From 39fe6fa80a4681aae2f500ad83d33ac695c26540 Mon Sep 17 00:00:00 2001
From: chuan-wang <chuan.wang@scilifelab.se>
Date: Fri, 25 Oct 2024 14:13:31 +0200
Subject: [PATCH] Support MiSeq V2 Micro

---
 run_dir/static/js/fc_trend_plot.js | 12 +++++++++---
 status/flowcell.py                 |  1 +
 2 files changed, 10 insertions(+), 3 deletions(-)

diff --git a/run_dir/static/js/fc_trend_plot.js b/run_dir/static/js/fc_trend_plot.js
index 5e75eec3..bf40021a 100644
--- a/run_dir/static/js/fc_trend_plot.js
+++ b/run_dir/static/js/fc_trend_plot.js
@@ -104,9 +104,10 @@ function make_plot(key, name, display_by, filter_inst_type, filter_inst, color_t
         toplot.tooltip.pointFormat = '{series.name} : <b>{point.y}</b><br />Mbp: <b>{point.bp_yield:,.0f}</b>';
     }
 
-    var thresholdColors = ['#696868', '#696868', '#696868', '#696868', '#696868', '#696868', '#ffb700', '#ff00ae', '#0080ff', '#11ad11', '#8400ff', '#e65c00', '#1B9E97'];
+    var thresholdColors = ['#696868', '#696868', '#696868', '#696868', '#696868', '#696868', '#696868', '#ffb700', '#ff00ae', '#0080ff', '#11ad11', '#8400ff', '#e65c00', '#1B9E97'];
     var thresholdLabels = [
         ['M', 'MiSeq Nano threshold to pass'],
+        ['M', 'MiSeq Micro threshold to pass'],
         ['M', 'MiSeq v2 threshold to pass'],
         ['M', 'MiSeq v3 threshold to pass'],
         ['VH', 'NextSeq P1 threshold to pass'],
@@ -158,12 +159,12 @@ function make_plot(key, name, display_by, filter_inst_type, filter_inst, color_t
 
     // Styling the default view
     if (color_type == "chemver" && key == "total_clusters" && display_by == "flowcell") {
-        applyThresholds([0.75e6, 10e6, 18e6, 100e6, 400e6, 1100e6, 650e6, 1300e6, 3300e6, 8000e6, 8000e6, 1500e6, 24000e6], [0, 1, 2]);
+        applyThresholds([0.75e6, 3e6, 10e6, 18e6, 100e6, 400e6, 1100e6, 650e6, 1300e6, 3300e6, 8000e6, 8000e6, 1500e6, 24000e6], [0, 1, 2]);
     }
 
     // Styling the lane view
     if (color_type == "chemver" && key == "total_clusters" && display_by == "lane") {
-        applyThresholds([0.75e6, 10e6, 18e6, 100e6, 400e6, 550e6, 325e6, 650e6, 1650e6, 2000e6, 1000e6, 750e6, 3000e6], [0, 1, 2]);
+        applyThresholds([0.75e6, 3e6, 10e6, 18e6, 100e6, 400e6, 550e6, 325e6, 650e6, 1650e6, 2000e6, 1000e6, 750e6, 3000e6], [0, 1, 2]);
     }
 
     var serie = build_series(window.current_plot_data, key, name, display_by, filter_inst_type, filter_inst, color_type);
@@ -218,6 +219,9 @@ function build_series(data, key, name, display_by, filter_inst_type, filter_inst
             if (data[d].mode == '2'){
                 series_name = "MiSeq Nano";
                 }
+            if (data[d].mode == '4'){
+                series_name = "MiSeq Micro";
+                }
             if (data[d].cver.includes('P1')){
                 series_name = "NextSeq P1";
                 }
@@ -515,6 +519,8 @@ function update_chemistries_list(){
         if (window.current_plot_data[d].mode == '2'){
             // MiSeq Nano is special (cver collides with MiSeq Version 2)
             version = 'Mnano'
+        } else if (window.current_plot_data[d].mode == '4'){
+            version = 'Mmicro'
         } else {
             version = window.current_plot_data[d].instrument.substr(0,1) + window.current_plot_data[d].cver;
         }
diff --git a/status/flowcell.py b/status/flowcell.py
index 3983c690..bc52e663 100644
--- a/status/flowcell.py
+++ b/status/flowcell.py
@@ -14,6 +14,7 @@
     "RapidRun": 114,
     "MiSeq Version3": 18,
     "MiSeq Version2": 10,
+    "MiSeq Version2Micro": 3,
     "MiSeq Version2Nano": 0.75,
     "NovaSeq SP": 325,
     "NovaSeq S1": 650,