deploy

.buildinfo

@@ -0,0 +1,4 @@
+# Sphinx build info version 1
+# This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
+config: 9bd8b4ade0746fcf2960a0bd82bc9be0
+tags: 645f666f9bcd5a90fca523b33c5a78b7

README.md

@@ -0,0 +1,7 @@
+
+# Xmipp
+<a href="https://github.com/I2PC/xmipp"><img src="https://github.com/I2PC/scipion-em-xmipp/blob/devel/xmipp3/xmipp_logo.png" alt="drawing" width="330" align="left"></a>
+This is the full content: [https://i2pc.github.io/docs/](https://i2pc.github.io/docs/)
+
+
+Xmipp is a suite of image processing programs, primarily aimed at single-particle 3D electron microscopy, designed and managed by the [Biocomputing Unit](http://biocomputingunit.es/) located in Madrid, Spain.

_sources/contact.rst.txt

@@ -0,0 +1,21 @@
+.. _contact-us:
+
+==========
+Contact us
+==========
+From the xmipp-team we would be happy to hear your doubts and suggestions, do not hesitate to contact us at any
+time. To do so, you can either open an issue in the Github repository related to your question or
+contact us by mail.
+
+Mail
+=======================
+If the question is related to the Scipion framework, try the `contact us <https://scipion.i2pc.es/contact>`_ page.
+If it is related to someThe easiest way to reach us is by writing to our mail: `[email protected]  <mailto:[email protected] >` or `[email protected] <mailto:[email protected]>` 
+
+Discord channel
+=======================
+The easiest way to reach us is by writing to our Xmipp channel on the Scipion framework. Request access at `scipion team <mailto:[email protected]>`
+
+Support for developers
+================
+That way you will get almost immediate answers to your "dev-doubts" is by writing to our Xmipp channel on the Scipion framework. You can also `create an issue <https://github.com/I2PC/xmipp/issues>` to report a bug or suggest a new feature. Remember we have four repositories for Xmipp: `xmipp <https://github.com/I2PC/xmipp>`, `xmippCore <>`, `scipion-em-xmipp <https://github.com/I2PC/scipion-em-xmipp>` and `xmippVix <https://github.com/I2PC/xmippViz>`)

_sources/index.rst.txt

@@ -0,0 +1,7 @@
+.. _docs-chem_introduction:
+
+.. figure:: ../_static/images/xmipp.png
+   :alt: xmipp logo
+
+Welcome to Xmipp documentation!
+========================================

_sources/license.rst.txt

@@ -0,0 +1,12 @@
+.. _license:
+
+License
+========
+All Xmipp code and plugins, are licensed under the `GPL3 License <http://www.gnu.org/licenses/gpl-3.0.html>`_.
+
+Now, Xmipp interacts, and in some cases installs 3rd party software with its own license that must be observed.
+
+So, it is under the user's responsibility to check the license of each software Xmipp is installing.
+
+In most cases, if not all, software is freely available for academic use and industry but there are few exceptions where industry 
+users, or in some extreme cases even academic ones, are not granted free usage. You must check in each case.

_static/_sphinx_javascript_frameworks_compat.js

@@ -0,0 +1,123 @@
+/* Compatability shim for jQuery and underscores.js.
+ *
+ * Copyright Sphinx contributors
+ * Released under the two clause BSD licence
+ */
+
+/**
+ * small helper function to urldecode strings
+ *
+ * See https://developer.mozilla.org/en-US/docs/Web/JavaScript/Reference/Global_Objects/decodeURIComponent#Decoding_query_parameters_from_a_URL
+ */
+jQuery.urldecode = function(x) {
+    if (!x) {
+        return x
+    }
+    return decodeURIComponent(x.replace(/\+/g, ' '));
+};
+
+/**
+ * small helper function to urlencode strings
+ */
+jQuery.urlencode = encodeURIComponent;
+
+/**
+ * This function returns the parsed url parameters of the
+ * current request. Multiple values per key are supported,
+ * it will always return arrays of strings for the value parts.
+ */
+jQuery.getQueryParameters = function(s) {
+    if (typeof s === 'undefined')
+        s = document.location.search;
+    var parts = s.substr(s.indexOf('?') + 1).split('&');
+    var result = {};
+    for (var i = 0; i < parts.length; i++) {
+        var tmp = parts[i].split('=', 2);
+        var key = jQuery.urldecode(tmp[0]);
+        var value = jQuery.urldecode(tmp[1]);
+        if (key in result)
+            result[key].push(value);
+        else
+            result[key] = [value];
+    }
+    return result;
+};
+
+/**
+ * highlight a given string on a jquery object by wrapping it in
+ * span elements with the given class name.
+ */
+jQuery.fn.highlightText = function(text, className) {
+    function highlight(node, addItems) {
+        if (node.nodeType === 3) {
+            var val = node.nodeValue;
+            var pos = val.toLowerCase().indexOf(text);
+            if (pos >= 0 &&
+                !jQuery(node.parentNode).hasClass(className) &&
+                !jQuery(node.parentNode).hasClass("nohighlight")) {
+                var span;
+                var isInSVG = jQuery(node).closest("body, svg, foreignObject").is("svg");
+                if (isInSVG) {
+                    span = document.createElementNS("http://www.w3.org/2000/svg", "tspan");
+                } else {
+                    span = document.createElement("span");
+                    span.className = className;
+                }
+                span.appendChild(document.createTextNode(val.substr(pos, text.length)));
+                node.parentNode.insertBefore(span, node.parentNode.insertBefore(
+                    document.createTextNode(val.substr(pos + text.length)),
+                    node.nextSibling));
+                node.nodeValue = val.substr(0, pos);
+                if (isInSVG) {
+                    var rect = document.createElementNS("http://www.w3.org/2000/svg", "rect");
+                    var bbox = node.parentElement.getBBox();
+                    rect.x.baseVal.value = bbox.x;
+                    rect.y.baseVal.value = bbox.y;
+                    rect.width.baseVal.value = bbox.width;
+                    rect.height.baseVal.value = bbox.height;
+                    rect.setAttribute('class', className);
+                    addItems.push({
+                        "parent": node.parentNode,
+                        "target": rect});
+                }
+            }
+        }
+        else if (!jQuery(node).is("button, select, textarea")) {
+            jQuery.each(node.childNodes, function() {
+                highlight(this, addItems);
+            });
+        }
+    }
+    var addItems = [];
+    var result = this.each(function() {
+        highlight(this, addItems);
+    });
+    for (var i = 0; i < addItems.length; ++i) {
+        jQuery(addItems[i].parent).before(addItems[i].target);
+    }
+    return result;
+};
+
+/*
+ * backward compatibility for jQuery.browser
+ * This will be supported until firefox bug is fixed.
+ */
+if (!jQuery.browser) {
+    jQuery.uaMatch = function(ua) {
+        ua = ua.toLowerCase();
+
+        var match = /(chrome)[ \/]([\w.]+)/.exec(ua) ||
+            /(webkit)[ \/]([\w.]+)/.exec(ua) ||
+            /(opera)(?:.*version|)[ \/]([\w.]+)/.exec(ua) ||
+            /(msie) ([\w.]+)/.exec(ua) ||
+            ua.indexOf("compatible") < 0 && /(mozilla)(?:.*? rv:([\w.]+)|)/.exec(ua) ||
+            [];
+
+        return {
+            browser: match[ 1 ] || "",
+            version: match[ 2 ] || "0"
+        };
+    };
+    jQuery.browser = {};
+    jQuery.browser[jQuery.uaMatch(navigator.userAgent).browser] = true;
+}