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casa:install [2020/10/30 12:55] – [Jupyter CASA] bemmelcasa:install [2020/11/05 08:20] (current) – janssen
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 ==== Install instructions for Jupyter CASA ==== ==== Install instructions for Jupyter CASA ====
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-__Installing the infrastructure to run the Jupyter Notebooks is optional.__ 
  
 For parts of the tutorials we have developed Jupyter Notebooks based on the Jupyter CASA environment. This requires singularity or a docker container to run. For MacOS there is only a beta-version of singularity available, so the instructions below are based on docker. This installation is optional, all tutorials can also be done using the stand-alone version of CASA. For parts of the tutorials we have developed Jupyter Notebooks based on the Jupyter CASA environment. This requires singularity or a docker container to run. For MacOS there is only a beta-version of singularity available, so the instructions below are based on docker. This installation is optional, all tutorials can also be done using the stand-alone version of CASA.
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 There is a known issue with X11-forwarding on MacOS. The workaround for this is to slightly modify step 6 above. You first launch the docker, inside the docker you launch the notebook. You can than proceed with step 7 above. There is a known issue with X11-forwarding on MacOS. The workaround for this is to slightly modify step 6 above. You first launch the docker, inside the docker you launch the notebook. You can than proceed with step 7 above.
  
-  - Start the docker with ''docker run -p 8888:8888 -i -t -e DISPLAY=$DISPLAY -v <absolute path to your data processing directory>:/home/jupyter/data penngwyn/jupytercasa'' +  - Start the docker with ''docker run -p 8888:8888 -i -t -e DISPLAY=$DISPLAY -v <absolute path to your data processing directory>:/home/jupyter/data penngwyn/jupytercasa bash'' 
   - Inside the same terminal window launch the notebook ''xvfb-run jupyter notebook''   - Inside the same terminal window launch the notebook ''xvfb-run jupyter notebook''
  
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 For the VLA tutorial there is a version of the notebook available in the [[https://github.com/aardk/jupyter-casa/tree/master/examples|examples]]. To get this to your laptop, in a terminal type ''wget https://github.com/aardk/jupyter-casa/raw/master/examples/vla-cont-tutorial.ipynb'' For the VLA tutorial there is a version of the notebook available in the [[https://github.com/aardk/jupyter-casa/tree/master/examples|examples]]. To get this to your laptop, in a terminal type ''wget https://github.com/aardk/jupyter-casa/raw/master/examples/vla-cont-tutorial.ipynb''
  
-There is a beta version of the [[https://code.jive.eu/bemmel/EVN_CASA_pipeline/raw/branch/master/EVN_continuum_pyp.ipynb|EVN pipeline notebook]] and an example notebook based on the DARA and EVN tutorials. The latter will be linked here later.+There is a beta version of the [[https://code.jive.eu/bemmel/EVN_CASA_pipeline/raw/branch/master/EVN_continuum_pyp.ipynb|EVN pipeline notebook]] and an [[https://www.dropbox.com/s/5tbdj90mzihggpr/n14c3_pipe.ipynb?dl=0|example notebook]] based on the DARA and EVN tutorials. Both contain all calibration steps up to the imaging.
  
  
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 1) $ docker pull mjanssen2308/casavlbi:latest\\ 1) $ docker pull mjanssen2308/casavlbi:latest\\
 2) $ docker run --name picard.cont -it --init --env HOME=/data --user $(id -u) -v /etc/passwd:/etc/passwd --network=host -v /tmp/.X11-unix:/tmp/.X11-unix:ro -e DISPLAY=$DISPLAY -v /full/path/to/your/working/dir:/data mjanssen2308/casavlbi:latest\\ 2) $ docker run --name picard.cont -it --init --env HOME=/data --user $(id -u) -v /etc/passwd:/etc/passwd --network=host -v /tmp/.X11-unix:/tmp/.X11-unix:ro -e DISPLAY=$DISPLAY -v /full/path/to/your/working/dir:/data mjanssen2308/casavlbi:latest\\
 +!! It seems like the wiki page messes up double dashes in the above command. See the README of https://bitbucket.org/M_Janssen/picard for the correct version of that command which works for copy/paste.\\
 (you will have to fill in the correct path for /full/path/to/your/working/dir here)\\ (you will have to fill in the correct path for /full/path/to/your/working/dir here)\\
 3) $ cd /data\\ 3) $ cd /data\\
casa/install.1604062526.txt.gz · Last modified: 2020/10/30 12:55 by bemmel