
||||
this.$dragging = this.$(".paired-columns .dataset.selected");
|
||||
},
|
||||
/** drag communication with pair sub-views: dragend - remove the placeholder */
|
||||
_pairDragend: function(ev, pair) {
|
||||
|
||||
@@ -78,8 +78,7 @@ export var HistoryContents = _super.extend(BASE_MVC.LoggableMixin).extend({
|
||||
history_id: this.history_id,
|
||||
collection_id: historyContent.attributes.id
|
||||
});
|
||||
var jobStatesSummary = this.jobStateSummariesCollection.get(jobSourceId);
|
||||
historyContent.jobStatesSummary = jobStatesSummary;
|
||||
historyContent.jobStatesSummary = this.jobStateSummariesCollection.get(jobSourceId);
|
||||
}
|
||||
}
|
||||
});
|
||||
|
||||
@@ -50,8 +50,7 @@ var HistoryGridView = GridView.extend({
|
||||
$(`.delayed-value-datasets_by_state[data-id='${historyId}']`).html(stateHtml);
|
||||
$(`.delayed-value-disk_size[data-id='${historyId}']`).html(req.nice_size);
|
||||
};
|
||||
var xhr = $.ajax(options);
|
||||
return xhr;
|
||||
return $.ajax(options);
|
||||
};
|
||||
})
|
||||
);
|
||||
|
||||
@@ -469,8 +469,7 @@ var HistoryView = _super.extend(
|
||||
// if sent two strings (and possibly details as 'options'), use those as message and title
|
||||
if (_.isString(model) && _.isString(xhr)) {
|
||||
var message = model;
|
||||
var title = xhr;
|
||||
return ERROR_MODAL.errorModal(message, title, options);
|
||||
return ERROR_MODAL.errorModal(message, xhr, options);
|
||||
}
|
||||
// bad gateway
|
||||
// TODO: possibly to global handler
|
||||
|
||||
@@ -94,10 +94,8 @@ var HistoryViewColumn = Backbone.View.extend(baseMVC.LoggableMixin).extend({
|
||||
if (columnRight < viewLeft) {
|
||||
return false;
|
||||
}
|
||||
if (columnLeft > viewRight) {
|
||||
return false;
|
||||
}
|
||||
return true;
|
||||
return columnLeft <= viewRight;
|
||||
|
||||
},
|
||||
|
||||
/** shortcut to the panel */
|
||||
@@ -438,8 +436,7 @@ var MultiPanelColumns = Backbone.View.extend(baseMVC.LoggableMixin).extend({
|
||||
// if sent two strings (and possibly details as 'options'), use those as message and title
|
||||
if (_.isString(model) && _.isString(xhr)) {
|
||||
var message = model;
|
||||
var title = xhr;
|
||||
return ERROR_MODAL.errorModal(message, title, options);
|
||||
return ERROR_MODAL.errorModal(message, xhr, options);
|
||||
}
|
||||
// bad gateway
|
||||
// TODO: possibly to global handler
|
||||
@@ -600,15 +597,13 @@ var MultiPanelColumns = Backbone.View.extend(baseMVC.LoggableMixin).extend({
|
||||
return this.sortedColumns();
|
||||
}
|
||||
return this.sortedColumns().filter((column, index) => {
|
||||
var filtered = column.currentHistory || _.every(filters.map(filter => filter.call(column)));
|
||||
return filtered;
|
||||
return column.currentHistory || _.every(filters.map(filter => filter.call(column)));
|
||||
});
|
||||
},
|
||||
|
||||
/** return array of Columns sorted to match the collection */
|
||||
sortedColumns: function() {
|
||||
var sorted = this.collection.map((history, index) => this.columnMap[history.id]);
|
||||
return sorted;
|
||||
return this.collection.map((history, index) => this.columnMap[history.id]);
|
||||
},
|
||||
|
||||
// ------------------------------------------------------------------------ render
|
||||
|
||||
@@ -107,8 +107,7 @@ var JobListItemView = _super.extend(
|
||||
return undefined;
|
||||
}
|
||||
|
||||
var subMatch = _.find(partialMatch.inputs, i => name.indexOf(i.name) !== -1);
|
||||
return subMatch;
|
||||
return _.find(partialMatch.inputs, i => name.indexOf(i.name) !== -1);
|
||||
},
|
||||
|
||||
// ........................................................................ misc
|
||||
@@ -154,7 +153,7 @@ JobListItemView.prototype.templates = (() => {
|
||||
'<span class="name"><%- view.tool.name %></span>',
|
||||
"</div>",
|
||||
'<div class="subtitle">',
|
||||
'<span class="description"><%- view.tool.description %></span',
|
||||
'<span class="description"><%- view.tool.description %></span>',
|
||||
'<span class="create-time">',
|
||||
" ",
|
||||
_l("Created"),
|
||||
@@ -169,7 +168,7 @@ JobListItemView.prototype.templates = (() => {
|
||||
var subtitleTemplate = BASE_MVC.wrapTemplate(
|
||||
[
|
||||
'<div class="subtitle">',
|
||||
'<span class="description"><%- view.tool.description %></span',
|
||||
'<span class="description"><%- view.tool.description %></span>',
|
||||
//'<span class="create-time">',
|
||||
// ' ', _l( 'Created' ), ': <%= new Date( job.create_time ).toString() %>, ',
|
||||
//'</span',
|
||||
|
||||
@@ -55,8 +55,7 @@ export default Backbone.View.extend({
|
||||
// TODO: View is unused here.
|
||||
//var view = this.content_list[model.id];
|
||||
if (!this.content_list[model.id]) {
|
||||
var content = this.new_content(model);
|
||||
this.content_list[model.id] = content;
|
||||
this.content_list[model.id] = this.new_content(model);
|
||||
if (this._done()) {
|
||||
break;
|
||||
}
|
||||
|
||||
@@ -741,7 +741,7 @@ var LibraryDatasetView = Backbone.View.extend({
|
||||
<% } %>
|
||||
<% if (item.get("message")) { %>
|
||||
<tr>
|
||||
<th scope="row">Message</th>
|
||||
<th scope="row">Description</th>
|
||||
<td scope="row"><%= _.escape(item.get("message")) %></td>
|
||||
</tr>
|
||||
<% } %>
|
||||
|
||||
@@ -25,7 +25,9 @@ var FolderListView = Backbone.View.extend({
|
||||
"click .folder_row": "selectClickedRow",
|
||||
"click .sort-folder-name": "sortColumnClicked",
|
||||
"click .sort-folder-file_ext": "sortColumnClicked",
|
||||
"click .sort-folder-description": "sortColumnClicked",
|
||||
"click .sort-folder-message": "sortColumnClicked",
|
||||
"click .sort-folder-update_time": "sortColumnClicked",
|
||||
"click .sort-folder-raw_size": "sortColumnClicked",
|
||||
"click .sort-folder-state": "sortColumnClicked"
|
||||
},
|
||||
|
||||
@@ -275,6 +277,21 @@ var FolderListView = Backbone.View.extend({
|
||||
this.renderSortIcon();
|
||||
},
|
||||
|
||||
/**
|
||||
* In case the search_term is not empty perform the search and render
|
||||
* the result. Render all visible folder items otherwise.
|
||||
* @param {string} search_term string to search for
|
||||
*/
|
||||
searchFolder: function(search_term) {
|
||||
const trimmed_term = $.trim(search_term);
|
||||
if (trimmed_term !== "") {
|
||||
const result_collection = this.folder_container.search(search_term);
|
||||
this.collection.reset(result_collection);
|
||||
} else {
|
||||
this.paginate();
|
||||
}
|
||||
},
|
||||
|
||||
/**
|
||||
* User clicked the checkbox in the table heading
|
||||
* @param {context} event
|
||||
@@ -337,10 +354,11 @@ var FolderListView = Backbone.View.extend({
|
||||
},
|
||||
|
||||
renderSortIcon: function() {
|
||||
$('[class*="sort-icon"]')
|
||||
.removeClass("fa-sort-alpha-desc")
|
||||
.removeClass("fa-sort-alpha-asc");
|
||||
|
||||
if (this.current_sort_order === "asc") {
|
||||
$('[class*="sort-icon"]')
|
||||
.removeClass("fa-sort-alpha-desc")
|
||||
.removeClass("fa-sort-alpha-asc");
|
||||
$(`.sort-icon-${this.current_sort_key}`).addClass("fa-sort-alpha-asc");
|
||||
} else {
|
||||
$(`.sort-icon-${this.current_sort_key}`).addClass("fa-sort-alpha-desc");
|
||||
@@ -463,7 +481,7 @@ var FolderListView = Backbone.View.extend({
|
||||
<a title="Return to this folder" href="#/folders/<%- path_item[0] %>">
|
||||
<%- path_item[1] %>
|
||||
</a>
|
||||
</li>
|
||||
</li>
|
||||
<% } else { %>
|
||||
<li class="breadcrumb-item active">
|
||||
<span title="You are in this folder">
|
||||
@@ -484,24 +502,29 @@ var FolderListView = Backbone.View.extend({
|
||||
</th>
|
||||
<th>
|
||||
<a class="sort-folder-name" title="Click to reverse order" href="#">Name</a>
|
||||
<span title="Sorted alphabetically"
|
||||
class="sort-icon-name fa fa-sort-alpha-<%- order %>"></span>
|
||||
<span title="Sorted by Name" class="sort-icon-name fa fa-sort-alpha-<%- order %>"></span>
|
||||
</th>
|
||||
<th style="width:20%;">
|
||||
<a class="sort-folder-description" title="Click to reverse order" href="#">Description</a>
|
||||
<span title="Sorted alphabetically" class="sort-icon-description fa"></span>
|
||||
<a class="sort-folder-message" title="Click to reverse order" href="#">Description</a>
|
||||
<span title="Sorted by Desc." class="sort-icon-message fa"></span>
|
||||
</th>
|
||||
<th style="width:5%;">
|
||||
<a class="sort-folder-file_ext" title="Click to reverse order" href="#">Data Type</a>
|
||||
<span title="Sorted alphabetically" class="sort-icon-file_ext fa"></span>
|
||||
<span title="Sorted by Type" class="sort-icon-file_ext fa"></span>
|
||||
</th>
|
||||
<th style="width:10%;">
|
||||
<a class="sort-folder-raw_size" title="Click to reverse order" href='#'>Size</a>
|
||||
<span title="Sorted by Size" class="sort-icon-raw_size fa"></span>
|
||||
</th>
|
||||
<th style="width:160px;">
|
||||
<a class="sort-folder-update_time" title="Click to reverse order" href='#'>Time Updated (UTC)</a>
|
||||
<span title="Sorted by Date" class="sort-icon-update_time fa"></span>
|
||||
</th>
|
||||
<th style="width:10%;">Size</th>
|
||||
<th style="width:160px;">Time Updated (UTC)</th>
|
||||
<th style="width:5%;">
|
||||
<a class="sort-folder-state" title="Click to reverse order" href="#">State</a>
|
||||
<span title="Sorted alphabetically" class="sort-icon-state fa"></span>
|
||||
<span title="Sorted by State" class="sort-icon-state fa"></span>
|
||||
</th>
|
||||
<th style="width:160px;"></th>
|
||||
<th style="width:160px;"></th>
|
||||
</thead>
|
||||
<tbody id="folder_list_body">
|
||||
<tr id="first_folder_item">
|
||||
|
||||
@@ -25,7 +25,8 @@ var FolderToolbarView = Backbone.View.extend({
|
||||
"click .toolbtn-show-locinfo": "showLocInfo",
|
||||
"keydown .page_size": "changePageSize",
|
||||
"blur .page_size": "changePageSize",
|
||||
"click .toolbtn-collection-import": "showCollectionSelect"
|
||||
"click .toolbtn-collection-import": "showCollectionSelect",
|
||||
"keyup .folder-search-input": "searchFolder"
|
||||
},
|
||||
|
||||
defaults: {
|
||||
@@ -210,10 +211,12 @@ var FolderToolbarView = Backbone.View.extend({
|
||||
}
|
||||
},
|
||||
|
||||
/**
|
||||
* This function returns a promise
|
||||
*/
|
||||
fetchUserHistories: function() {
|
||||
this.histories = new mod_library_model.GalaxyHistories();
|
||||
var promise = this.histories.fetch();
|
||||
return promise;
|
||||
return this.histories.fetch();
|
||||
},
|
||||
|
||||
importAllIntoHistory: function() {
|
||||
@@ -238,9 +241,11 @@ var FolderToolbarView = Backbone.View.extend({
|
||||
}
|
||||
},
|
||||
|
||||
/**
|
||||
* This function returns a promise
|
||||
*/
|
||||
createNewHistory: function(new_history_name) {
|
||||
var promise = $.post(`${getAppRoot()}api/histories`, { name: new_history_name });
|
||||
return promise;
|
||||
return $.post(`${getAppRoot()}api/histories`, { name: new_history_name });
|
||||
},
|
||||
|
||||
processImportToHistory: function(history_id, history_name) {
|
||||
@@ -1416,6 +1421,17 @@ var FolderToolbarView = Backbone.View.extend({
|
||||
return hdca.save(options);
|
||||
},
|
||||
|
||||
/**
|
||||
* Take the contents of the search field and send it to the list view
|
||||
* to query the collection of folder items.
|
||||
*/
|
||||
searchFolder: function(event) {
|
||||
const Galaxy = getGalaxyInstance();
|
||||
const search_term = $(".folder-search-input").val();
|
||||
this.options.search_term = search_term;
|
||||
Galaxy.libraries.folderListView.searchFolder(search_term);
|
||||
},
|
||||
|
||||
templateToolBar: function() {
|
||||
return _.template(
|
||||
`<div class="library_style_container">
|
||||
@@ -1425,6 +1441,7 @@ var FolderToolbarView = Backbone.View.extend({
|
||||
</a>
|
||||
<div>
|
||||
<form class="form-inline">
|
||||
<input type="text" id="folder-filter" class="form-control folder-search-input mr-1" placeholder="Search" size="15">
|
||||
<button style="display:none;" title="Create new folder"
|
||||
class="btn btn-secondary toolbtn-create-folder add-library-items add-library-items-folder mr-1"
|
||||
type="button">
|
||||
|
||||
@@ -51,13 +51,11 @@ var Libraries = Backbone.Collection.extend({
|
||||
*/
|
||||
getVisible: function(show_deleted, filters) {
|
||||
filters = filters || [];
|
||||
var filteredLibraries = new Libraries(this.filter(item => item.isVisible(show_deleted)));
|
||||
|
||||
return filteredLibraries;
|
||||
return new Libraries(this.filter(item => item.isVisible(show_deleted)));
|
||||
},
|
||||
|
||||
sortLibraries: function(sort_key, sort_order) {
|
||||
this.comparator = mod_util.generateLibraryComparator(sort_key, sort_order);
|
||||
this.comparator = mod_util.generateComparator(sort_key, sort_order);
|
||||
this.sort();
|
||||
}
|
||||
});
|
||||
@@ -79,7 +77,7 @@ var Folder = Backbone.Collection.extend({
|
||||
model: LibraryItem,
|
||||
|
||||
sortFolder: function(sort_key, sort_order) {
|
||||
this.comparator = mod_util.generateFolderComparator(sort_key, sort_order);
|
||||
this.comparator = mod_util.generateComparator(sort_key, sort_order);
|
||||
this.sort();
|
||||
}
|
||||
});
|
||||
@@ -90,6 +88,22 @@ var FolderContainer = Backbone.Model.extend({
|
||||
urlRoot: `${getAppRoot()}api/folders/`,
|
||||
id: "unknown"
|
||||
},
|
||||
|
||||
/**
|
||||
* Search the folder and return only the models that have
|
||||
* the search term in their names.
|
||||
* [the term to search]
|
||||
* @type {string}
|
||||
*/
|
||||
search: function(search_term) {
|
||||
if (search_term == "") return this;
|
||||
const lowercase_term = search_term.toLowerCase();
|
||||
return this.get("folder").filter(data => {
|
||||
const lowercase_name = data.get("name").toLowerCase();
|
||||
return lowercase_name.indexOf(lowercase_term) !== -1;
|
||||
});
|
||||
},
|
||||
|
||||
parse: function(obj) {
|
||||
const Galaxy = getGalaxyInstance();
|
||||
// empty the collection
|
||||
|
||||
@@ -6,7 +6,7 @@
|
||||
* @param {str} sort_order order to sort by (asc, desc)
|
||||
* @return {function} two-argument comparator function
|
||||
*/
|
||||
var generateFolderComparator = (sort_key, sort_order) => (itemA, itemB) => {
|
||||
var generateComparator = (sort_key, sort_order) => (itemA, itemB) => {
|
||||
if (itemA.get("type") === itemB.get("type")) {
|
||||
if (!itemA.has(sort_key) && !itemB.has(sort_key)) {
|
||||
return 0;
|
||||
@@ -15,12 +15,24 @@ var generateFolderComparator = (sort_key, sort_order) => (itemA, itemB) => {
|
||||
} else if (!itemB.has(sort_key)) {
|
||||
return -1;
|
||||
}
|
||||
if (itemA.get(sort_key).toLowerCase() > itemB.get(sort_key).toLowerCase()) {
|
||||
var comparable_itemA_key;
|
||||
var comparable_itemB_key;
|
||||
if (typeof itemA.get(sort_key) === "number") {
|
||||
comparable_itemA_key = itemA.get(sort_key);
|
||||
comparable_itemB_key = itemB.get(sort_key);
|
||||
}
|
||||
else
|
||||
{
|
||||
comparable_itemA_key = itemA.get(sort_key).toLowerCase();
|
||||
comparable_itemB_key = itemB.get(sort_key).toLowerCase();
|
||||
}
|
||||
if ( comparable_itemA_key > comparable_itemB_key) {
|
||||
return sort_order === "asc" ? 1 : -1;
|
||||
}
|
||||
if (itemB.get(sort_key).toLowerCase() > itemA.get(sort_key).toLowerCase()) {
|
||||
if (comparable_itemB_key > comparable_itemA_key) {
|
||||
return sort_order === "asc" ? -1 : 1;
|
||||
}
|
||||
|
||||
return 0; // equal
|
||||
} else {
|
||||
if (itemA.get("type") === "folder") {
|
||||
@@ -29,22 +41,6 @@ var generateFolderComparator = (sort_key, sort_order) => (itemA, itemB) => {
|
||||
return 1;
|
||||
}
|
||||
};
|
||||
/**
|
||||
* Create alphabetical based two-argument comparator
|
||||
* @param {str} sort_key key to sort by
|
||||
* @param {str} sort_order order to sort by (asc, desc)
|
||||
* @return {function} two-argument comparator function
|
||||
*/
|
||||
var generateLibraryComparator = (sort_key, sort_order) => (libraryA, libraryB) => {
|
||||
if (libraryA.get(sort_key).toLowerCase() > libraryB.get(sort_key).toLowerCase()) {
|
||||
return sort_order === "asc" ? 1 : -1;
|
||||
}
|
||||
if (libraryB.get(sort_key).toLowerCase() > libraryA.get(sort_key).toLowerCase()) {
|
||||
return sort_order === "asc" ? -1 : 1;
|
||||
}
|
||||
return 0; // equal
|
||||
};
|
||||
export default {
|
||||
generateFolderComparator: generateFolderComparator,
|
||||
generateLibraryComparator: generateLibraryComparator
|
||||
generateComparator: generateComparator
|
||||
};
|
||||
|
||||
@@ -421,13 +421,11 @@ export var FoldoutListItemView = ListItemView.extend({
|
||||
var FoldoutClass = this._getFoldoutPanelClass(model);
|
||||
var options = this._getFoldoutPanelOptions(model);
|
||||
|
||||
var foldout = new FoldoutClass(
|
||||
return new FoldoutClass(
|
||||
_.extend(options, {
|
||||
model: model
|
||||
})
|
||||
);
|
||||
|
||||
return foldout;
|
||||
},
|
||||
|
||||
/** Stub to return proper foldout panel class */
|
||||
|
||||
@@ -367,8 +367,7 @@ var ListPanel = Backbone.View.extend(BASE_MVC.LoggableMixin).extend(
|
||||
// console.log( 'models filtered:', shownModels );
|
||||
|
||||
panel.views = shownModels.map(itemModel => {
|
||||
var view = panel._createItemView(itemModel);
|
||||
return view;
|
||||
return panel._createItemView(itemModel);
|
||||
});
|
||||
|
||||
$list.empty();
|
||||
|
||||
@@ -865,8 +865,7 @@ const applyRules = function(data, sources, columns, rules, headersPerRule = [])
|
||||
const colHeadersPerRule = Array.from(headersPerRule);
|
||||
let hasRuleError = false;
|
||||
for (var ruleIndex in rules) {
|
||||
const ruleHeaders = colHeadersFor(data, columns);
|
||||
colHeadersPerRule[ruleIndex] = ruleHeaders;
|
||||
colHeadersPerRule[ruleIndex] = colHeadersFor(data, columns);
|
||||
const rule = rules[ruleIndex];
|
||||
rule.error = null;
|
||||
rule.warn = null;
|
||||
|
||||
@@ -117,7 +117,7 @@ var TagsEditor = Backbone.View.extend(baseMVC.LoggableMixin)
|
||||
});
|
||||
if (renderedArray.length === 0) {
|
||||
// If there are no tags to render we just show the add-tag-button
|
||||
renderedArray.push(`<img src=${addButton} class="add-tag-button" title="Add tags"/>`);
|
||||
renderedArray.push(`<img alt="add tag button" src=${addButton} class="add-tag-button" title="Add tags"/>`);
|
||||
}
|
||||
return renderedArray.join(" ");
|
||||
},
|
||||
|
||||
@@ -12,6 +12,7 @@ import Ui from "mvc/ui/ui-misc";
|
||||
import FormBase from "mvc/form/form-view";
|
||||
import Webhooks from "mvc/webhooks";
|
||||
import Citations from "components/Citations.vue";
|
||||
import xrefs from "components/xrefs.vue";
|
||||
import Vue from "vue";
|
||||
import axios from "axios";
|
||||
|
||||
@@ -279,6 +280,17 @@ export default FormBase.extend({
|
||||
}
|
||||
}).$mount(vm);
|
||||
}
|
||||
if (options.xrefs) {
|
||||
var xrefInstance = Vue.extend(xrefs);
|
||||
vm = document.createElement("div");
|
||||
$el.append(vm);
|
||||
new xrefInstance({
|
||||
propsData: {
|
||||
id: options.id,
|
||||
source: "tools"
|
||||
}
|
||||
}).$mount(vm);
|
||||
}
|
||||
return $el;
|
||||
},
|
||||
|
||||
|
||||
@@ -320,10 +320,9 @@ var ToolShedRepositoryView = Backbone.View.extend({
|
||||
},
|
||||
|
||||
selectedChangeset: function() {
|
||||
var changeset = $("#changeset")
|
||||
return $("#changeset")
|
||||
.find("option:selected")
|
||||
.val();
|
||||
return changeset;
|
||||
},
|
||||
|
||||
showToolTPSCreate: function(guid, changeset) {
|
||||
|
||||
@@ -40,8 +40,7 @@ var addToQueue = metadata => {
|
||||
var queueLength = () => {
|
||||
if (window.localStorage.hasOwnProperty("repositories")) {
|
||||
var repo_queue = JSON.parse(window.localStorage.repositories);
|
||||
var queue_length = Object.keys(repo_queue).length;
|
||||
return queue_length;
|
||||
return Object.keys(repo_queue).length;
|
||||
} else {
|
||||
return 0;
|
||||
}
|
||||
|
||||
@@ -28,7 +28,7 @@ export default Backbone.View.extend({
|
||||
<table>
|
||||
<tr>
|
||||
<td class="charts-description-image-td">
|
||||
<img class="charts-description-image"/>
|
||||
<img alt="charts description" class="charts-description-image"/>
|
||||
</td>
|
||||
<td>
|
||||
<div class="charts-description-title"/>
|
||||
|
||||
@@ -317,8 +317,7 @@ var Node = Backbone.Model.extend({
|
||||
var new_body = nodeView.newInputsDiv();
|
||||
var newTerminalViews = {};
|
||||
_.each(data.inputs, input => {
|
||||
var terminalView = node.nodeView.addDataInput(input, new_body);
|
||||
newTerminalViews[input.name] = terminalView;
|
||||
newTerminalViews[input.name] = node.nodeView.addDataInput(input, new_body);
|
||||
});
|
||||
// Cleanup any leftover terminals
|
||||
_.each(_.difference(_.values(nodeView.terminalViews), _.values(newTerminalViews)), unusedView => {
|
||||
|
||||
@@ -292,13 +292,9 @@ var BaseInputTerminal = Terminal.extend({
|
||||
inputFilled = false;
|
||||
} else {
|
||||
if (this.multiple) {
|
||||
if (this._collectionAttached()) {
|
||||
// Can only attach one collection to multiple input
|
||||
// data parameter.
|
||||
inputFilled = true;
|
||||
} else {
|
||||
inputFilled = false;
|
||||
}
|
||||
// Can only attach one collection to multiple input
|
||||
// data parameter.
|
||||
inputFilled = !!this._collectionAttached();
|
||||
} else {
|
||||
inputFilled = true;
|
||||
}
|
||||
|
||||
@@ -91,21 +91,19 @@ export default Backbone.View.extend({
|
||||
} else if (output.parameter) {
|
||||
terminalViewClass = TerminalViews.OutputParameterTerminalView;
|
||||
}
|
||||
const terminalView = new terminalViewClass({
|
||||
return new terminalViewClass({
|
||||
node: this.node,
|
||||
output: output
|
||||
});
|
||||
return terminalView;
|
||||
},
|
||||
|
||||
outputViewforOutput: function(output, terminalView) {
|
||||
const outputViewClass = output.parameter ? DataViews.ParameterOutputView : DataViews.DataOutputView;
|
||||
const outputView = new outputViewClass({
|
||||
return new outputViewClass({
|
||||
output: output,
|
||||
terminalElement: terminalView.el,
|
||||
nodeView: this
|
||||
});
|
||||
return outputView;
|
||||
},
|
||||
|
||||
addDataOutput: function(output) {
|
||||
|
||||
@@ -289,12 +289,11 @@ var OutputTerminalView = BaseOutputTerminalView.extend({
|
||||
terminalMappingViewClass: TerminalMappingView,
|
||||
terminalForOutput: function(output) {
|
||||
var type = output.extensions;
|
||||
var terminal = new Terminals.OutputTerminal({
|
||||
return new Terminals.OutputTerminal({
|
||||
element: this.el,
|
||||
datatypes: type,
|
||||
force_datatype: output.force_datatype
|
||||
});
|
||||
return terminal;
|
||||
}
|
||||
});
|
||||
|
||||
@@ -304,14 +303,13 @@ var OutputCollectionTerminalView = BaseOutputTerminalView.extend({
|
||||
terminalForOutput: function(output) {
|
||||
var collection_type = output.collection_type;
|
||||
var collection_type_source = output.collection_type_source;
|
||||
var terminal = new Terminals.OutputCollectionTerminal({
|
||||
return new Terminals.OutputCollectionTerminal({
|
||||
element: this.el,
|
||||
collection_type: collection_type,
|
||||
collection_type_source: collection_type_source,
|
||||
datatypes: output.extensions,
|
||||
force_datatype: output.force_datatype
|
||||
});
|
||||
return terminal;
|
||||
}
|
||||
});
|
||||
|
||||
@@ -319,11 +317,10 @@ var OutputParameterTerminalView = BaseOutputTerminalView.extend({
|
||||
terminalMappingClass: Terminals.TerminalMapping,
|
||||
terminalMappingViewClass: TerminalMappingView,
|
||||
terminalForOutput: function(output) {
|
||||
var terminal = new Terminals.OutputCollectionTerminal({
|
||||
return new Terminals.OutputCollectionTerminal({
|
||||
element: this.el,
|
||||
type: output.type
|
||||
});
|
||||
return terminal;
|
||||
}
|
||||
});
|
||||
|
||||
|
||||
@@ -771,7 +771,7 @@ export default Backbone.View.extend({
|
||||
var node = new Node(this, { element: $f });
|
||||
node.type = type;
|
||||
node.content_id = content_id;
|
||||
var tmp = `<div><img height='16' align='middle' src='${getAppRoot()}static/images/loading_small_white_bg.gif'/> loading tool info...</div>`;
|
||||
var tmp = `<div><img alt="loading" height='16' align='middle' src='${getAppRoot()}static/images/loading_small_white_bg.gif'/> loading tool info...</div>`;
|
||||
$f.find(".toolFormBody").append(tmp);
|
||||
// Fix width to computed width
|
||||
// Now add floats
|
||||
|
||||
@@ -54,8 +54,7 @@ QUnit.module("Input terminal model test", {
|
||||
test_connector: function() {
|
||||
var outputTerminal = new Terminals.OutputTerminal({ datatypes: ["input"] });
|
||||
var inputTerminal = this.input_terminal;
|
||||
var connector = new Connector(outputTerminal, inputTerminal);
|
||||
return connector;
|
||||
return new Connector(outputTerminal, inputTerminal);
|
||||
},
|
||||
with_test_connector: function(f) {
|
||||
this.test_connector();
|
||||
@@ -557,9 +556,7 @@ QUnit.module("Node view ", {
|
||||
disableMapOver: function() {},
|
||||
mapOver: Terminals.NULL_COLLECTION_TYPE_DESCRIPTION
|
||||
};
|
||||
var c = new Connector(outputTerminal, terminal);
|
||||
|
||||
return c;
|
||||
return new Connector(outputTerminal, terminal);
|
||||
},
|
||||
connectAttachedMultiInputTerminal: function(inputType, outputType) {
|
||||
this.view.addDataInput({ name: "TestName", extensions: [inputType], multiple: true });
|
||||
@@ -580,9 +577,7 @@ QUnit.module("Node view ", {
|
||||
disableMapOver: function() {},
|
||||
mapOver: new Terminals.CollectionTypeDescription("list")
|
||||
};
|
||||
var c = new Connector(outputTerminal, terminal);
|
||||
|
||||
return c;
|
||||
return new Connector(outputTerminal, terminal);
|
||||
},
|
||||
connectAttachedMappedOutput: function() {
|
||||
this.view.addDataInput({ name: "TestName", extensions: ["txt"], input_type: "dataset_collection" });
|
||||
@@ -603,9 +598,7 @@ QUnit.module("Node view ", {
|
||||
disableMapOver: function() {},
|
||||
mapOver: new Terminals.CollectionTypeDescription("list")
|
||||
};
|
||||
var c = new Connector(outputTerminal, terminal);
|
||||
|
||||
return c;
|
||||
return new Connector(outputTerminal, terminal);
|
||||
}
|
||||
});
|
||||
|
||||
@@ -917,8 +910,7 @@ QUnit.module("terminal mapping logic", {
|
||||
},
|
||||
newNode: function() {
|
||||
var nodeEl = $("<div>")[0];
|
||||
var node = new Node(create_app(), { element: nodeEl });
|
||||
return node;
|
||||
return new Node(create_app(), { element: nodeEl });
|
||||
},
|
||||
_addExistingOutput: function(terminal, output, connected) {
|
||||
var self = this;
|
||||
|
||||
@@ -178,9 +178,7 @@ export function create_chart(inp_data, name, time, title) {
|
||||
var m_x = margin.left;
|
||||
var m_y = margin.top + height;
|
||||
var l_x = m_x + width;
|
||||
var l_y = m_y;
|
||||
|
||||
return `M${m_x} ${m_y} L ${l_x} ${l_y}`;
|
||||
return `M${m_x} ${m_y} L ${l_x} ${m_y}`;
|
||||
});
|
||||
|
||||
// Declare how high the y axis goes
|
||||
@@ -212,9 +210,7 @@ export function create_chart(inp_data, name, time, title) {
|
||||
var axis = d3.select(`#y_${name}`).node();
|
||||
var left_pad = margin.left - axis.getBoundingClientRect().width - 5;
|
||||
var top_pad = margin.top + axis.getBoundingClientRect().height / 2 - 30;
|
||||
var trans = `translate(${left_pad},${top_pad})rotate(-90)`;
|
||||
|
||||
return trans;
|
||||
return `translate(${left_pad},${top_pad})rotate(-90)`;
|
||||
})
|
||||
.text("Number of Jobs");
|
||||
|
||||
@@ -625,9 +621,7 @@ export function create_histogram(inp_data, name, title) {
|
||||
var axis = d3.select(`#x_${name}`).node();
|
||||
var left_pad = margin.left + axis.getBoundingClientRect().width / 2 + 30;
|
||||
var top_pad = margin.top + height + axis.getBoundingClientRect().height + 10;
|
||||
var trans = `translate(${left_pad},${top_pad})`;
|
||||
|
||||
return trans;
|
||||
return `translate(${left_pad},${top_pad})`;
|
||||
})
|
||||
.text("ETA - hrs:mins");
|
||||
|
||||
@@ -654,9 +648,7 @@ export function create_histogram(inp_data, name, title) {
|
||||
var axis = d3.select(`#y_${name}`).node();
|
||||
var left_pad = margin.left - axis.getBoundingClientRect().width - 5;
|
||||
var top_pad = margin.top + axis.getBoundingClientRect().height / 2 - 30;
|
||||
var trans = `translate(${left_pad},${top_pad})rotate(-90)`;
|
||||
|
||||
return trans;
|
||||
return `translate(${left_pad},${top_pad})rotate(-90)`;
|
||||
})
|
||||
.text("Number of Jobs");
|
||||
|
||||
|
||||
@@ -175,8 +175,7 @@ function buildSingleSelectCell(control, columnIndex) {
|
||||
var eventData = {};
|
||||
|
||||
var key = $cell.parent().attr("id");
|
||||
var val = $cell.data(COLUMN_INDEX_DATA_KEY);
|
||||
eventData[key] = val;
|
||||
eventData[key] = $cell.data(COLUMN_INDEX_DATA_KEY);
|
||||
$cell.parents(".peek").trigger(CHANGE_EVENT, eventData);
|
||||
}
|
||||
});
|
||||
@@ -209,8 +208,7 @@ function buildMultiSelectCell(control, columnIndex) {
|
||||
var eventData = {};
|
||||
|
||||
var key = $cell.parent().attr("id");
|
||||
var val = $.makeArray(selectedColumnIndeces);
|
||||
eventData[key] = val;
|
||||
eventData[key] = $.makeArray(selectedColumnIndeces);
|
||||
$cell.parents(".peek").trigger(CHANGE_EVENT, eventData);
|
||||
});
|
||||
}
|
||||
|
||||
@@ -54,7 +54,7 @@ export function make_popupmenu(button_element, initial_options) {
|
||||
);
|
||||
}
|
||||
});
|
||||
var wrapper = $("<div class='popmenu-wrapper' style='position: absolute;left: 0; top: -1000;'></div>")
|
||||
var wrapper = $("<div class='popmenu-wrapper' style='position: absolute;left: 0;'></div>")
|
||||
.append(menu_element)
|
||||
.appendTo("body");
|
||||
|
||||
|
||||
@@ -102,8 +102,7 @@ export function showMonitorToggles() {
|
||||
// retrieve toggle list from the session storage
|
||||
function getToggles() {
|
||||
const json = sessionStorage.getItem("global_monitors");
|
||||
const existinglist = json ? JSON.parse(json) : {};
|
||||
return existinglist;
|
||||
return json ? JSON.parse(json) : {};
|
||||
}
|
||||
|
||||
// put the toggle list back in session storage
|
||||
|
||||
@@ -322,10 +322,8 @@ _.extend(NumberFilter.prototype, {
|
||||
* Returns true if filter can be applied to element.
|
||||
*/
|
||||
applies_to: function(element) {
|
||||
if (element.length > this.index) {
|
||||
return true;
|
||||
}
|
||||
return false;
|
||||
return element.length > this.index;
|
||||
|
||||
},
|
||||
/**
|
||||
* Helper function: returns true if value in in filter's [low, high] range.
|
||||
|
||||
@@ -85,7 +85,6 @@
|
||||
|
||||
.toggle-link {
|
||||
font-weight: normal;
|
||||
padding: 0.3em;
|
||||
margin-bottom: 1em;
|
||||
width: 100%;
|
||||
padding: 0.2em 0em 0.2em 0em;
|
||||
|
||||
@@ -1299,8 +1299,6 @@ div.permissionContainer {
|
||||
.text-content {
|
||||
hr {
|
||||
display: block;
|
||||
background: black;
|
||||
color: black;
|
||||
width: 100%;
|
||||
height: 1px;
|
||||
border: none;
|
||||
|
||||
@@ -147,8 +147,6 @@ $frame-default-border: $border-default-color;
|
||||
width: 16px;
|
||||
height: 16px;
|
||||
color: $brand-dark;
|
||||
right: 0px;
|
||||
bottom: 0px;
|
||||
text-align: center;
|
||||
line-height: 16px;
|
||||
border: 0px;
|
||||
|
||||
@@ -499,7 +499,6 @@
|
||||
overflow: hidden;
|
||||
text-overflow: ellipsis;
|
||||
white-space: nowrap;
|
||||
max-height: 22px;
|
||||
}
|
||||
&.control-column-right {
|
||||
text-align: right;
|
||||
|
||||
@@ -33,7 +33,6 @@ pre {
|
||||
}
|
||||
|
||||
.dropdown-menu {
|
||||
max-width: auto;
|
||||
.dropdown-item {
|
||||
text-decoration: none;
|
||||
}
|
||||
|
||||
@@ -26,7 +26,6 @@ $separator-color: #888;
|
||||
padding: 0 0;
|
||||
color: #333;
|
||||
font-weight: bold;
|
||||
background: #cccccc;
|
||||
display: inline-block;
|
||||
top: -2em;
|
||||
background: transparent;
|
||||
|
||||
@@ -154,7 +154,6 @@ $ui-margin-horizontal-large: $margin-v * 2;
|
||||
font-style: italic;
|
||||
}
|
||||
.ui-form-backdrop {
|
||||
display: none;
|
||||
z-index: 10;
|
||||
position: absolute;
|
||||
top: 0px;
|
||||
|
||||
@@ -18,6 +18,8 @@ $tag:tool|description://element[@name='tool']//element[@name='description']
|
||||
$tag:tool|macros://complexType[@name='Macros']
|
||||
$tag:tool|edam_topics://complexType[@name='EdamTopics']
|
||||
$tag:tool|edam_operations://complexType[@name='EdamOperations']
|
||||
$tag:tool|xrefs://complexType[@name='xrefs']
|
||||
$tag:tool|xrefs|xref://complexType[@name='xref']
|
||||
$tag:tool|requirements://complexType[@name='Requirements']
|
||||
$tag:tool|requirements|requirement://complexType[@name='Requirement']
|
||||
$tag:tool|requirements|container://complexType[@name='Container']
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.actions package
|
||||
=======================
|
||||
galaxy.actions package
|
||||
======================
|
||||
|
||||
.. automodule:: galaxy.actions
|
||||
:members:
|
||||
@@ -9,16 +9,16 @@ galaxy\.actions package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.actions\.admin module
|
||||
-----------------------------
|
||||
galaxy.actions.admin module
|
||||
---------------------------
|
||||
|
||||
.. automodule:: galaxy.actions.admin
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.actions\.library module
|
||||
-------------------------------
|
||||
galaxy.actions.library module
|
||||
-----------------------------
|
||||
|
||||
.. automodule:: galaxy.actions.library
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.auth\.providers package
|
||||
===============================
|
||||
galaxy.auth.providers package
|
||||
=============================
|
||||
|
||||
.. automodule:: galaxy.auth.providers
|
||||
:members:
|
||||
@@ -9,32 +9,32 @@ galaxy\.auth\.providers package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.auth\.providers\.alwaysreject module
|
||||
--------------------------------------------
|
||||
galaxy.auth.providers.alwaysreject module
|
||||
-----------------------------------------
|
||||
|
||||
.. automodule:: galaxy.auth.providers.alwaysreject
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.auth\.providers\.ldap\_ad module
|
||||
----------------------------------------
|
||||
galaxy.auth.providers.ldap\_ad module
|
||||
-------------------------------------
|
||||
|
||||
.. automodule:: galaxy.auth.providers.ldap_ad
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.auth\.providers\.localdb module
|
||||
---------------------------------------
|
||||
galaxy.auth.providers.localdb module
|
||||
------------------------------------
|
||||
|
||||
.. automodule:: galaxy.auth.providers.localdb
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.auth\.providers\.pam\_auth module
|
||||
-----------------------------------------
|
||||
galaxy.auth.providers.pam\_auth module
|
||||
--------------------------------------
|
||||
|
||||
.. automodule:: galaxy.auth.providers.pam_auth
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.auth package
|
||||
====================
|
||||
galaxy.auth package
|
||||
===================
|
||||
|
||||
.. automodule:: galaxy.auth
|
||||
:members:
|
||||
@@ -16,8 +16,8 @@ Subpackages
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.auth\.util module
|
||||
-------------------------
|
||||
galaxy.auth.util module
|
||||
-----------------------
|
||||
|
||||
.. automodule:: galaxy.auth.util
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.authnz package
|
||||
======================
|
||||
galaxy.authnz package
|
||||
=====================
|
||||
|
||||
.. automodule:: galaxy.authnz
|
||||
:members:
|
||||
@@ -9,16 +9,24 @@ galaxy\.authnz package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.authnz\.managers module
|
||||
-------------------------------
|
||||
galaxy.authnz.custos\_authnz module
|
||||
-----------------------------------
|
||||
|
||||
.. automodule:: galaxy.authnz.custos_authnz
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.authnz.managers module
|
||||
-----------------------------
|
||||
|
||||
.. automodule:: galaxy.authnz.managers
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.authnz\.psa\_authnz module
|
||||
----------------------------------
|
||||
galaxy.authnz.psa\_authnz module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.authnz.psa_authnz
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.containers package
|
||||
==========================
|
||||
galaxy.containers package
|
||||
=========================
|
||||
|
||||
.. automodule:: galaxy.containers
|
||||
:members:
|
||||
@@ -9,32 +9,32 @@ galaxy\.containers package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.containers\.docker module
|
||||
---------------------------------
|
||||
galaxy.containers.docker module
|
||||
-------------------------------
|
||||
|
||||
.. automodule:: galaxy.containers.docker
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.containers\.docker\_decorators module
|
||||
---------------------------------------------
|
||||
galaxy.containers.docker\_decorators module
|
||||
-------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.containers.docker_decorators
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.containers\.docker\_model module
|
||||
----------------------------------------
|
||||
galaxy.containers.docker\_model module
|
||||
--------------------------------------
|
||||
|
||||
.. automodule:: galaxy.containers.docker_model
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.containers\.docker\_swarm module
|
||||
----------------------------------------
|
||||
galaxy.containers.docker\_swarm module
|
||||
--------------------------------------
|
||||
|
||||
.. automodule:: galaxy.containers.docker_swarm
|
||||
:members:
|
||||
|
||||
@@ -1,67 +0,0 @@
|
||||
galaxy\.dataset\_collections package
|
||||
====================================
|
||||
|
||||
.. automodule:: galaxy.dataset_collections
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Subpackages
|
||||
-----------
|
||||
|
||||
.. toctree::
|
||||
|
||||
galaxy.dataset_collections.types
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.dataset\_collections\.builder module
|
||||
--------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.dataset_collections.builder
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.dataset\_collections\.matching module
|
||||
---------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.dataset_collections.matching
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.dataset\_collections\.registry module
|
||||
---------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.dataset_collections.registry
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.dataset\_collections\.structure module
|
||||
----------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.dataset_collections.structure
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.dataset\_collections\.subcollections module
|
||||
---------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.dataset_collections.subcollections
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.dataset\_collections\.type\_description module
|
||||
------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.dataset_collections.type_description
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
|
||||
@@ -1,28 +0,0 @@
|
||||
galaxy\.dataset\_collections\.types package
|
||||
===========================================
|
||||
|
||||
.. automodule:: galaxy.dataset_collections.types
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.dataset\_collections\.types\.list module
|
||||
------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.dataset_collections.types.list
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.dataset\_collections\.types\.paired module
|
||||
--------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.dataset_collections.types.paired
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.datatypes\.converters package
|
||||
=====================================
|
||||
galaxy.datatypes.converters package
|
||||
===================================
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters
|
||||
:members:
|
||||
@@ -9,256 +9,264 @@ galaxy\.datatypes\.converters package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.datatypes\.converters\.bed\_to\_gff\_converter module
|
||||
-------------------------------------------------------------
|
||||
galaxy.datatypes.converters.bed\_to\_gff\_converter module
|
||||
----------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.bed_to_gff_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.bedgraph\_to\_array\_tree\_converter module
|
||||
--------------------------------------------------------------------------
|
||||
galaxy.datatypes.converters.bedgraph\_to\_array\_tree\_converter module
|
||||
-----------------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.bedgraph_to_array_tree_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.bgzip module
|
||||
-------------------------------------------
|
||||
galaxy.datatypes.converters.bgzip module
|
||||
----------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.bgzip
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.cram\_to\_bam module
|
||||
---------------------------------------------------
|
||||
galaxy.datatypes.converters.cram\_to\_bam module
|
||||
------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.cram_to_bam
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.fasta\_to\_len module
|
||||
----------------------------------------------------
|
||||
galaxy.datatypes.converters.fasta\_to\_len module
|
||||
-------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.fasta_to_len
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.fasta\_to\_tabular\_converter module
|
||||
-------------------------------------------------------------------
|
||||
galaxy.datatypes.converters.fasta\_to\_tabular\_converter module
|
||||
----------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.fasta_to_tabular_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.fastq\_to\_fqtoc module
|
||||
------------------------------------------------------
|
||||
galaxy.datatypes.converters.fastq\_to\_fqtoc module
|
||||
---------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.fastq_to_fqtoc
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.fastqsolexa\_to\_fasta\_converter module
|
||||
-----------------------------------------------------------------------
|
||||
galaxy.datatypes.converters.fastqsolexa\_to\_fasta\_converter module
|
||||
--------------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.fastqsolexa_to_fasta_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.fastqsolexa\_to\_qual\_converter module
|
||||
----------------------------------------------------------------------
|
||||
galaxy.datatypes.converters.fastqsolexa\_to\_qual\_converter module
|
||||
-------------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.fastqsolexa_to_qual_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.gff\_to\_bed\_converter module
|
||||
-------------------------------------------------------------
|
||||
galaxy.datatypes.converters.gff\_to\_bed\_converter module
|
||||
----------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.gff_to_bed_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.gff\_to\_interval\_index\_converter module
|
||||
-------------------------------------------------------------------------
|
||||
galaxy.datatypes.converters.gff\_to\_interval\_index\_converter module
|
||||
----------------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.gff_to_interval_index_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.interval\_to\_bed\_converter module
|
||||
------------------------------------------------------------------
|
||||
galaxy.datatypes.converters.interval\_to\_bed\_converter module
|
||||
---------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.interval_to_bed_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.interval\_to\_bedstrict\_converter module
|
||||
------------------------------------------------------------------------
|
||||
galaxy.datatypes.converters.interval\_to\_bedstrict\_converter module
|
||||
---------------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.interval_to_bedstrict_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.interval\_to\_coverage module
|
||||
------------------------------------------------------------
|
||||
galaxy.datatypes.converters.interval\_to\_coverage module
|
||||
---------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.interval_to_coverage
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.interval\_to\_fli module
|
||||
-------------------------------------------------------
|
||||
galaxy.datatypes.converters.interval\_to\_fli module
|
||||
----------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.interval_to_fli
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.interval\_to\_interval\_index\_converter module
|
||||
------------------------------------------------------------------------------
|
||||
galaxy.datatypes.converters.interval\_to\_interval\_index\_converter module
|
||||
---------------------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.interval_to_interval_index_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.interval\_to\_tabix\_converter module
|
||||
--------------------------------------------------------------------
|
||||
galaxy.datatypes.converters.interval\_to\_tabix\_converter module
|
||||
-----------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.interval_to_tabix_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.lped\_to\_fped\_converter module
|
||||
---------------------------------------------------------------
|
||||
galaxy.datatypes.converters.lped\_to\_fped\_converter module
|
||||
------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.lped_to_fped_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.lped\_to\_pbed\_converter module
|
||||
---------------------------------------------------------------
|
||||
galaxy.datatypes.converters.lped\_to\_pbed\_converter module
|
||||
------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.lped_to_pbed_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.maf\_to\_fasta\_converter module
|
||||
---------------------------------------------------------------
|
||||
galaxy.datatypes.converters.maf\_to\_fasta\_converter module
|
||||
------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.maf_to_fasta_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.maf\_to\_interval\_converter module
|
||||
------------------------------------------------------------------
|
||||
galaxy.datatypes.converters.maf\_to\_interval\_converter module
|
||||
---------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.maf_to_interval_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.pbed\_ldreduced\_converter module
|
||||
----------------------------------------------------------------
|
||||
galaxy.datatypes.converters.pbed\_ldreduced\_converter module
|
||||
-------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.pbed_ldreduced_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.pbed\_to\_lped\_converter module
|
||||
---------------------------------------------------------------
|
||||
galaxy.datatypes.converters.pbed\_to\_lped\_converter module
|
||||
------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.pbed_to_lped_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.picard\_interval\_list\_to\_bed6\_converter module
|
||||
---------------------------------------------------------------------------------
|
||||
galaxy.datatypes.converters.picard\_interval\_list\_to\_bed6\_converter module
|
||||
------------------------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.picard_interval_list_to_bed6_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.pileup\_to\_interval\_index\_converter module
|
||||
----------------------------------------------------------------------------
|
||||
galaxy.datatypes.converters.pileup\_to\_interval\_index\_converter module
|
||||
-------------------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.pileup_to_interval_index_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.ref\_to\_seq\_taxonomy\_converter module
|
||||
-----------------------------------------------------------------------
|
||||
galaxy.datatypes.converters.ref\_to\_seq\_taxonomy\_converter module
|
||||
--------------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.ref_to_seq_taxonomy_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.sam\_to\_bam module
|
||||
--------------------------------------------------
|
||||
galaxy.datatypes.converters.sam\_to\_bam module
|
||||
-----------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.sam_to_bam
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.tabular\_to\_dbnsfp module
|
||||
---------------------------------------------------------
|
||||
galaxy.datatypes.converters.tabular\_csv module
|
||||
-----------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.tabular_csv
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.datatypes.converters.tabular\_to\_dbnsfp module
|
||||
------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.tabular_to_dbnsfp
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.vcf\_to\_interval\_index\_converter module
|
||||
-------------------------------------------------------------------------
|
||||
galaxy.datatypes.converters.vcf\_to\_interval\_index\_converter module
|
||||
----------------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.vcf_to_interval_index_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.vcf\_to\_vcf\_bgzip module
|
||||
---------------------------------------------------------
|
||||
galaxy.datatypes.converters.vcf\_to\_vcf\_bgzip module
|
||||
------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.vcf_to_vcf_bgzip
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.wiggle\_to\_array\_tree\_converter module
|
||||
------------------------------------------------------------------------
|
||||
galaxy.datatypes.converters.wiggle\_to\_array\_tree\_converter module
|
||||
---------------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.wiggle_to_array_tree_converter
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.converters\.wiggle\_to\_simple\_converter module
|
||||
-------------------------------------------------------------------
|
||||
galaxy.datatypes.converters.wiggle\_to\_simple\_converter module
|
||||
----------------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.converters.wiggle_to_simple_converter
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.datatypes\.dataproviders package
|
||||
========================================
|
||||
galaxy.datatypes.dataproviders package
|
||||
======================================
|
||||
|
||||
.. automodule:: galaxy.datatypes.dataproviders
|
||||
:members:
|
||||
@@ -9,72 +9,72 @@ galaxy\.datatypes\.dataproviders package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.datatypes\.dataproviders\.base module
|
||||
---------------------------------------------
|
||||
galaxy.datatypes.dataproviders.base module
|
||||
------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.dataproviders.base
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.dataproviders\.chunk module
|
||||
----------------------------------------------
|
||||
galaxy.datatypes.dataproviders.chunk module
|
||||
-------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.dataproviders.chunk
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.dataproviders\.column module
|
||||
-----------------------------------------------
|
||||
galaxy.datatypes.dataproviders.column module
|
||||
--------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.dataproviders.column
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.dataproviders\.dataset module
|
||||
------------------------------------------------
|
||||
galaxy.datatypes.dataproviders.dataset module
|
||||
---------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.dataproviders.dataset
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.dataproviders\.decorators module
|
||||
---------------------------------------------------
|
||||
galaxy.datatypes.dataproviders.decorators module
|
||||
------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.dataproviders.decorators
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.dataproviders\.exceptions module
|
||||
---------------------------------------------------
|
||||
galaxy.datatypes.dataproviders.exceptions module
|
||||
------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.dataproviders.exceptions
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.dataproviders\.external module
|
||||
-------------------------------------------------
|
||||
galaxy.datatypes.dataproviders.external module
|
||||
----------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.dataproviders.external
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.dataproviders\.hierarchy module
|
||||
--------------------------------------------------
|
||||
galaxy.datatypes.dataproviders.hierarchy module
|
||||
-----------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.dataproviders.hierarchy
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.dataproviders\.line module
|
||||
---------------------------------------------
|
||||
galaxy.datatypes.dataproviders.line module
|
||||
------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.dataproviders.line
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.datatypes\.display\_applications package
|
||||
================================================
|
||||
galaxy.datatypes.display\_applications package
|
||||
==============================================
|
||||
|
||||
.. automodule:: galaxy.datatypes.display_applications
|
||||
:members:
|
||||
@@ -9,24 +9,24 @@ galaxy\.datatypes\.display\_applications package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.datatypes\.display\_applications\.application module
|
||||
------------------------------------------------------------
|
||||
galaxy.datatypes.display\_applications.application module
|
||||
---------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.display_applications.application
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.display\_applications\.parameters module
|
||||
-----------------------------------------------------------
|
||||
galaxy.datatypes.display\_applications.parameters module
|
||||
--------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.display_applications.parameters
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.display\_applications\.util module
|
||||
-----------------------------------------------------
|
||||
galaxy.datatypes.display\_applications.util module
|
||||
--------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.display_applications.util
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.datatypes package
|
||||
=========================
|
||||
galaxy.datatypes package
|
||||
========================
|
||||
|
||||
.. automodule:: galaxy.datatypes
|
||||
:members:
|
||||
@@ -19,272 +19,296 @@ Subpackages
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.datatypes\.annotation module
|
||||
------------------------------------
|
||||
galaxy.datatypes.annotation module
|
||||
----------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.annotation
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.anvio module
|
||||
-------------------------------
|
||||
galaxy.datatypes.anvio module
|
||||
-----------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.anvio
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.assembly module
|
||||
----------------------------------
|
||||
galaxy.datatypes.assembly module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.assembly
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.binary module
|
||||
--------------------------------
|
||||
galaxy.datatypes.binary module
|
||||
------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.binary
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.blast module
|
||||
-------------------------------
|
||||
galaxy.datatypes.blast module
|
||||
-----------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.blast
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.checkers module
|
||||
----------------------------------
|
||||
galaxy.datatypes.checkers module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.checkers
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.chrominfo module
|
||||
-----------------------------------
|
||||
galaxy.datatypes.chrominfo module
|
||||
---------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.chrominfo
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.constructive\_solid\_geometry module
|
||||
-------------------------------------------------------
|
||||
galaxy.datatypes.constructive\_solid\_geometry module
|
||||
-----------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.constructive_solid_geometry
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.coverage module
|
||||
----------------------------------
|
||||
galaxy.datatypes.coverage module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.coverage
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.data module
|
||||
------------------------------
|
||||
galaxy.datatypes.data module
|
||||
----------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.data
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.genetics module
|
||||
----------------------------------
|
||||
galaxy.datatypes.genetics module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.genetics
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.graph module
|
||||
-------------------------------
|
||||
galaxy.datatypes.gis module
|
||||
---------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.gis
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.datatypes.graph module
|
||||
-----------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.graph
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.images module
|
||||
--------------------------------
|
||||
galaxy.datatypes.images module
|
||||
------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.images
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.interval module
|
||||
----------------------------------
|
||||
galaxy.datatypes.interval module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.interval
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.isa module
|
||||
-----------------------------
|
||||
galaxy.datatypes.isa module
|
||||
---------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.isa
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.metadata module
|
||||
----------------------------------
|
||||
galaxy.datatypes.metadata module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.metadata
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.molecules module
|
||||
galaxy.datatypes.microarrays module
|
||||
-----------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.microarrays
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.datatypes.molecules module
|
||||
---------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.molecules
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.mothur module
|
||||
--------------------------------
|
||||
galaxy.datatypes.mothur module
|
||||
------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.mothur
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.msa module
|
||||
-----------------------------
|
||||
galaxy.datatypes.msa module
|
||||
---------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.msa
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.neo4j module
|
||||
-------------------------------
|
||||
galaxy.datatypes.neo4j module
|
||||
-----------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.neo4j
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.ngsindex module
|
||||
----------------------------------
|
||||
galaxy.datatypes.ngsindex module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.ngsindex
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.phylip module
|
||||
--------------------------------
|
||||
galaxy.datatypes.phylip module
|
||||
------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.phylip
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.plant\_tribes module
|
||||
---------------------------------------
|
||||
galaxy.datatypes.plant\_tribes module
|
||||
-------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.plant_tribes
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.proteomics module
|
||||
------------------------------------
|
||||
galaxy.datatypes.proteomics module
|
||||
----------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.proteomics
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.qualityscore module
|
||||
--------------------------------------
|
||||
galaxy.datatypes.qualityscore module
|
||||
------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.qualityscore
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.registry module
|
||||
----------------------------------
|
||||
galaxy.datatypes.registry module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.registry
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.sequence module
|
||||
----------------------------------
|
||||
galaxy.datatypes.sequence module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.sequence
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.sniff module
|
||||
-------------------------------
|
||||
galaxy.datatypes.sniff module
|
||||
-----------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.sniff
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.tabular module
|
||||
---------------------------------
|
||||
galaxy.datatypes.spaln module
|
||||
-----------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.spaln
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.datatypes.tabular module
|
||||
-------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.tabular
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.text module
|
||||
------------------------------
|
||||
galaxy.datatypes.text module
|
||||
----------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.text
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.tracks module
|
||||
--------------------------------
|
||||
galaxy.datatypes.tracks module
|
||||
------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.tracks
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.triples module
|
||||
---------------------------------
|
||||
galaxy.datatypes.triples module
|
||||
-------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.triples
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.upload\_util module
|
||||
--------------------------------------
|
||||
galaxy.datatypes.upload\_util module
|
||||
------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.upload_util
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.xml module
|
||||
-----------------------------
|
||||
galaxy.datatypes.xml module
|
||||
---------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.xml
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.datatypes\.util package
|
||||
===============================
|
||||
galaxy.datatypes.util package
|
||||
=============================
|
||||
|
||||
.. automodule:: galaxy.datatypes.util
|
||||
:members:
|
||||
@@ -9,16 +9,16 @@ galaxy\.datatypes\.util package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.datatypes\.util\.generic\_util module
|
||||
---------------------------------------------
|
||||
galaxy.datatypes.util.generic\_util module
|
||||
------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.util.generic_util
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.datatypes\.util\.gff\_util module
|
||||
-----------------------------------------
|
||||
galaxy.datatypes.util.gff\_util module
|
||||
--------------------------------------
|
||||
|
||||
.. automodule:: galaxy.datatypes.util.gff_util
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.dependencies package
|
||||
============================
|
||||
galaxy.dependencies package
|
||||
===========================
|
||||
|
||||
.. automodule:: galaxy.dependencies
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.eggs package
|
||||
====================
|
||||
galaxy.eggs package
|
||||
===================
|
||||
|
||||
.. automodule:: galaxy.eggs
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.exceptions package
|
||||
==========================
|
||||
galaxy.exceptions package
|
||||
=========================
|
||||
|
||||
.. automodule:: galaxy.exceptions
|
||||
:members:
|
||||
@@ -9,8 +9,8 @@ galaxy\.exceptions package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.exceptions\.error\_codes module
|
||||
---------------------------------------
|
||||
galaxy.exceptions.error\_codes module
|
||||
-------------------------------------
|
||||
|
||||
.. automodule:: galaxy.exceptions.error_codes
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.forms package
|
||||
=====================
|
||||
galaxy.forms package
|
||||
====================
|
||||
|
||||
.. automodule:: galaxy.forms
|
||||
:members:
|
||||
@@ -9,8 +9,8 @@ galaxy\.forms package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.forms\.forms module
|
||||
---------------------------
|
||||
galaxy.forms.forms module
|
||||
-------------------------
|
||||
|
||||
.. automodule:: galaxy.forms.forms
|
||||
:members:
|
||||
|
||||
@@ -0,0 +1,28 @@
|
||||
galaxy.job\_execution package
|
||||
=============================
|
||||
|
||||
.. automodule:: galaxy.job_execution
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy.job\_execution.datasets module
|
||||
-------------------------------------
|
||||
|
||||
.. automodule:: galaxy.job_execution.datasets
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.job\_execution.output\_collect module
|
||||
--------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.job_execution.output_collect
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
|
||||
@@ -0,0 +1,44 @@
|
||||
galaxy.job\_metrics.collectl package
|
||||
====================================
|
||||
|
||||
.. automodule:: galaxy.job_metrics.collectl
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy.job\_metrics.collectl.cli module
|
||||
---------------------------------------
|
||||
|
||||
.. automodule:: galaxy.job_metrics.collectl.cli
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.job\_metrics.collectl.processes module
|
||||
---------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.job_metrics.collectl.processes
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.job\_metrics.collectl.stats module
|
||||
-----------------------------------------
|
||||
|
||||
.. automodule:: galaxy.job_metrics.collectl.stats
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.job\_metrics.collectl.subsystems module
|
||||
----------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.job_metrics.collectl.subsystems
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
|
||||
@@ -0,0 +1,76 @@
|
||||
galaxy.job\_metrics.instrumenters package
|
||||
=========================================
|
||||
|
||||
.. automodule:: galaxy.job_metrics.instrumenters
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy.job\_metrics.instrumenters.cgroup module
|
||||
-----------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.job_metrics.instrumenters.cgroup
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.job\_metrics.instrumenters.collectl module
|
||||
-------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.job_metrics.instrumenters.collectl
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.job\_metrics.instrumenters.core module
|
||||
---------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.job_metrics.instrumenters.core
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.job\_metrics.instrumenters.cpuinfo module
|
||||
------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.job_metrics.instrumenters.cpuinfo
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.job\_metrics.instrumenters.env module
|
||||
--------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.job_metrics.instrumenters.env
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.job\_metrics.instrumenters.hostname module
|
||||
-------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.job_metrics.instrumenters.hostname
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.job\_metrics.instrumenters.meminfo module
|
||||
------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.job_metrics.instrumenters.meminfo
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.job\_metrics.instrumenters.uname module
|
||||
----------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.job_metrics.instrumenters.uname
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
|
||||
@@ -0,0 +1,28 @@
|
||||
galaxy.job\_metrics package
|
||||
===========================
|
||||
|
||||
.. automodule:: galaxy.job_metrics
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Subpackages
|
||||
-----------
|
||||
|
||||
.. toctree::
|
||||
|
||||
galaxy.job_metrics.collectl
|
||||
galaxy.job_metrics.instrumenters
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy.job\_metrics.formatting module
|
||||
-------------------------------------
|
||||
|
||||
.. automodule:: galaxy.job_metrics.formatting
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.jobs\.actions package
|
||||
=============================
|
||||
galaxy.jobs.actions package
|
||||
===========================
|
||||
|
||||
.. automodule:: galaxy.jobs.actions
|
||||
:members:
|
||||
@@ -9,8 +9,8 @@ galaxy\.jobs\.actions package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.jobs\.actions\.post module
|
||||
----------------------------------
|
||||
galaxy.jobs.actions.post module
|
||||
-------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.actions.post
|
||||
:members:
|
||||
|
||||
@@ -1,44 +0,0 @@
|
||||
galaxy\.jobs\.metrics\.collectl package
|
||||
=======================================
|
||||
|
||||
.. automodule:: galaxy.jobs.metrics.collectl
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.jobs\.metrics\.collectl\.cli module
|
||||
-------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.metrics.collectl.cli
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.metrics\.collectl\.processes module
|
||||
-------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.metrics.collectl.processes
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.metrics\.collectl\.stats module
|
||||
---------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.metrics.collectl.stats
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.metrics\.collectl\.subsystems module
|
||||
--------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.metrics.collectl.subsystems
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
|
||||
@@ -1,76 +0,0 @@
|
||||
galaxy\.jobs\.metrics\.instrumenters package
|
||||
============================================
|
||||
|
||||
.. automodule:: galaxy.jobs.metrics.instrumenters
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.jobs\.metrics\.instrumenters\.cgroup module
|
||||
---------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.metrics.instrumenters.cgroup
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.metrics\.instrumenters\.collectl module
|
||||
-----------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.metrics.instrumenters.collectl
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.metrics\.instrumenters\.core module
|
||||
-------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.metrics.instrumenters.core
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.metrics\.instrumenters\.cpuinfo module
|
||||
----------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.metrics.instrumenters.cpuinfo
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.metrics\.instrumenters\.env module
|
||||
------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.metrics.instrumenters.env
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.metrics\.instrumenters\.hostname module
|
||||
-----------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.metrics.instrumenters.hostname
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.metrics\.instrumenters\.meminfo module
|
||||
----------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.metrics.instrumenters.meminfo
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.metrics\.instrumenters\.uname module
|
||||
--------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.metrics.instrumenters.uname
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
|
||||
@@ -1,28 +0,0 @@
|
||||
galaxy\.jobs\.metrics package
|
||||
=============================
|
||||
|
||||
.. automodule:: galaxy.jobs.metrics
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Subpackages
|
||||
-----------
|
||||
|
||||
.. toctree::
|
||||
|
||||
galaxy.jobs.metrics.collectl
|
||||
galaxy.jobs.metrics.instrumenters
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.jobs\.metrics\.formatting module
|
||||
----------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.metrics.formatting
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.jobs package
|
||||
====================
|
||||
galaxy.jobs package
|
||||
===================
|
||||
|
||||
.. automodule:: galaxy.jobs
|
||||
:members:
|
||||
@@ -12,87 +12,71 @@ Subpackages
|
||||
.. toctree::
|
||||
|
||||
galaxy.jobs.actions
|
||||
galaxy.jobs.metrics
|
||||
galaxy.jobs.rules
|
||||
galaxy.jobs.runners
|
||||
galaxy.jobs.splitters
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.jobs\.command\_factory module
|
||||
-------------------------------------
|
||||
galaxy.jobs.command\_factory module
|
||||
-----------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.command_factory
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.datasets module
|
||||
-----------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.datasets
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.dynamic\_tool\_destination module
|
||||
-----------------------------------------------
|
||||
galaxy.jobs.dynamic\_tool\_destination module
|
||||
---------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.dynamic_tool_destination
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.handler module
|
||||
----------------------------
|
||||
galaxy.jobs.handler module
|
||||
--------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.handler
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.manager module
|
||||
----------------------------
|
||||
galaxy.jobs.manager module
|
||||
--------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.manager
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.mapper module
|
||||
---------------------------
|
||||
galaxy.jobs.mapper module
|
||||
-------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.mapper
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.output\_checker module
|
||||
------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.output_checker
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.rule\_helper module
|
||||
---------------------------------
|
||||
galaxy.jobs.rule\_helper module
|
||||
-------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.rule_helper
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.stock\_rules module
|
||||
---------------------------------
|
||||
galaxy.jobs.stock\_rules module
|
||||
-------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.stock_rules
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.transfer\_manager module
|
||||
--------------------------------------
|
||||
galaxy.jobs.transfer\_manager module
|
||||
------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.transfer_manager
|
||||
:members:
|
||||
|
||||
@@ -0,0 +1,8 @@
|
||||
galaxy.jobs.rules package
|
||||
=========================
|
||||
|
||||
.. automodule:: galaxy.jobs.rules
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.jobs\.runners package
|
||||
=============================
|
||||
galaxy.jobs.runners package
|
||||
===========================
|
||||
|
||||
.. automodule:: galaxy.jobs.runners
|
||||
:members:
|
||||
@@ -17,104 +17,104 @@ Subpackages
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.jobs\.runners\.chronos module
|
||||
-------------------------------------
|
||||
galaxy.jobs.runners.chronos module
|
||||
----------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.chronos
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.cli module
|
||||
---------------------------------
|
||||
galaxy.jobs.runners.cli module
|
||||
------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.cli
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.condor module
|
||||
------------------------------------
|
||||
galaxy.jobs.runners.condor module
|
||||
---------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.condor
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.drmaa module
|
||||
-----------------------------------
|
||||
galaxy.jobs.runners.drmaa module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.drmaa
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.godocker module
|
||||
--------------------------------------
|
||||
galaxy.jobs.runners.godocker module
|
||||
-----------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.godocker
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.kubernetes module
|
||||
----------------------------------------
|
||||
galaxy.jobs.runners.kubernetes module
|
||||
-------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.kubernetes
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.local module
|
||||
-----------------------------------
|
||||
galaxy.jobs.runners.local module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.local
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.pbs module
|
||||
---------------------------------
|
||||
galaxy.jobs.runners.pbs module
|
||||
------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.pbs
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.pulsar module
|
||||
------------------------------------
|
||||
galaxy.jobs.runners.pulsar module
|
||||
---------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.pulsar
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.slurm module
|
||||
-----------------------------------
|
||||
galaxy.jobs.runners.slurm module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.slurm
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.state\_handler\_factory module
|
||||
-----------------------------------------------------
|
||||
galaxy.jobs.runners.state\_handler\_factory module
|
||||
--------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.state_handler_factory
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.tasks module
|
||||
-----------------------------------
|
||||
galaxy.jobs.runners.tasks module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.tasks
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.univa module
|
||||
-----------------------------------
|
||||
galaxy.jobs.runners.univa module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.univa
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.jobs\.runners\.state\_handlers package
|
||||
==============================================
|
||||
galaxy.jobs.runners.state\_handlers package
|
||||
===========================================
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.state_handlers
|
||||
:members:
|
||||
@@ -9,8 +9,8 @@ galaxy\.jobs\.runners\.state\_handlers package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.jobs\.runners\.state\_handlers\.resubmit module
|
||||
-------------------------------------------------------
|
||||
galaxy.jobs.runners.state\_handlers.resubmit module
|
||||
---------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.state_handlers.resubmit
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.jobs\.runners\.util\.cli\.job package
|
||||
=============================================
|
||||
galaxy.jobs.runners.util.cli.job package
|
||||
========================================
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.cli.job
|
||||
:members:
|
||||
@@ -9,32 +9,32 @@ galaxy\.jobs\.runners\.util\.cli\.job package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.jobs\.runners\.util\.cli\.job\.lsf module
|
||||
-------------------------------------------------
|
||||
galaxy.jobs.runners.util.cli.job.lsf module
|
||||
-------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.cli.job.lsf
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.util\.cli\.job\.slurm module
|
||||
---------------------------------------------------
|
||||
galaxy.jobs.runners.util.cli.job.slurm module
|
||||
---------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.cli.job.slurm
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.util\.cli\.job\.slurm\_torque module
|
||||
-----------------------------------------------------------
|
||||
galaxy.jobs.runners.util.cli.job.slurm\_torque module
|
||||
-----------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.cli.job.slurm_torque
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.util\.cli\.job\.torque module
|
||||
----------------------------------------------------
|
||||
galaxy.jobs.runners.util.cli.job.torque module
|
||||
----------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.cli.job.torque
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.jobs\.runners\.util\.cli package
|
||||
========================================
|
||||
galaxy.jobs.runners.util.cli package
|
||||
====================================
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.cli
|
||||
:members:
|
||||
@@ -17,8 +17,8 @@ Subpackages
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.jobs\.runners\.util\.cli\.factory module
|
||||
------------------------------------------------
|
||||
galaxy.jobs.runners.util.cli.factory module
|
||||
-------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.cli.factory
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.jobs\.runners\.util\.cli\.shell package
|
||||
===============================================
|
||||
galaxy.jobs.runners.util.cli.shell package
|
||||
==========================================
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.cli.shell
|
||||
:members:
|
||||
@@ -9,16 +9,16 @@ galaxy\.jobs\.runners\.util\.cli\.shell package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.jobs\.runners\.util\.cli\.shell\.local module
|
||||
-----------------------------------------------------
|
||||
galaxy.jobs.runners.util.cli.shell.local module
|
||||
-----------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.cli.shell.local
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.util\.cli\.shell\.rsh module
|
||||
---------------------------------------------------
|
||||
galaxy.jobs.runners.util.cli.shell.rsh module
|
||||
---------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.cli.shell.rsh
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.jobs\.runners\.util\.condor package
|
||||
===========================================
|
||||
galaxy.jobs.runners.util.condor package
|
||||
=======================================
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.condor
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.jobs\.runners\.util\.job\_script package
|
||||
================================================
|
||||
galaxy.jobs.runners.util.job\_script package
|
||||
============================================
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.job_script
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.jobs\.runners\.util package
|
||||
===================================
|
||||
galaxy.jobs.runners.util package
|
||||
================================
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util
|
||||
:members:
|
||||
@@ -18,32 +18,40 @@ Subpackages
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.jobs\.runners\.util\.env module
|
||||
---------------------------------------
|
||||
galaxy.jobs.runners.util.env module
|
||||
-----------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.env
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.util\.external module
|
||||
--------------------------------------------
|
||||
galaxy.jobs.runners.util.external module
|
||||
----------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.external
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.util\.kill module
|
||||
----------------------------------------
|
||||
galaxy.jobs.runners.util.kill module
|
||||
------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.kill
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.runners\.util\.sudo module
|
||||
----------------------------------------
|
||||
galaxy.jobs.runners.util.pykube\_util module
|
||||
--------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.pykube_util
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.jobs.runners.util.sudo module
|
||||
------------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.runners.util.sudo
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.jobs\.splitters package
|
||||
===============================
|
||||
galaxy.jobs.splitters package
|
||||
=============================
|
||||
|
||||
.. automodule:: galaxy.jobs.splitters
|
||||
:members:
|
||||
@@ -9,16 +9,16 @@ galaxy\.jobs\.splitters package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.jobs\.splitters\.basic module
|
||||
-------------------------------------
|
||||
galaxy.jobs.splitters.basic module
|
||||
----------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.splitters.basic
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.jobs\.splitters\.multi module
|
||||
-------------------------------------
|
||||
galaxy.jobs.splitters.multi module
|
||||
----------------------------------
|
||||
|
||||
.. automodule:: galaxy.jobs.splitters.multi
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.managers package
|
||||
========================
|
||||
galaxy.managers package
|
||||
=======================
|
||||
|
||||
.. automodule:: galaxy.managers
|
||||
:members:
|
||||
@@ -9,264 +9,264 @@ galaxy\.managers package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.managers\.annotatable module
|
||||
------------------------------------
|
||||
galaxy.managers.annotatable module
|
||||
----------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.annotatable
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.api\_keys module
|
||||
----------------------------------
|
||||
galaxy.managers.api\_keys module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.api_keys
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.base module
|
||||
-----------------------------
|
||||
galaxy.managers.base module
|
||||
---------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.base
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.citations module
|
||||
----------------------------------
|
||||
galaxy.managers.citations module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.citations
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.cloud module
|
||||
------------------------------
|
||||
galaxy.managers.cloud module
|
||||
----------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.cloud
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.cloudauthzs module
|
||||
------------------------------------
|
||||
galaxy.managers.cloudauthzs module
|
||||
----------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.cloudauthzs
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.collections module
|
||||
------------------------------------
|
||||
galaxy.managers.collections module
|
||||
----------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.collections
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.collections\_util module
|
||||
------------------------------------------
|
||||
galaxy.managers.collections\_util module
|
||||
----------------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.collections_util
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.configuration module
|
||||
--------------------------------------
|
||||
galaxy.managers.configuration module
|
||||
------------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.configuration
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.containers module
|
||||
-----------------------------------
|
||||
galaxy.managers.containers module
|
||||
---------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.containers
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.context module
|
||||
--------------------------------
|
||||
galaxy.managers.context module
|
||||
------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.context
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.datasets module
|
||||
---------------------------------
|
||||
galaxy.managers.datasets module
|
||||
-------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.datasets
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.deletable module
|
||||
----------------------------------
|
||||
galaxy.managers.deletable module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.deletable
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.folders module
|
||||
--------------------------------
|
||||
galaxy.managers.folders module
|
||||
------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.folders
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.hdas module
|
||||
-----------------------------
|
||||
galaxy.managers.hdas module
|
||||
---------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.hdas
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.hdcas module
|
||||
------------------------------
|
||||
galaxy.managers.hdcas module
|
||||
----------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.hdcas
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.histories module
|
||||
----------------------------------
|
||||
galaxy.managers.histories module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.histories
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.history\_contents module
|
||||
------------------------------------------
|
||||
galaxy.managers.history\_contents module
|
||||
----------------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.history_contents
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.jobs module
|
||||
-----------------------------
|
||||
galaxy.managers.jobs module
|
||||
---------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.jobs
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.lddas module
|
||||
------------------------------
|
||||
galaxy.managers.lddas module
|
||||
----------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.lddas
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.libraries module
|
||||
----------------------------------
|
||||
galaxy.managers.libraries module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.libraries
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.library\_datasets module
|
||||
------------------------------------------
|
||||
galaxy.managers.library\_datasets module
|
||||
----------------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.library_datasets
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.pages module
|
||||
------------------------------
|
||||
galaxy.managers.pages module
|
||||
----------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.pages
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.ratable module
|
||||
--------------------------------
|
||||
galaxy.managers.ratable module
|
||||
------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.ratable
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.rbac\_secured module
|
||||
--------------------------------------
|
||||
galaxy.managers.rbac\_secured module
|
||||
------------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.rbac_secured
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.roles module
|
||||
------------------------------
|
||||
galaxy.managers.roles module
|
||||
----------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.roles
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.secured module
|
||||
--------------------------------
|
||||
galaxy.managers.secured module
|
||||
------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.secured
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.sharable module
|
||||
---------------------------------
|
||||
galaxy.managers.sharable module
|
||||
-------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.sharable
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.taggable module
|
||||
---------------------------------
|
||||
galaxy.managers.taggable module
|
||||
-------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.taggable
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.tags module
|
||||
-----------------------------
|
||||
galaxy.managers.tools module
|
||||
----------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.tags
|
||||
.. automodule:: galaxy.managers.tools
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.users module
|
||||
------------------------------
|
||||
galaxy.managers.users module
|
||||
----------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.users
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.visualizations module
|
||||
---------------------------------------
|
||||
galaxy.managers.visualizations module
|
||||
-------------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.visualizations
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.managers\.workflows module
|
||||
----------------------------------
|
||||
galaxy.managers.workflows module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.managers.workflows
|
||||
:members:
|
||||
|
||||
@@ -1,8 +1,20 @@
|
||||
galaxy\.metadata package
|
||||
========================
|
||||
galaxy.metadata package
|
||||
=======================
|
||||
|
||||
.. automodule:: galaxy.metadata
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy.metadata.set\_metadata module
|
||||
------------------------------------
|
||||
|
||||
.. automodule:: galaxy.metadata.set_metadata
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
|
||||
|
||||
@@ -0,0 +1,67 @@
|
||||
galaxy.model.dataset\_collections package
|
||||
=========================================
|
||||
|
||||
.. automodule:: galaxy.model.dataset_collections
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Subpackages
|
||||
-----------
|
||||
|
||||
.. toctree::
|
||||
|
||||
galaxy.model.dataset_collections.types
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy.model.dataset\_collections.builder module
|
||||
------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.dataset_collections.builder
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.model.dataset\_collections.matching module
|
||||
-------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.dataset_collections.matching
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.model.dataset\_collections.registry module
|
||||
-------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.dataset_collections.registry
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.model.dataset\_collections.structure module
|
||||
--------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.dataset_collections.structure
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.model.dataset\_collections.subcollections module
|
||||
-------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.dataset_collections.subcollections
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.model.dataset\_collections.type\_description module
|
||||
----------------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.dataset_collections.type_description
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
|
||||
@@ -0,0 +1,28 @@
|
||||
galaxy.model.dataset\_collections.types package
|
||||
===============================================
|
||||
|
||||
.. automodule:: galaxy.model.dataset_collections.types
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy.model.dataset\_collections.types.list module
|
||||
---------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.dataset_collections.types.list
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.model.dataset\_collections.types.paired module
|
||||
-----------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.dataset_collections.types.paired
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
|
||||
@@ -1,16 +1,23 @@
|
||||
galaxy\.model\.migrate package
|
||||
==============================
|
||||
galaxy.model.migrate package
|
||||
============================
|
||||
|
||||
.. automodule:: galaxy.model.migrate
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Subpackages
|
||||
-----------
|
||||
|
||||
.. toctree::
|
||||
|
||||
galaxy.model.migrate.versions
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.model\.migrate\.check module
|
||||
------------------------------------
|
||||
galaxy.model.migrate.check module
|
||||
---------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.migrate.check
|
||||
:members:
|
||||
|
||||
File diff suppressed because it is too large
Load Diff
@@ -1,5 +1,5 @@
|
||||
galaxy\.model\.orm package
|
||||
==========================
|
||||
galaxy.model.orm package
|
||||
========================
|
||||
|
||||
.. automodule:: galaxy.model.orm
|
||||
:members:
|
||||
@@ -9,32 +9,32 @@ galaxy\.model\.orm package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.model\.orm\.engine\_factory module
|
||||
------------------------------------------
|
||||
galaxy.model.orm.engine\_factory module
|
||||
---------------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.orm.engine_factory
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.model\.orm\.logging\_connection\_proxy module
|
||||
-----------------------------------------------------
|
||||
galaxy.model.orm.logging\_connection\_proxy module
|
||||
--------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.orm.logging_connection_proxy
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.model\.orm\.now module
|
||||
------------------------------
|
||||
galaxy.model.orm.now module
|
||||
---------------------------
|
||||
|
||||
.. automodule:: galaxy.model.orm.now
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.model\.orm\.scripts module
|
||||
----------------------------------
|
||||
galaxy.model.orm.scripts module
|
||||
-------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.orm.scripts
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.model package
|
||||
=====================
|
||||
galaxy.model package
|
||||
====================
|
||||
|
||||
.. automodule:: galaxy.model
|
||||
:members:
|
||||
@@ -11,63 +11,97 @@ Subpackages
|
||||
|
||||
.. toctree::
|
||||
|
||||
galaxy.model.dataset_collections
|
||||
galaxy.model.migrate
|
||||
galaxy.model.orm
|
||||
galaxy.model.store
|
||||
galaxy.model.tool_shed_install
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.model\.base module
|
||||
--------------------------
|
||||
galaxy.model.base module
|
||||
------------------------
|
||||
|
||||
.. automodule:: galaxy.model.base
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.model\.custom\_types module
|
||||
-----------------------------------
|
||||
galaxy.model.custom\_types module
|
||||
---------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.custom_types
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.model\.item\_attrs module
|
||||
---------------------------------
|
||||
galaxy.model.database\_heartbeat module
|
||||
---------------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.database_heartbeat
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.model.item\_attrs module
|
||||
-------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.item_attrs
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.model\.mapping module
|
||||
-----------------------------
|
||||
galaxy.model.mapping module
|
||||
---------------------------
|
||||
|
||||
.. automodule:: galaxy.model.mapping
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.model\.metadata module
|
||||
------------------------------
|
||||
galaxy.model.metadata module
|
||||
----------------------------
|
||||
|
||||
.. automodule:: galaxy.model.metadata
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.model\.search module
|
||||
----------------------------
|
||||
galaxy.model.none\_like module
|
||||
------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.none_like
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.model.search module
|
||||
--------------------------
|
||||
|
||||
.. automodule:: galaxy.model.search
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.model\.util module
|
||||
--------------------------
|
||||
galaxy.model.security module
|
||||
----------------------------
|
||||
|
||||
.. automodule:: galaxy.model.security
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.model.tags module
|
||||
------------------------
|
||||
|
||||
.. automodule:: galaxy.model.tags
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.model.util module
|
||||
------------------------
|
||||
|
||||
.. automodule:: galaxy.model.util
|
||||
:members:
|
||||
|
||||
@@ -0,0 +1,28 @@
|
||||
galaxy.model.store package
|
||||
==========================
|
||||
|
||||
.. automodule:: galaxy.model.store
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy.model.store.build\_objects module
|
||||
----------------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.store.build_objects
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.model.store.discover module
|
||||
----------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.store.discover
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.model\.tool\_shed\_install\.migrate package
|
||||
===================================================
|
||||
galaxy.model.tool\_shed\_install.migrate package
|
||||
================================================
|
||||
|
||||
.. automodule:: galaxy.model.tool_shed_install.migrate
|
||||
:members:
|
||||
@@ -9,8 +9,8 @@ galaxy\.model\.tool\_shed\_install\.migrate package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.model\.tool\_shed\_install\.migrate\.check module
|
||||
---------------------------------------------------------
|
||||
galaxy.model.tool\_shed\_install.migrate.check module
|
||||
-----------------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.tool_shed_install.migrate.check
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.model\.tool\_shed\_install package
|
||||
==========================================
|
||||
galaxy.model.tool\_shed\_install package
|
||||
========================================
|
||||
|
||||
.. automodule:: galaxy.model.tool_shed_install
|
||||
:members:
|
||||
@@ -16,8 +16,8 @@ Subpackages
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.model\.tool\_shed\_install\.mapping module
|
||||
--------------------------------------------------
|
||||
galaxy.model.tool\_shed\_install.mapping module
|
||||
-----------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.model.tool_shed_install.mapping
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.objectstore package
|
||||
===========================
|
||||
galaxy.objectstore package
|
||||
==========================
|
||||
|
||||
.. automodule:: galaxy.objectstore
|
||||
:members:
|
||||
@@ -9,56 +9,56 @@ galaxy\.objectstore package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.objectstore\.azure\_blob module
|
||||
---------------------------------------
|
||||
galaxy.objectstore.azure\_blob module
|
||||
-------------------------------------
|
||||
|
||||
.. automodule:: galaxy.objectstore.azure_blob
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.objectstore\.cloud module
|
||||
---------------------------------
|
||||
galaxy.objectstore.cloud module
|
||||
-------------------------------
|
||||
|
||||
.. automodule:: galaxy.objectstore.cloud
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.objectstore\.pithos module
|
||||
----------------------------------
|
||||
galaxy.objectstore.pithos module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.objectstore.pithos
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.objectstore\.pulsar module
|
||||
----------------------------------
|
||||
galaxy.objectstore.pulsar module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.objectstore.pulsar
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.objectstore\.rods module
|
||||
--------------------------------
|
||||
galaxy.objectstore.rods module
|
||||
------------------------------
|
||||
|
||||
.. automodule:: galaxy.objectstore.rods
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.objectstore\.s3 module
|
||||
------------------------------
|
||||
galaxy.objectstore.s3 module
|
||||
----------------------------
|
||||
|
||||
.. automodule:: galaxy.objectstore.s3
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.objectstore\.s3\_multipart\_upload module
|
||||
-------------------------------------------------
|
||||
galaxy.objectstore.s3\_multipart\_upload module
|
||||
-----------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.objectstore.s3_multipart_upload
|
||||
:members:
|
||||
|
||||
@@ -0,0 +1,28 @@
|
||||
galaxy.openid package
|
||||
=====================
|
||||
|
||||
.. automodule:: galaxy.openid
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy.openid.openid\_manager module
|
||||
------------------------------------
|
||||
|
||||
.. automodule:: galaxy.openid.openid_manager
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.openid.providers module
|
||||
------------------------------
|
||||
|
||||
.. automodule:: galaxy.openid.providers
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.quota package
|
||||
=====================
|
||||
galaxy.quota package
|
||||
====================
|
||||
|
||||
.. automodule:: galaxy.quota
|
||||
:members:
|
||||
|
||||
+17
-13
@@ -15,24 +15,28 @@ Subpackages
|
||||
galaxy.auth
|
||||
galaxy.authnz
|
||||
galaxy.containers
|
||||
galaxy.dataset_collections
|
||||
galaxy.datatypes
|
||||
galaxy.dependencies
|
||||
galaxy.eggs
|
||||
galaxy.exceptions
|
||||
galaxy.forms
|
||||
galaxy.job_execution
|
||||
galaxy.job_metrics
|
||||
galaxy.jobs
|
||||
galaxy.managers
|
||||
galaxy.metadata
|
||||
galaxy.model
|
||||
galaxy.objectstore
|
||||
galaxy.openid
|
||||
galaxy.quota
|
||||
galaxy.security
|
||||
galaxy.tool_util
|
||||
galaxy.tools
|
||||
galaxy.tours
|
||||
galaxy.util
|
||||
galaxy.visualization
|
||||
galaxy.web
|
||||
galaxy.web_stack
|
||||
galaxy.webapps
|
||||
galaxy.webhooks
|
||||
galaxy.work
|
||||
@@ -41,48 +45,48 @@ Subpackages
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.app module
|
||||
------------------
|
||||
galaxy.app module
|
||||
-----------------
|
||||
|
||||
.. automodule:: galaxy.app
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.config module
|
||||
---------------------
|
||||
galaxy.config module
|
||||
--------------------
|
||||
|
||||
.. automodule:: galaxy.config
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.main module
|
||||
-------------------
|
||||
galaxy.main module
|
||||
------------------
|
||||
|
||||
.. automodule:: galaxy.main
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.queue\_worker module
|
||||
----------------------------
|
||||
galaxy.queue\_worker module
|
||||
---------------------------
|
||||
|
||||
.. automodule:: galaxy.queue_worker
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.queues module
|
||||
---------------------
|
||||
galaxy.queues module
|
||||
--------------------
|
||||
|
||||
.. automodule:: galaxy.queues
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.version module
|
||||
----------------------
|
||||
galaxy.version module
|
||||
---------------------
|
||||
|
||||
.. automodule:: galaxy.version
|
||||
:members:
|
||||
|
||||
@@ -1,5 +1,5 @@
|
||||
galaxy\.security package
|
||||
========================
|
||||
galaxy.security package
|
||||
=======================
|
||||
|
||||
.. automodule:: galaxy.security
|
||||
:members:
|
||||
@@ -9,16 +9,24 @@ galaxy\.security package
|
||||
Submodules
|
||||
----------
|
||||
|
||||
galaxy\.security\.passwords module
|
||||
----------------------------------
|
||||
galaxy.security.idencoding module
|
||||
---------------------------------
|
||||
|
||||
.. automodule:: galaxy.security.idencoding
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy.security.passwords module
|
||||
--------------------------------
|
||||
|
||||
.. automodule:: galaxy.security.passwords
|
||||
:members:
|
||||
:undoc-members:
|
||||
:show-inheritance:
|
||||
|
||||
galaxy\.security\.validate\_user\_input module
|
||||
----------------------------------------------
|
||||
galaxy.security.validate\_user\_input module
|
||||
--------------------------------------------
|
||||
|
||||
.. automodule:: galaxy.security.validate_user_input
|
||||
:members:
|
||||
|
||||
Some files were not shown because too many files have changed in this diff Show More
Reference in New Issue
Block a user