MAKER Genome Annotation using cc-tools and Jetstream(WQ-MAKER)¶
Part 4: Set up a MAKER run using the Jupyter notebook¶
Step1: Running “tmux” command to run the anlaysis in the background:
$ cd ~ $ tmux
Step2: Copy the example Jupyter notebook onto your home directory:
$ cp /opt/WQ-MAKER_example_data/WQ-MAKER-Jupyter-notebook.ipynb .
Step3: Launch jupyter notebook in the background:
$ python /opt/anaconda2/bin/jupyter-notebook --no-browser --ip=0.0.0.0 2>&1 | sed s/0.0.0.0/$(curl -s ipinfo.io/ip)/g [I 16:54:10.440 NotebookApp] Writing notebook server cookie secret to /run/user/1000/jupyter/notebook_cookie_secret [I 16:54:10.650 NotebookApp] Serving notebooks from local directory: /home/upendra [I 16:54:10.650 NotebookApp] 0 active kernels [I 16:54:10.650 NotebookApp] The Jupyter Notebook is running at:`Jupyternotebookrunninglink <http://22.214.171.124:8888/?token=483a27cd0387ccd04133570999ba8ce8072cf0f45663289f>`__ [I 16:54:10.650 NotebookApp] Use Control-C to stop this server and shut down all kernels (twice to skip confirmation). [C 16:54:10.650 NotebookApp] Copy/paste this URL into your browser when you connect for the first time, to login with a token: `Copylinkbelow <http://126.96.36.199:8888/?token=483a27cd0387ccd04133570999ba8ce8072cf0f45663289f>`__ ## Copy and paste this link in the browser
Step 4: Now click open “WQ-MAKER-Jupyter-notebook.ipynb” and run the jupyter notebooks.
Here is the example Jupyter notebook that was ran before
If you want to exit out of tmux shell without killing it. Press ctrl + b and d. If you want to kill it. Then press ctrl +c
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