UPdate termynal

docs/source/getting_started/Installation.md

@@ -7,7 +7,7 @@ BiTIA CLI is available on [PyPi] as [BiTIA].
 
 Installing bitia is very simple, you only need to have [python-pip] installed in your system
 
-
+<link  type="text/css" href="../_static/./css/termynal.css" />
 
 
 To Install **BiTIA** using pip, run this command:
@@ -20,18 +20,19 @@ To Install **BiTIA** using pip, run this command:
 
 
 
+
 ## Configuration
 
 
 TODO: Order of searching configuration file.
 
 **_UNIX_**
-               
+                 
 <div id="termynal" data-termynal>
-    <span data-ty="input">./bitia.toml</span>
-    <span data-ty="input">~/.bitia.toml</span>
-    <span data-ty="input">$HOME/.config/bitia.toml</span>
-    <span data-ty="input">/etc/bitia.toml</span>
+    <span data-ty="input"> ./bitia.toml  </span>
+    <span data-ty="input"> ~/.bitia.toml  </span>
+    <span data-ty="input"> $HOME/.config/bitia.toml  </span>
+    <span data-ty="input"> /etc/bitia.toml  </span>
 </div>
                   
 **_WINDOWS_**              
@@ -44,6 +45,9 @@ TODO: Order of searching configuration file.
 
 
 <script src="../_static/./js/termynal.js" data-termynal-container="#termynal"></script>
+           
+
+
                      
                      
                      

docs/source/getting_started/Working.md

@@ -4,17 +4,19 @@ The three commands that are the core of BiTIA's functionality are:
 - submit
 - logs
 
+<link type="text/css" href="../_static/./css/termynal.css" />
 
 
 ### Bitia run can be employed in following ways:
 
 #### 1. Running commands
 
-<div class='termynal' data-termynal>
+<div id="termynal" data-termynal>
+    <span data-ty="input">bitia run "samtools convert < foo.fa|http://y.com/foo.fa >"</span>
+    <span data-ty="progress"></span>
+</div>
 
-<span data-ty="input">bitia run "samtools convert <foo.fa|http://y.com/foo.fa>"</span> 
 
-</div>
 
 The above code will: 
 - Checks for the input file `foo.fa` in the current working directory
@@ -30,11 +32,13 @@ The above code will:
 
 #### 2. Running Pipelines
 
-<div class='termynal' data-termynal>
+<div id="termynal" data-termynal>
+    <span data-ty="input">bitia run "samtools convert < foo.fa|http://y.com/foo.fa >"</span>
+    <span data-ty="progress"></span>
+</div>
+
 
-<span data-ty="input">bitia run pipeline.sh</span> 
 
-</div>
 
 for `pipeline.sh`:
 ```bash
@@ -56,3 +60,7 @@ The above code will:
     - Installing the given commands `fastqc`, `trim_galore`,`hisat2` .
     - executing the commands given in the pipeline
 - Displays the resulting output to the user console
+
+
+
+<script src="../_static/./js/termynal.js" data-termynal-container="#termynal"></script>
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