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20.04 (sudo in the following is because I installed these system-wide, not necessary)
sudo pip3 install sidecar
sudo pip3 install pygments (exists with sphynx but sidecar needs >=2.4.1)
jupyter labextension install @jupyter-widgets/jupyterlab-manager
jupyter labextension install @jupyter-widgets/jupyterlab-sidecar
sudo jupyter labextension install jupyter-matplotlib
- @@sudo pip3 install ipympl@
- installed musr2py cloning https://gitlab.com/bonfus/musr2py, running
sudo python3 setup.py install (o sudo pip3 install)
sudo apt install nexus-tools these hdf4 based tools allow nxbrowse of ISIS files
sudo pip install nexusformat also updated scipy to the latest [1.5.4] useless ISIS data is nexus 4
sudo pip install h5py also updated numpy to the latest [1.19.4] useless
sudo apt-get install python3-sphinx only for developers
sudo apt install nodejs npm
jupyter nbextension enable --py widgetsnbextension
- found interference with root that sets JUPYTER_PATH and JUPYTER_CONFIG_DIR to a root related directory (
unset JUPYTER_PATH, try to relocate the export JUPYTER_PATH=..root... to a root startup file)
- done systemwide pip3 intall numpy, scipy, matplotlib, iminuit, jupyter, ipywidgets, pandas, dill
sudo apt install python3-pip
sudo apt-get install python3-tk
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see also more up-to-date http://www.fis.unipr.it/~derenzi/dispense/pmwiki.php?n=Hpc.GithubMujpy (&merge!)
The main aim is to play with mujpy under python3.
Already installed virtualenv according to PB instructions. Downloaded get-pip-py
sudo python3 get-pip.py
virtualenv -p /usr/bin/python3 py3_kernel --no-site-packages # to avoid seeing 2.7 libraries\\
This way I can keep minimal packages and at last
pip freeze > requirements.txt
(see virtualenv). Inserted in .bashrc kernel3 as alias for
source ~/py3_kernel/bin/activate
This command must be given to work under python3. To finish
deactivate
Next install python3-dev system wide (from sudo synaptic) and then the basic libraries
kernel3
ipython kernel install --name py3 --user ## install kernel for ipython and jupyter
python -m pip install numpy
python -m pip install scipy
python -m pip install matplotlib
python -m pip install iminuit
deactivate
At this stage python fisica1 scripts work under kernel3
In order not to have permission denied
sudo chown -R roberto.derenzi:roberto.derenzi /usr/local/bin/virtualenv
Now install
kernel3
python -m pip install cython # BEFORE installing probfit
python setup.py install
download latest probfit, unzip, cd to the dir and install it
python setup.py install
tested on various graphics?. Rememnber to
deactivate
Installed also
kernel 3
python -m pip install ipywidgets
jupyter nbextension enable --py widgetsnbextension
The first cell of mu_test3_musr2py.ipynb notebook works also without kernel3 command (the notebook uses the python3 kernel) but
widgets work only if I invoke jupyter notebook under kernel3
At present they complain about javascript but the widgets are there.
Installed ipywidgets 7.0 (to see Text(continuous_update=False) ). Got Error in Widget. Others have solved by a fresh virtualenv.
Tried a fresh virtualenv by
pip freeze -l> /tmp/requirements.txt
virtualenv -p /usr/bin/python3 py3_kernel_new --no-site-packages
saved source command as kern3new and with that
pip install -r /tmp/requirements.txt
problems with
Command "python setup.py egg_info" failed with error code 1 in /tmp/pip-build-w3choyj9/probfit/
solved by manually deleting probfit from requirements (now in p3_kernel_new/Downloads, together with all required downloads)
and then running
python setup.py install
from the directory where probfit-master? was unzipped. Still got warnings, but no error:
/home/roberto.derenzi/py3_kernel_new/lib/python3.4/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: #warning "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
#warning "Using deprecated NumPy API, disable it by "
WAS working already! Remember to always restart the kernel to reload the modules.
Install qt consolle
sudo apt-get install python3-pyqt5
kern3new
pip install qtconsole
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