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README.md

@@ -1,26 +1,8 @@
-# Getting your tellurium project on nanohub
+#Activity Dependent Homeostatic Plasticity (ADHP) Correlations App
 
-1. Create a GitHub account [https://github.com/join?ref\_cta=Sign+up](https://github.com/join?ref_cta=Sign+up)
-2. Fork or Copy this repository on your computer [https://github.com/JulianoGianlupi/tellurium-nanohub-base](https://github.com/JulianoGianlupi/tellurium-nanohub-base)
-    1. It's a good idea to download gitbash [https://www.educative.io/edpresso/how-to-install-git-bash-in-windows](https://www.educative.io/edpresso/how-to-install-git-bash-in-windows) . Git bash works as a linux / macOS terminal but with more commands, maybe mac/linux people already have git commands built into the terminal.
-    2. And github desktop will also help [https://desktop.github.com/](https://desktop.github.com/). If you are not familiar with command line stuff this is a good option – even if you are familiar this will allow you to not have to look up a bunch of git commands, although I recommend you learn to use github regardless
-    3. You can download the repo as a zip
 
-![](image1.png)
+![](exampletrajectories.png)
 
-3. In the unzipped files replace the jupyter notebook there by your own (do not place spaces in the notebook name). In other words: replace tellurium.ipynb with \<YOUR\_NOTEBOOK\_NAME\>.ipynb
-4. In the unzipped files, under the folder middleware, open the file invoke (use notepad or notepad++) and replace tellurium.ipynb with the name of your jupyter notebook
-5. Also in the middleware/invoke file replace "-t tellurium" with "-t short\_tool\_name". short\_tool\_name will be the name nanohub uses in the url for your tool and to call it, it **must** match "Tool Name" in [https://nanohub.org/tools/create](https://nanohub.org/tools/create). It must be 3-15 alphanumeric characters, no spaces. Once you register your tool, you cannot change this name, so be careful to pick a good one.
-    1. If you had already done this before December 18 2020 either pull again from the repo or change "start\_jupyter -T @tool tellurium.ipynb" to "start\_jupyter -t -T @tool tellurium.ipynb"
-    2. If you want your notebook to open on app mode you have to add a -A before the -T in that string
-    3. The "not short" tool name will be the Title in that box, that's the one people will mainly see
+![](examplestartendpts.png)
 
-![](image2.png)
-
-6. Create a new repository to host (upload) your files ([https://docs.github.com/en/free-pro-team@latest/github/getting-started-with-github/create-a-repo](https://docs.github.com/en/free-pro-team@latest/github/getting-started-with-github/create-a-repo)) and upload them
-7. On github make sure middleware/invoke is executable; open the file in github, the upper left corner will say if it is or not
-    1. If it isn't: open gitbash, go to the folder containing your repo and issue the command ```git update-index --chmod=+x middleware/invoke``` and push the changes to the repo
-
-![](image3.png)
-
-8. Follow the steps in [https://nanohub.org/tools/create](https://nanohub.org/tools/create)
+![](examplecorrelations.png)