[automated] Fix linting with Prettier

public_html/assets/js/aws-s3-explorer.js

@@ -232,7 +232,7 @@ $(function () {
     if (data.params.Prefix) {
       parts.push.apply(
         parts,
-        data.params.Prefix.endsWith('/') ? data.params.Prefix.slice(0, -1).split('/') : data.params.Prefix.split('/')
+        data.params.Prefix.endsWith('/') ? data.params.Prefix.slice(0, -1).split('/') : data.params.Prefix.split('/'),
       );
     }
 

public_html/assets/js/canvas2svg.js

@@ -111,7 +111,7 @@
       'Scaron,b1,scaron,bo,Yuml,m6,circ,ms,tilde,802,ensp,803,emsp,809,thinsp,80c,zwnj,80d,zwj,80e,lrm,' +
       '80f,rlm,80j,ndash,80k,mdash,80o,lsquo,80p,rsquo,80q,sbquo,80s,ldquo,80t,rdquo,80u,bdquo,810,dagger,' +
       '811,Dagger,81g,permil,81p,lsaquo,81q,rsaquo,85c,euro',
-    32
+    32,
   );
 
   //Some basic mappings for attributes and default values.
@@ -415,7 +415,7 @@
             matches = regex.exec(value);
             currentElement.setAttribute(
               style.svgAttr,
-              format('rgb({r},{g},{b})', { r: matches[1], g: matches[2], b: matches[3] })
+              format('rgb({r},{g},{b})', { r: matches[1], g: matches[2], b: matches[3] }),
             );
             //should take globalAlpha here
             var opacity = matches[4];
@@ -671,7 +671,7 @@
         cp2y: cp2y,
         x: x,
         y: y,
-      })
+      }),
     );
   };
 
@@ -823,7 +823,7 @@
         width: width,
         height: height,
       },
-      true
+      true,
     );
     parent = this.__closestGroupOrSvg();
     parent.appendChild(rect);
@@ -848,7 +848,7 @@
         width: width,
         height: height,
       },
-      true
+      true,
     );
     parent = this.__closestGroupOrSvg();
     parent.appendChild(rect);
@@ -899,7 +899,7 @@
         height: height,
         fill: '#FFFFFF',
       },
-      true
+      true,
     );
     parent.appendChild(rect);
   };
@@ -919,7 +919,7 @@
         y2: y2 + 'px',
         gradientUnits: 'userSpaceOnUse',
       },
-      false
+      false,
     );
     this.__defs.appendChild(grad);
     return new CanvasGradient(grad, this);
@@ -941,7 +941,7 @@
         fy: y0 + 'px',
         gradientUnits: 'userSpaceOnUse',
       },
-      false
+      false,
     );
     this.__defs.appendChild(grad);
     return new CanvasGradient(grad, this);
@@ -1018,7 +1018,7 @@
           'text-anchor': getTextAnchor(this.textAlign),
           'dominant-baseline': getDominantBaseline(this.textBaseline),
         },
-        true
+        true,
       );
 
     textElement.appendChild(this.__document.createTextNode(text));
@@ -1100,7 +1100,7 @@
         sweepFlag: sweepFlag,
         endX: endX,
         endY: endY,
-      })
+      }),
     );
 
     this.__currentPosition = { x: endX, y: endY };
@@ -1234,7 +1234,7 @@
       svgImage.setAttributeNS(
         'http://www.w3.org/1999/xlink',
         'xlink:href',
-        image.nodeName === 'CANVAS' ? image.toDataURL() : image.getAttribute('src')
+        image.nodeName === 'CANVAS' ? image.toDataURL() : image.getAttribute('src'),
       );
       parent.appendChild(svgImage);
     }
@@ -1257,7 +1257,7 @@
       img.setAttributeNS(
         'http://www.w3.org/1999/xlink',
         'xlink:href',
-        image.nodeName === 'CANVAS' ? image.toDataURL() : image.getAttribute('src')
+        image.nodeName === 'CANVAS' ? image.toDataURL() : image.getAttribute('src'),
       );
       pattern.appendChild(img);
       this.__defs.appendChild(pattern);

public_html/assets/js/nf-core-schema-builder.js

@@ -21,7 +21,7 @@ $(function () {
       .calendar()
       .replace(/^\w/, function (chr) {
         return chr.toLowerCase();
-      })
+      }),
   );
   $('.cache_expires_at').show();
 
@@ -105,7 +105,7 @@ $(function () {
               search_term +
               "'], .popover-body div button[data-classname*='" +
               search_term +
-              "']"
+              "']",
           )
           .show();
       }
@@ -294,14 +294,14 @@ $(function () {
     } else {
       $('.add-param-btn, .add-group-btn, .collapse-groups-btn, .expand-groups-btn, .to-top-btn').attr(
         'disabled',
-        false
+        false,
       );
     }
 
     // Warn about the console finishing
     if ($(this).hasClass('back-to-editor-btn')) {
       alert(
-        'nf-core schema build will have now exited. Any further change will have to be manually copied to your schema file. Note that you can run nf-core schema build as often as you like for updates.'
+        'nf-core schema build will have now exited. Any further change will have to be manually copied to your schema file. Note that you can run nf-core schema build as often as you like for updates.',
       );
     }
   });
@@ -776,7 +776,7 @@ $(function () {
       var help_text_html = md_converter.makeHtml($('#help_text_input').val());
       $('.helptext-html-preview .helptext-preview-helptext').html(help_text_html);
       $('.helptext-html-preview .helptext-preview-helptext table').addClass(
-        'table table-bordered table-striped table-sm small'
+        'table table-bordered table-striped table-sm small',
       );
       $('.helptext-html-preview .helptext-preview-helptext table').wrap('<div class="table-responsive"></div>');
     }
@@ -937,7 +937,7 @@ $(function () {
         var number_val = parseFloat(el);
         if (isNaN(number_val)) {
           $('.modal-body').append(
-            '<div class="alert alert-danger">Error: Enumerated values have to be numeric for parameter types "integer" and "number".</div>'
+            '<div class="alert alert-danger">Error: Enumerated values have to be numeric for parameter types "integer" and "number".</div>',
           );
           e.preventDefault();
           e.stopPropagation();
@@ -1324,10 +1324,10 @@ function generate_param_row(id, param) {
     var re = new RegExp('^fa[a-z -]+$');
     if (!re.test(param['fa_icon'])) {
       console.error(
-        "FontAwesome icon did not match the regex: /^fa[a-z -]+$/ ('" + param['fa_icon'] + "') - removing from schema."
+        "FontAwesome icon did not match the regex: /^fa[a-z -]+$/ ('" + param['fa_icon'] + "') - removing from schema.",
       );
       alert(
-        "FontAwesome icon did not match the regex: /^fa[a-z -]+$/ ('" + param['fa_icon'] + "') - removing from schema."
+        "FontAwesome icon did not match the regex: /^fa[a-z -]+$/ ('" + param['fa_icon'] + "') - removing from schema.",
       );
       delete param['fa_icon'];
       update_param_in_schema(id, param);
@@ -1438,7 +1438,7 @@ function generate_group_row(id, param, child_params) {
     var re = new RegExp('^fa[a-z -]+$');
     if (!re.test(param['fa_icon'])) {
       console.error(
-        "FontAwesome icon did not match the regex: /^fa[a-z -]+$/ ('" + param['fa_icon'] + "') - removing from schema."
+        "FontAwesome icon did not match the regex: /^fa[a-z -]+$/ ('" + param['fa_icon'] + "') - removing from schema.",
       );
       delete param['fa_icon'];
       update_param_in_schema(id, param);
@@ -1622,7 +1622,7 @@ function validate_param(param) {
           'Error: Default value "' +
             param['default'] +
             '" must be greater than or equal to minimum value: ' +
-            param['minimum']
+            param['minimum'],
         );
         return false;
       }
@@ -1633,7 +1633,7 @@ function validate_param(param) {
           'Error: Default value "' +
             param['default'] +
             '" must be less than or equal to maximum value: ' +
-            param['maximum']
+            param['maximum'],
         );
         return false;
       }
@@ -1670,7 +1670,7 @@ function validate_param(param) {
         'Error: Default value "' +
           param['default'] +
           '" must be one of the Enumerated values: ' +
-          param['enum'].join(', ')
+          param['enum'].join(', '),
       );
       return false;
     }
@@ -1681,7 +1681,7 @@ function validate_param(param) {
     var re = new RegExp(param['pattern']);
     if (!re.test(param['default'])) {
       alert(
-        'Error: Default value "' + param['default'] + '" must match the parameter pattern regex: ' + param['pattern']
+        'Error: Default value "' + param['default'] + '" must match the parameter pattern regex: ' + param['pattern'],
       );
       return false;
     }

public_html/assets/js/nf-core-schema-launcher.js

@@ -15,7 +15,7 @@ $(function () {
       .calendar()
       .replace(/^\w/, function (chr) {
         return chr.toLowerCase();
-      })
+      }),
   );
   $('.cache_expires_at').show();
 
@@ -120,7 +120,7 @@ function set_validation_styles(form_is_valid) {
   // Reset
   $('#validation_fail_list').html('');
   $('.form-control:has(.form-check-input[type="radio"])').removeClass(
-    'radio-form-control-valid radio-form-control-invalid'
+    'radio-form-control-valid radio-form-control-invalid',
   );
   $('.input-group .input-group-prepend').removeClass('input-group-valid input-group-invalid');
 
@@ -141,7 +141,7 @@ function set_validation_styles(form_is_valid) {
           $(this).attr('id') +
           '" class="scroll_to_link"><code>' +
           $(this).attr('name').replace('params_', '--').replace('nxf_flag_', '') +
-          '</code></a></li>'
+          '</code></a></li>',
       );
     });
   }

public_html/assets/js/nf-core.js

@@ -36,7 +36,7 @@ $(function () {
     let $this = $(this);
     $this.addClass('position-relative');
     var $copy_btn = $(
-      '<button class="btn btn-outline-secondary copy-button position-absolute top-0 end-0" data-bs-toggle="tooltip"  data-bs-placement="left" data-bs-original-title="Copy to clipboard" ><i class="fas fa-clipboard fa-swap-opacity"></i></button>'
+      '<button class="btn btn-outline-secondary copy-button position-absolute top-0 end-0" data-bs-toggle="tooltip"  data-bs-placement="left" data-bs-original-title="Copy to clipboard" ><i class="fas fa-clipboard fa-swap-opacity"></i></button>',
     );
     $this.append($copy_btn);
     var btn_tooltip = new bootstrap.Tooltip($copy_btn, { container: 'body' });
@@ -493,6 +493,6 @@ function scroll_to(target_el, offset) {
     {
       scrollTop: el_offset,
     },
-    500
+    500,
   );
 }

public_html/assets/js/transcripts.js

@@ -84,7 +84,7 @@ function highlight(event) {
                 $('details[open]').scrollTop() -
                 1.2 * parseFloat(getComputedStyle(document.documentElement).fontSize), // convert rem into px
             },
-            'slow'
+            'slow',
           );
         }
       }

public_html/assets/scss/_nf-core.scss

@@ -568,8 +568,12 @@ h4:focus .header-link,
 
 .edit-md-btn {
   opacity: 0.5;
-  transition: opacity 0.15s ease-in-out, color 0.15s ease-in-out, background-color 0.15s ease-in-out,
-    border-color 0.15s ease-in-out, box-shadow 0.15s ease-in-out;
+  transition:
+    opacity 0.15s ease-in-out,
+    color 0.15s ease-in-out,
+    background-color 0.15s ease-in-out,
+    border-color 0.15s ease-in-out,
+    box-shadow 0.15s ease-in-out;
 }
 .edit-md-btn:hover,
 .edit-md-btn:active,