From 68af5c4b1360dbe3061a39d22714fb0973170044 Mon Sep 17 00:00:00 2001
From: lukas <lukas.fricke@transtitut.org>
Date: Wed, 5 Feb 2025 14:09:24 +0100
Subject: [PATCH] changes to the html part

---
 create_report.html | 65 ++++++++++++++++++++++++++++++++++++++++++++--
 1 file changed, 63 insertions(+), 2 deletions(-)

diff --git a/create_report.html b/create_report.html
index 2046535..4042b76 100644
--- a/create_report.html
+++ b/create_report.html
@@ -73,18 +73,78 @@
       </table>
     </div>
 
+    <div id="bacteria_scan_div">
+      <h2> Bacteria Scan</h2>
+      <p>
+        The bacteria scan has been performed on <span id="bact_scan_datetime">???</span>. <br>
+      </p>
+      <p>
+        The sample volume V<sub>Sample</sub> = <span id="sample_volume_bact">???</span> uL
+        divided by the size of the coverslip A<sub>coverslip</sub> =
+        <span id="coverslip_height_bact">???</span> mm x <span id="coverslip_width_bact">???</span> mm
+        yield an observed height of
+        <br><br>
+        h<sub>observed</sub> = V<sub>Sample</sub> / A<sub>coverslip</sub> =
+         <span id="observed_height_bact"></span> um.
+         <br><br>
+         Multipilcation with the size of the
+         the field of view A<sub>FoV</sub> = <span id="FoV_height_bact">???</span> um x
+         <span id="FoV_width_bact">???</span> um yield
+        an observed Volume of
+        <br><br>
+        V<sub>observed</sub> = h<sub>observed</sub> * A<sub>FoV</sub> = <span id="observed_volume_bact">???</span> uL per FoV.
+        <p>
+          The volume of organisms per FoV is multiplied with the
+          dilution Factor F<sub>dilution</sub> = <span id="dilution_factor_bact">???</span>
+          and devided by V<sub>observed</sub> to calculate the abundance per uL.<br>
+          F<sub>multiplication</sub> = F<sub>dilution</sub> * 1 uL / V<sub>observed</sub> = <span id="factor_bact">???</span>
+        </p>
+
+      <h3> Bacteria Table </h3>
+      <table class="table" id = "bact_scan_table" style="width:100%">
+        <thead>
+          <tr>
+            <th>
+              type of Bacteria
+            </th>
+            <th>
+              count per FoV
+            </th>
+            <th>
+              area [um²] per FoV
+            </th>
+            <th>
+              number per uL  +- [%]
+            </th>
+            <th>
+              ~ ug / uL +- [%]
+            </th>
+          </tr>
+        </thead>
+        <tbody>
+        </tbody>
+      </table>
+    <h3>Bacterial to Fungal Biomass </h3>
+    <p> The Bacterial m<sub>Bacteria</sub> = <span id="bacterial_biomass">???</span>
+      to Fungal Biomass m<sub>Fungi</sub> = <span id="fungal_biomass">???</span>.<br>
+      m<sub>Fungi</sub> / m<sub>Bacteria</sub> = <span id="f_to_b_biomass">???</span>
+    </p>
+    </div>
+
     <div id="nematode_scan_div">
       <h2> Nematode Scan </h2>
       <p>
-        The namatode scan has been performed on <span id="nema_scan_datetime">???</span>. <br>
+        The namatode scan has been performed on <span id="nema_scan_datetime">???</span>
+        using the protocol <span id= "prep_protocol_name_bact">???</span> and camera setup
+        <span id=cam_setup_name_bact>???</span>. <br>
 
         To calculate the abundance of nematodes per cubic centimeter of sample the dilution Factor F<sub>dilution</sub> =
         <span id="dilution_nema">???</span> is divided by the sample size V<sub>sample</sub> =
         <span id="samplesize_nema">???</span> uL. <br>
         The multiplication factor for the nematode scan is: <br>
         F<sub>nematode</sub> = F<sub>dilution</sub> / V<sub>sample</sub> = <span id="multiplication_factor_nema">???</span>
-
       </p>
+
       <h3> Nematode Table </h3>
       <table class="table" id = "nema_scan_table" style="width:100%">
         <thead>
@@ -105,6 +165,7 @@
       </table>
     </div>
 
+
   </div>
 
   </body>