diff --git a/.github/pull_request_template.md b/.github/pull_request_template.md
new file mode 100644
index 0000000..73edff2
--- /dev/null
+++ b/.github/pull_request_template.md
@@ -0,0 +1,23 @@
+#### Front-end checks to do prior to merging pull request:
+- [ ] Search
+ - [ ] Search by accession number
+ - [ ] Search by lineage
+ - [ ] Search by country
+ - [ ] Search by country (with date filter)
+- [ ] Tree filtering
+- [ ] Download Time-scaled tree (nwk)
+- [ ] Download Time-scaled tree (csv)
+- [ ] Download Beadplot (svg)
+- [ ] Download Beadplot (nwk)
+- [ ] Download mutation list (csv)
+- [ ] Beadplot cutoff slider
+- [ ] Expanding Beadplot
+- [ ] Translated pages
+- [ ] Changing the colour of the tree based on divergence, collection date, etc.
+- [ ] View different displays (Non-Recombinants, Recombinants, etc.)
+- [ ] Left/Right arrow key to move between beads
+- [ ] Ensure Tooltips get rendered
+- [ ] Hover over accession number in the "Samples" tab to ensure that the acknowledgement tooltips get generated
+- [ ] Countries/Samples/Mutations tabs are populating the correct information
+- [ ] Build front-end database without issues
+- [ ] Port front-end change to `epicov` branch
diff --git a/dbmanager.js b/dbmanager.js
index 9b5bdfe..50c119d 100644
--- a/dbmanager.js
+++ b/dbmanager.js
@@ -89,19 +89,19 @@ class DBManager {
}
get_tips() {
- return this.db_.collection($COLLECTION__TIPS).find().toArray()
+ return this.db_.collection($COLLECTION__TIPS).find({}, { projection: { _id: 0 } }).toArray()
}
get_df() {
- return this.db_.collection($COLLECTION__DF_TREE).find().toArray();
+ return this.db_.collection($COLLECTION__DF_TREE).find({}, { projection: { _id: 0 } }).toArray();
}
get_xbb_df() {
- return this.db_.collection($COLLECTION__XBB_TREE).find().toArray();
+ return this.db_.collection($COLLECTION__XBB_TREE).find({}, { projection: { _id: 0 } }).toArray();
}
get_regionMap() {
- return this.db_.collection($COLLECTION__REGION_MAP).find().toArray().then((docs,err)=>{
+ return this.db_.collection($COLLECTION__REGION_MAP).find({}, { projection: { _id: 0 } }).toArray().then((docs,err)=>{
if(err){
console.log(`dbmanager::get_regionMap error`,err);
return ;
@@ -214,7 +214,7 @@ class DBManager {
}
get_recombinantTips() {
- return this.db_.collection($COLLECTION__RECOMBINANT_TIPS).find().toArray().then((docs,err)=>{
+ return this.db_.collection($COLLECTION__RECOMBINANT_TIPS).find({}, { projection: { _id: 0 } }).toArray().then((docs,err)=>{
if(err){
console.log(`dbmanager::get_recombinantTips error`,err)
return;
diff --git a/index-es.html b/index-es.html
index b7d7a64..23fe81e 100644
--- a/index-es.html
+++ b/index-es.html
@@ -145,8 +145,8 @@ Search Error
-
-
+
+
diff --git a/index-fr.html b/index-fr.html
index 71f8e2f..175ff28 100644
--- a/index-fr.html
+++ b/index-fr.html
@@ -145,8 +145,8 @@ Search Error
-
-
+
+
diff --git a/index-zh.html b/index-zh.html
index 986fbe8..54624a3 100644
--- a/index-zh.html
+++ b/index-zh.html
@@ -146,8 +146,8 @@ Search Error
-
-
+
+
diff --git a/index.html b/index.html
index 8f4b539..560426e 100644
--- a/index.html
+++ b/index.html
@@ -146,8 +146,8 @@ Search Error
-
-
+
+
diff --git a/js/beadplot.js b/js/beadplot.js
index 40750be..0d4be5c 100644
--- a/js/beadplot.js
+++ b/js/beadplot.js
@@ -1381,7 +1381,6 @@ function serialize_branch(parent, edgelist) {
// terminal node, emit string
// TODO: add count information (number of samples per variant)
coldate = branch[0].x1.toISOString().split('T')[0];
- console.log("coldate=",coldate);
return branch[0].child+'|'+coldate+':'+branch[0].dist; // node name : branch length
}
else {