From 05e17760038402cb44c0b4a5ae60cc94ae4b579d Mon Sep 17 00:00:00 2001 From: Colin Date: Sun, 26 Nov 2023 22:21:42 -0500 Subject: [PATCH] [update docs] Fix syntax error in plugin docs --- .../customizing_feature_colors.md | 2 +- .../customizing_feature_details.md | 32 +- website/yarn.lock | 315 +++++++++--------- 3 files changed, 186 insertions(+), 163 deletions(-) diff --git a/website/docs/config_guides/customizing_feature_colors.md b/website/docs/config_guides/customizing_feature_colors.md index 33baa93358..b7ac4265bc 100644 --- a/website/docs/config_guides/customizing_feature_colors.md +++ b/website/docs/config_guides/customizing_feature_colors.md @@ -32,7 +32,7 @@ For example, create a file named "myplugin.js" (see also Footnote 1) // the plugin will be included in both the main thread and web worker, so // install plugin to either window or self (webworker global scope) ;(typeof self !== 'undefined' ? self : window).JBrowsePluginMyPlugin = { - default: Plugin, + default: MyPlugin, } })() ``` diff --git a/website/docs/config_guides/customizing_feature_details.md b/website/docs/config_guides/customizing_feature_details.md index 553c16b5c2..9f9fac96f2 100644 --- a/website/docs/config_guides/customizing_feature_details.md +++ b/website/docs/config_guides/customizing_feature_details.md @@ -82,7 +82,7 @@ You can make a small plugin file "myplugin.js" // the plugin will be included in both the main thread and web worker, so // install plugin to either window or self (webworker global scope) ;(typeof self !== 'undefined' ? self : window).JBrowsePluginMyPlugin = { - default: Plugin, + default: MyPlugin, } })() ``` @@ -155,24 +155,36 @@ of your data file, you could make a jexl function such as the following // the plugin will be included in both the main thread and web worker, so // install plugin to either window or self (webworker global scope) ;(typeof self !== 'undefined' ? self : window).JBrowsePluginMyPlugin = { - default: Plugin, + default: MyPlugin, } })() ``` -And then in your config +And then in your config.json ```json { - ... - "formatDetails": { - "feature": "jexl:{dbxref:linkout(feature)}", - "subfeatures": "jexl:{dbxref:linkout(feature)}" - } + "plugins": [ + { + "name": "MyPlugin", + "umdLoc": { "uri": "myplugin.js" } + } + ], + "tracks": [ + { + "trackId": "mytrack", + "name":"My track", + "adapter": {...}, + "formatDetails": { + "feature": "jexl:{dbxref:linkout(feature)}", + "subfeatures": "jexl:{dbxref:linkout(feature)}" + } + } + ] } ``` -#### Footnote 1 +#### Footnote 1 - the feature details are serialized to plain JSON objects Note that the feature for feature detail panels is different from that in the color callback: it is a plain JS object. So instead of `feature.get('start')`, @@ -180,6 +192,8 @@ you can say just `feature.start`. The reason it is different for the feature details callbacks (compared with e.g. the color callbacks) is that the feature is serialized into the session. +#### Footnote 2 - why are feature details plain JSON objects when other usages aren't? + You might also ask why aren't all features serialized or plain JSON objects normally? Well, some feature types like alignments features benefit from only being partially serialized e.g. getting only a couple attributes via diff --git a/website/yarn.lock b/website/yarn.lock index b216d19d7c..fb84669941 100644 --- a/website/yarn.lock +++ b/website/yarn.lock @@ -189,12 +189,12 @@ "@jridgewell/gen-mapping" "^0.3.0" "@jridgewell/trace-mapping" "^0.3.9" -"@babel/code-frame@^7.0.0", "@babel/code-frame@^7.16.0", "@babel/code-frame@^7.22.13", "@babel/code-frame@^7.8.3": - version "7.22.13" - resolved "https://registry.yarnpkg.com/@babel/code-frame/-/code-frame-7.22.13.tgz#e3c1c099402598483b7a8c46a721d1038803755e" - integrity sha512-XktuhWlJ5g+3TJXc5upd9Ks1HutSArik6jf2eAjYFyIOf4ej3RN+184cZbzDvbPnuTJIUhPKKJE3cIsYTiAT3w== +"@babel/code-frame@^7.0.0", "@babel/code-frame@^7.16.0", "@babel/code-frame@^7.22.13", "@babel/code-frame@^7.23.4", "@babel/code-frame@^7.8.3": + version "7.23.4" + resolved "https://registry.yarnpkg.com/@babel/code-frame/-/code-frame-7.23.4.tgz#03ae5af150be94392cb5c7ccd97db5a19a5da6aa" + integrity sha512-r1IONyb6Ia+jYR2vvIDhdWdlTGhqbBoFqLTQidzZ4kepUFH15ejXvFHxCVbtl7BOXIudsIubf4E81xeA3h3IXA== dependencies: - "@babel/highlight" "^7.22.13" + "@babel/highlight" "^7.23.4" chalk "^2.4.2" "@babel/compat-data@^7.22.6", "@babel/compat-data@^7.22.9", "@babel/compat-data@^7.23.3": @@ -223,12 +223,12 @@ json5 "^2.2.3" semver "^6.3.1" -"@babel/generator@^7.22.9", "@babel/generator@^7.23.3": - version "7.23.3" - resolved "https://registry.yarnpkg.com/@babel/generator/-/generator-7.23.3.tgz#86e6e83d95903fbe7613f448613b8b319f330a8e" - integrity sha512-keeZWAV4LU3tW0qRi19HRpabC/ilM0HRBBzf9/k8FFiG4KVpiv0FIy4hHfLfFQZNhziCTPTmd59zoyv6DNISzg== +"@babel/generator@^7.22.9", "@babel/generator@^7.23.3", "@babel/generator@^7.23.4": + version "7.23.4" + resolved "https://registry.yarnpkg.com/@babel/generator/-/generator-7.23.4.tgz#4a41377d8566ec18f807f42962a7f3551de83d1c" + integrity sha512-esuS49Cga3HcThFNebGhlgsrVLkvhqvYDTzgjfFFlHJcIfLe5jFmRRfCQ1KuBfc4Jrtn3ndLgKWAKjBE+IraYQ== dependencies: - "@babel/types" "^7.23.3" + "@babel/types" "^7.23.4" "@jridgewell/gen-mapping" "^0.3.2" "@jridgewell/trace-mapping" "^0.3.17" jsesc "^2.5.1" @@ -389,10 +389,10 @@ dependencies: "@babel/types" "^7.22.5" -"@babel/helper-string-parser@^7.22.5": - version "7.22.5" - resolved "https://registry.yarnpkg.com/@babel/helper-string-parser/-/helper-string-parser-7.22.5.tgz#533f36457a25814cf1df6488523ad547d784a99f" - integrity sha512-mM4COjgZox8U+JcXQwPijIZLElkgEpO5rsERVDJTc2qfCDfERyob6k5WegS14SX18IIjv+XD+GrqNumY5JRCDw== +"@babel/helper-string-parser@^7.23.4": + version "7.23.4" + resolved "https://registry.yarnpkg.com/@babel/helper-string-parser/-/helper-string-parser-7.23.4.tgz#9478c707febcbbe1ddb38a3d91a2e054ae622d83" + integrity sha512-803gmbQdqwdf4olxrX4AJyFBV/RTr3rSmOj0rKwesmzlfhYNDEs+/iOcznzpNWlJlIlTJC2QfPFcHB6DlzdVLQ== "@babel/helper-validator-identifier@^7.22.20": version "7.22.20" @@ -414,27 +414,27 @@ "@babel/types" "^7.22.19" "@babel/helpers@^7.23.2": - version "7.23.2" - resolved "https://registry.yarnpkg.com/@babel/helpers/-/helpers-7.23.2.tgz#2832549a6e37d484286e15ba36a5330483cac767" - integrity sha512-lzchcp8SjTSVe/fPmLwtWVBFC7+Tbn8LGHDVfDp9JGxpAY5opSaEFgt8UQvrnECWOTdji2mOWMz1rOhkHscmGQ== + version "7.23.4" + resolved "https://registry.yarnpkg.com/@babel/helpers/-/helpers-7.23.4.tgz#7d2cfb969aa43222032193accd7329851facf3c1" + integrity sha512-HfcMizYz10cr3h29VqyfGL6ZWIjTwWfvYBMsBVGwpcbhNGe3wQ1ZXZRPzZoAHhd9OqHadHqjQ89iVKINXnbzuw== dependencies: "@babel/template" "^7.22.15" - 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