From 29902d1c60b338c1c06289f9ea1cae5a61e28d4b Mon Sep 17 00:00:00 2001
From: uditgulati
Date: Thu, 6 Aug 2020 08:48:53 -0500
Subject: fix issue with column sort; put 'Gene' column data in one line

---
 wqflask/wqflask/snp_browser/snp_browser.py | 25 ++++++++++++-------------
 wqflask/wqflask/templates/snp_browser.html |  6 +-----
 wqflask/wqflask/views.py                   |  3 +--
 3 files changed, 14 insertions(+), 20 deletions(-)

(limited to 'wqflask')

diff --git a/wqflask/wqflask/snp_browser/snp_browser.py b/wqflask/wqflask/snp_browser/snp_browser.py
index 116da149..58c90f11 100644
--- a/wqflask/wqflask/snp_browser/snp_browser.py
+++ b/wqflask/wqflask/snp_browser/snp_browser.py
@@ -368,15 +368,15 @@ class SnpBrowser(object):
 
         #ZS: list of booleans representing which columns are entirely empty, so they aren't displayed on the page; only including ones that are sometimes empty (since there's always a location, etc)
         self.empty_columns = {
-                    "snp_source": "false",
-                    "conservation_score": "false",
-                    "gene_name": "false",
-                    "transcript": "false",
-                    "exon": "false",
-                    "domain_2": "false",
-                    "function": "false", 
-                    "function_details": "false"
-            }
+            "snp_source": "false",
+            "conservation_score": "false",
+            "gene_name": "false",
+            "transcript": "false",
+            "exon": "false",
+            "domain_2": "false",
+            "function": "false",
+            "function_details": "false"
+        }
 
         the_rows = []
         for i, result in enumerate(self.filtered_results):
@@ -651,8 +651,6 @@ class SnpPage(object):
         self.rows_count = self.snp_browser.rows_count
         self.table_rows = self.snp_browser.table_rows
         self.header_data_names = self.snp_browser.header_data_names
-
-        logger.info(self.table_rows[0])
         
         self.sort_rows()
         self.paginate_rows()
@@ -778,8 +776,9 @@ def get_header_list(variant_type, strains, species = None, empty_columns = None)
                 empty_field_count += 1
                 header_fields[0].remove('Details')
         
-        for col in empty_columns:
-            header_data_names.remove(col)
+        for col in empty_columns.keys():
+            if empty_columns[col] == "false":
+                header_data_names.remove(col)
 
     elif variant_type == "InDel":
         header_fields = ['Index', 'ID', 'Type', 'InDel Chr', 'Mb Start', 'Mb End', 'Strand', 'Size', 'Sequence', 'Source']
diff --git a/wqflask/wqflask/templates/snp_browser.html b/wqflask/wqflask/templates/snp_browser.html
index cbc12e06..96cd7247 100644
--- a/wqflask/wqflask/templates/snp_browser.html
+++ b/wqflask/wqflask/templates/snp_browser.html
@@ -320,7 +320,7 @@
           'data': null,
           'render': function(data, type, row, meta) {
             if (data.gene_name != "") {
-              return '<i>' + data.gene_name + '</i><br><a href="' + data.gene_link + '">NCBI</a>'
+              return '<i>' + data.gene_name + '</i>, <a href="' + data.gene_link + '">NCBI</a>'
             } else {
               return data.gene_name
             }
@@ -434,10 +434,6 @@
       'sAjaxSource': '/snp_browser_table'+getParams(window.location.href),
       'infoCallback': function(settings, start, end, max, total, pre) {
         return "Showing " + start + " to " + (start + this.api().data().length - 1) + " of " + total + " entries";
-      },
-      'language': {
-        'loadingRecords': '&nbsp;',
-        'processing': 'Loading...'
       }
     });
     {% endif %}
diff --git a/wqflask/wqflask/views.py b/wqflask/wqflask/views.py
index 8e7f6ec3..12ebf595 100644
--- a/wqflask/wqflask/views.py
+++ b/wqflask/wqflask/views.py
@@ -897,7 +897,6 @@ def corr_scatter_plot_page():
 def snp_browser_page():
     logger.info(request.url)
     template_vars = snp_browser.SnpBrowser(request.args)
-    logger.info(template_vars.__dict__.keys())
 
     return render_template("snp_browser.html", **template_vars.__dict__)
 
@@ -909,7 +908,7 @@ def db_info_page():
 
 @app.route("/snp_browser_table", methods=('GET',))
 def snp_browser_table():
-    logger.info(request.url)    
+    logger.info(request.url)
     current_page = snp_browser.SnpPage(request.args).get_page()
 
     return flask.jsonify(current_page)
-- 
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