gramene-search 1.6.19 → 1.6.20

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "gramene-search",
-  "version": "1.6.19",
+  "version": "1.6.20",
   "description": "search wrapper for gramene",
   "source": "src/index.js",
   "main": "dist/index.js",
@@ -28,7 +28,6 @@
     "axios": "^1.6.8",
     "firebase": "^11.0.1",
     "flat-to-nested": "^1.1.1",
-    "formik": "^3.0.0-next.8",
     "gramene-bins-client": "^2.3.3",
     "gramene-dbxrefs": "^3.0.14",
     "gramene-efp-browser": "^1.0.8",
@@ -53,8 +52,7 @@
     "react-simple-tree-menu": "^1.1.18",
     "react-switch": "^7.0.0",
     "redux-bundler": "21.0.0",
-    "redux-bundler-react": "^1.2.0",
-    "yup": "^0.32.9"
+    "redux-bundler-react": "^1.2.0"
   },
   "prettier": {
     "singleQuote": true,

package/src/components/Feedback.js

@@ -1,129 +1,10 @@
 import React from 'react'
-import { Formik } from 'formik'
-import * as Yup from 'yup'
-import { Container, Form, Col, Button } from 'react-bootstrap'
-import axios from 'axios'
 
-const categories = ['Bug','Enhancement','Help Needed','Data','Uncategorized'];
-const schema = Yup.object().shape({
-  name: Yup.string().min(2, 'Too short').max(50, 'Too long').required('Required'),
-  category: Yup.string().oneOf(categories).required('Required'),
-  subject: Yup.string().min(2, 'Too short').max(50, 'Too long').required('Required'),
-  content: Yup.string().min(2, 'Too short').max(50000, 'Too long').required('Required'),
-  email: Yup.string().email('Invalid email').required('Required')
-});
-
-const postFeedback = (formData) => {
-  axios.post('/feedback/', formData)
-    .then(function (response) {
-      alert(`Thank you for your feedback!\nticket #${response.data.ticket}`);
-    })
-    .catch(function (error) {
-      console.log(error);
-    });
-};
 
 const Feedback = (props) => (
-  <Container>
-    <h3>Questions? Comments? Please let us know.</h3>
-    <Formik
-      validationSchema={schema}
-      onSubmit={postFeedback}
-      initialValues={{
-        referrer: props.location.state && props.location.state.search || document.referrer,
-        category: '',
-        subject: '',
-        content: '',
-        name: '',
-        email: ''
-      }}
-    >
-      {({
-        handleSubmit,
-        handleChange,
-        handleBlur,
-        values,
-        touched,
-        isValid,
-        errors
-      }) => (
-        <Form noValidate onSubmit={handleSubmit}>
-          <Form.Row>
-            <Form.Group as={Col} md="4" controlId="validationFormik01">
-              <Form.Label>Name</Form.Label>
-              <Form.Control
-                type="text"
-                name="name"
-                value={values.name}
-                onChange={handleChange}
-                isValid={touched.name && !errors.name}
-              />
-              <Form.Control.Feedback type="invalid" style={{display:'block'}}>{errors.name}</Form.Control.Feedback>
-            </Form.Group>
-          </Form.Row>
-          <Form.Row>
-            <Form.Group as={Col} md="4" controlId="validationFormik02">
-              <Form.Label>Email address</Form.Label>
-              <Form.Control
-                type="email"
-                name="email"
-                value={values.email}
-                onChange={handleChange}
-                isValid={touched.email && !errors.email}
-              />
-              <Form.Control.Feedback type="invalid" style={{display:'block'}}>{errors.email}</Form.Control.Feedback>
-            </Form.Group>
-          </Form.Row>
-          <Form.Row>
-            <Form.Group as={Col} md="4" controlId="validationFormik02a">
-              <Form.Label>Category</Form.Label>
-              <Form.Control
-                as="select"
-                name="category"
-                value={values.category}
-                onChange={handleChange}
-                isValid={touched.category && !errors.category}
-              >
-                <option>Select a Category</option>
-                {categories.map((cat,idx) => (
-                  <option key={idx}>{cat}</option>
-                ))}
-              </Form.Control>
-              <Form.Control.Feedback type="invalid" style={{display:'block'}}>{errors.category}</Form.Control.Feedback>
-            </Form.Group>
-          </Form.Row>
-          <Form.Row>
-            <Form.Group as={Col} md="4" controlId="validationFormik03">
-              <Form.Label>Subject</Form.Label>
-              <Form.Control
-                type="text"
-                name="subject"
-                value={values.subject}
-                onChange={handleChange}
-                isValid={touched.subject && !errors.subject}
-              />
-              <Form.Control.Feedback type="invalid" style={{display:'block'}}>{errors.subject}</Form.Control.Feedback>
-            </Form.Group>
-          </Form.Row>
-          <Form.Row>
-            <Form.Group as={Col} md="4" controlId="validationFormik04">
-              <Form.Label>Your message</Form.Label>
-              <Form.Control
-                style={{height:'15rem', width:'40rem'}}
-                as="textarea"
-                name="content"
-                value={values.content}
-                onChange={handleChange}
-                isValid={touched.content && !errors.content}
-              />
-              <Form.Control.Feedback type="invalid" style={{display:'block'}}>{errors.content}</Form.Control.Feedback>
-            </Form.Group>
-          </Form.Row>
-          <Button type="submit">Submit feedback</Button>
-        </Form>
-      )}
-    </Formik>
-  </Container>
+  <iframe src="https://forms.monday.com/forms/embed/afd004c9495060caf0f1313de599b563?r=use1"
+          width="100%" height="1280px"
+          style={{border: 0, boxShadow: '5px 5px 56px 0px rgba(0,0,0,0.25)'}}/>
 );
 
-export default Feedback;
+export default Feedback;

package/src/components/results/details/VEP.js

@@ -27,6 +27,9 @@ const study_info = {
     '8': {label: 'Lasky landraces', type: 'NAT'},
     '9': {label: 'Sorghum Genomics Toolbox', type: 'NAT'}
   },
+  'zea_maysb73': {
+    '15': {label: 'MaizeGDB 2024', type: 'NAT'}
+  },
   'oryza_sativa': {
     '7': {label: 'Rice 3K', type: 'NAT'},
     '29': {label: 'Rice USDA mini core', type: 'NAT'},

package/src/demo.js

@@ -86,17 +86,17 @@ const panSites = [
     id: 'maize',
     name: 'Maize',
     url: 'https://maize-pangenome.gramene.org',
-    ensemblURL: 'https://maize-pangenome-ensembl.gramene.org',
-    ensemblSite: 'https://maize-pangenome-ensembl.gramene.org',
-    ensemblRest: 'https://data.gramene.org/pansite-ensembl-87',
-    grameneData: 'https://data.gramene.org/maize_v4',
+    ensemblURL: 'https://test.gramene.org',
+    ensemblSite: 'https://test.gramene.org',
+    ensemblRest: 'https://data.gramene.org/pansite-ensembl-108',
+    grameneData: 'https://data.gramene.org/maize_v5',
     targetTaxonId: 4577,
     ga: "G-Y7ZYG1R8QT",
-    showViews: true,
+    showViews: false,
     not_downtime: 'The search interface will be undergoing maintenance on Tuesday, July 20 from 3:00 - 4:00 PM EDT',
     details: {
       sequences: true,
-      VEP: false,
+      VEP: true,
       location: true,
       expression: true,
       homology: true,

package/src/maize.html

@@ -5,7 +5,7 @@
     <title>Gramene Search</title>
     <script>
       window.gramene = {};
-      gramene.defaultServer = 'https://data.gramene.org/maize_v3/swagger';
+      gramene.defaultServer = 'https://data.gramene.org/maize_v5/swagger';
     </script>
     <script async src="./static/gramene-dalliance/dalliance-all.js"></script>
     <script async src="https://plantreactome.gramene.org/DiagramJs/diagram/diagram.nocache.js"></script>
@@ -50,4 +50,4 @@
     }
 </script>
 </body>
-</html>
+</html>