<p>I am using the <a href="https://www-s.ks.uiuc.edu/Research/vmd/" rel="nofollow noreferrer">VMD software</a>, and use "Extension - Analysis - Timeline - Calculate - Calc. Sec. Structure" to visualise the secondary structure of my trajectories.</p>

<ol>
<li><p>I need to screenshot to get the graph. Can I output it using a build-in command instead?</p></li>
<li><p>I have hundreds of trajectories to analyse. Each time, I need "File - Write data file" to output the raw STRIDE code. Can I use some script to enable batch output?</p></li>
</ol>

CC BY-SA 3.0
2018-01-26T12:18:24.597Z
Are [these](http://www.ks.uiuc.edu/Training/Tutorials/vmd/tutorial-html/node2.html#SECTION00025000000000000000) instructions related to your problem?
llrs
CC BY-SA 3.0
2018-01-26T15:39:23.273Z
Thanks, but I do not think so. I want to "batch" output the files, as I have many trajectories to load.
lanselibai
CC BY-SA 4.0
2020-12-07T02:55:31.190Z
Try here: https://mattermodeling.stackexchange.com/. There's way more VMD questions there.
user1271772
CC BY-SA 4.0
2020-12-07T15:34:55.197Z
Can I move my questions there?
lanselibai
<protein-structure><visualization>
Can I batch output the graph of Secondary Structure in VMD Timeline analysis?
# Can I batch output the graph of Secondary Structure in VMD Timeline analysis?

(Asked by: username_0 on 2018-01-25)

I am using the [VMD software](https://www-s.ks.uiuc.edu/Research/vmd/), and use "Extension - Analysis - Timeline - Calculate - Calc. Sec. Structure" to visualise the secondary structure of my trajectories.

1. I need to screenshot to get the graph. Can I output it using a build-in command instead?
2. I have hundreds of trajectories to analyse. Each time, I need "File - Write data file" to output the raw STRIDE code. Can I use some script to enable batch output?

**Tags:** protein-structure, visualization
> **Comments:**
> **username_1**: Are [these](http://www.ks.uiuc.edu/Training/Tutorials/vmd/tutorial-html/node2.html#SECTION00025000000000000000) instructions related to your problem?  
> **username_0**: Thanks, but I do not think so. I want to "batch" output the files, as I have many trajectories to load.  
> **username_2**: Try here: https://mattermodeling.stackexchange.com/. There's way more VMD questions there.  
> **username_0**: Can I move my questions there?  

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## 0 answers

