erko_howto_tools.txt

Linux video driver teruggezet naar xserver-xorg-video-nouveau (19 jan 2022)
nvidia-driver-470
Version 470.161.03-Oubuntu0.20.04.1
NVIDEA driver metapackage

change to

xserver-xorg-video-nouveau (0pen source)
Version 1:1.0.16-1
X.Org X server - Nouveau display driver

geeft:

pk-client-error-quark: E: dpkg was interrupted, you must manually run 'dpkg --configure -a' to correct the problem. (281)

na sudo dpkg --configure -a die de 470 uninstallde kon ik de driver terug zetten
en werkte shutdown weer als shutdown ipv als suspend.

# sudo ln -s /usr/lib/x86_64-linux-gnu/dri ./dri haalt een error weg, maar dan deze error:
  libGL error: MESA-LOADER: failed to open iris: /home/software/Altera/18.0/quartus/linux64/libstdc++.so.6: version `GLIBCXX_3.4.22' not found (required by /usr/lib/x86_64-linux-gnu/libLLVM-12.so.1) (search paths /usr/lib/x86_64-linux-gnu/dri:\$${ORIGIN}/dri:/usr/lib/dri, suffix _dri)
  libGL error: failed to load driver: iris
  libGL error: MESA-LOADER: failed to open iris: /home/software/Altera/18.0/quartus/linux64/libstdc++.so.6: version `GLIBCXX_3.4.22' not found (required by /usr/lib/x86_64-linux-gnu/libLLVM-12.so.1) (search paths /usr/lib/x86_64-linux-gnu/dri:\$${ORIGIN}/dri:/usr/lib/dri, suffix _dri)
  libGL error: failed to load driver: iris
  libGL error: MESA-LOADER: failed to open swrast: /home/software/Altera/18.0/quartus/linux64/libstdc++.so.6: version `GLIBCXX_3.4.22' not found (required by /usr/lib/x86_64-linux-gnu/libLLVM-12.so.1) (search paths /usr/lib/x86_64-linux-gnu/dri:\$${ORIGIN}/dri:/usr/lib/dri, suffix _dri)
  libGL error: failed to load driver: swrast

kooistra@dop466:/dop466_0/kooistra/git/hdl$ find /usr -name libstdc++.so.6
/usr/lib/x86_64-linux-gnu/libstdc++.so.6
/usr/lib/i386-linux-gnu/libstdc++.so.6
/usr/local/MATLAB/R2018a/sys/os/glnxa64/libstdc++.so.6

  cd /home/software/Altera/18.0/quartus/linux64/
  cp -p libstdc++.so.6 libstdc++.so.6.quartus
  rm libstdc++.so.6
  ln -s /usr/lib/x86_64-linux-gnu/libstdc++.so.6 libstdc++.so.6

Dit werkt, oplossing komt uit:

https://forum.step.esa.int/t/snap9-error-libegl-warning-mesa-loader-failed-to-open-swrast/36702/2

*******************************************************************************
* Linux
*******************************************************************************

# Window outside screen
Doe Alt-F7 in window, daarna kun je het met de muis slepen.

# Linux Mint version
> cat /etc/issue

https://regexr.com/

https://linuxize.com/

> passwd

# If login does not source .bashrc, then set bash as default shell and relogin
chsh -s /bin/bash

# Linux update via
# - system updates available icon and notifications icon in toolbar
# - of via command line:
> uname -a # linux info
> sudo -s  # become root
> apt-get upgrade
> apt-get dist-upgrade
> apt autoremove

# Henk Vosmeier
sudo apt-get upgrade
sudo apt-get dist-upgrade
sudo apt remove

# Login on dop386 and then power off:
> sudo shutdown

dop466 = SSD
dop466_0 = HDD

> tar -cvf filename.tar dir_name/   # create tar
> tar -xvf filename.tar             # extract tar
> gzip filename        # zip file
> unzip filename.gz    # unzip file

> zip -r apertif_matlab-v1.0.zip apertif_matlab
> zipinfo apertif_matlab-v1.0.zip

> tar -xvzf lofar2_unb2b_sdp_station_full_wg-r241070441.tar.gz

> grep -rl 'search text in files' .  # -r for recursive, -l for only list filename
> find . -name *_thisfile.txt

> scp kooistra@dop386:/home/kooistra/x.txt .

Start --> Administration --> Synaptic package manager

> sudo -s   # to become root
> sudo pip install numpy      # to run Python2 library installer as root
> sudo pip3 install numpy     # to run Python3 library installer as root
> sudo pip3 install matplotlib

> sudo apt-get install python3-tk # worked, now I can do: python3 test_plot.py

> sudo apt-get install pip    # to install Python2 library installer
> sudo apt-get install python-matplotlib

# ARGS doc gen
> sudo pip3 install --upgrade setuptools
> sudo pip3 install --upgrade pyyaml

> sudo pip3 install pylatex

> sudo apt-get update -y
> sudo apt-get install -y latexmk

> sudo apt-get install texlive-latex-base
> sudo apt-get install texlive-fonts-recommended
> sudo apt-get install texlive-fonts-extra
> sudo apt-get install texlive-latex-extra

> sudo apt-get install lmodern # want log gaf aan dat lmodern.sty miste, nu wel pdf gegenereerd

> sudo pip3 install jupyterlab
# Add to .bashrc: export PATH="$HOME/.local/bin:$PATH"
> jupyter-lab

WARNING: The scripts f2py, f2py3 and f2py3.8 are installed in '/home/kooistra/.local/bin' which is not on PATH.

# Markdown
> sudo pip3 install markdown  # zit al in Python3, maar kan alleen md --> html
> sudo pip3 install mdutils   # https://pypi.org/project/mdutils/ # kan md genereren


# Ethernet
> ifconfig

# primary group
# supplementary groups

groups kooistra           # lists in which Linux groups I am a member of
id kooistra               # lists in which Linux groups I am a member of
getent group sudo         # lists which users are in the sudo Linux group
getent group software     # lists which users are in the software Linux group
more /etc/group
sudo groupadd software                 # add new Linux group 'software'
sudo usermod -a -G software kooistra   # add user 'kooistra' to a Linux group 'software'

ls -l filename                  # shows current user,group owners of the 'filename'
sudo chgrp software filename    # change group of 'filename' to 'software'
sudo chgrp -R software dirname  # recursively change group of 'dirname' to 'software'

sudo chown user_name file_name  # change user,group

# Linux Mint 20.3 upgrade 26 april 2022
https://linuxmint-user-guide.readthedocs.io/en/latest/upgrade-to-mint-20.html

sudo pip3 install matplotlib
sudo apt-get install python3-pil.imagetk
> python3 base/test_plot.py # werkt nu
sudo pip3 install asyncua
./sdp_rw.py --host dop421 -l  # werkt nu


*******************************************************************************
* ICT diensten
*******************************************************************************

Self Service Password Reset

Met Self Service Password Reset (SSPR) is het mogelijk voor gebruikers om zelf hun wachtwoord
opnieuw instellen voor diverse ldap-diensten zonder tussenkomst van ict, zoals bijvoorbeeld de
netwerkschijven (H en I), intranet, vpn, Confluence, Jira en Surfmarkt.
Door middel van uitdagingsvragen kan een gebruiker bevestigen wie hij/zij is voordat ze hun
wachtwoorden veilig kunnen resetten.
Link: https://sspr.astron.nl

SURFfilesender
SURFfilesender is een webgebaseerde applicatie waarmee geauthenticeerde gebruikers veilig en
gemakkelijk willekeurig grote bestanden naar andere gebruikers kunnen verzenden. Gebruikers zonder
een account kunnen een gastvoucher worden gestuurd door een geverifieerde gebruiker. SURFfilesender
is ontwikkeld volgens de eisen en wensen van onderwijs en onderzoek.
Link: https://filesender.surf.nl

edu.nl: privacy-vriendelijke URL-shortener
edu.nl is dé URL-shortener voor onderwijs en onderzoek. Veilig omdat gebruikers inloggen met
SURFconext. Privacy-vriendelijk omdat edu.nl geen persoonlijke gegevens van gebruikers opslaat en
bezoekers van links niet trackt. edu.nl is kosteloos voor alle bij SURF aangesloten instellingen.
Link: https://filesender.surf.nl

Een uitgebreide beschrijving van deze diensten (Home » Diensten » ICT » Manuals and Documents)
is te vinden op het intranet
https://intranet.astron.nl/diensten/ict/manuals-and-documents/manuals-and-documents


*******************************************************************************
* Python
*******************************************************************************

pycharm
https://pypi.org/project/black/ # Python code formatter

numpy tutorial:
https://lwn.net/SubscriberLink/847039/3016fa7278000b77/


*******************************************************************************
* Numpy, matplotlib.pyplot
*******************************************************************************

a = 20
plt.figure(figsize=(16, 6))
plt.subplot(1, 2, 1)
plt.plot(si_ampls[0:a], si_SSTs_dB[0:a])
plt.title(f"SST as function of input sine amplitude [0:{a}>")
plt.xlabel("si_ampl, ni_sigma [q]")
plt.ylabel("SST [dB]")
plt.grid()

plt.subplot(1, 2, 2)
plt.plot(si_ampls[a:], si_SSTs_dB[a:])
plt.title(f"SST as function of input sine amplitude [{a}:{FS}>")
plt.xlabel("si_ampl, ni_sigma [q]")
plt.ylabel("SST [dB]")
plt.grid()


*******************************************************************************
* Jupyter
*******************************************************************************

Installed in:
ll /home/kooistra/.local/bin/

jupyter tutorial
https://www.dataquest.io/blog/jupyter-notebook-tutorial/
https://www.dataquest.io/blog/advanced-jupyter-notebooks-tutorial/

uses Markdown

Startup with:
> jupyter-lab  # lab is new,

Works from home in VPN:
* LTS --> http://test-lcu2.astron.nl:8888/notebooks/   # = dop81
* DTS --> http://dts-lcu.astron.nl:8888/notebooks/

XST indices:
* DTS --> http://dts-lcu.astron.nl:8888/tree/python_test_scripts/XST_test/XSTs
* DTS --> http://dts-lcu.astron.nl:8888/notebooks/python_test_scripts/XST_test/XST_index_test.ipynb


Get XST results h5 file per crosslet on local machine from LCU2
> ls22-statistics-writer -a dts-lcu.astron.nl

Check of SDPTR op dop369 actief is met:
> uals -u 10.87.2.36:4840 -p "0:Objects"


*******************************************************************************
* Graphana
*******************************************************************************

http://dts-lcu.astron.nl:3000/?orgId=1


*******************************************************************************
* Zenodo DOI
*******************************************************************************

- login at https://zenodo.org/
- choose Upload in main menu --> my zenodo DOIs area
- choose New Upload button
- fill in all fields, reserve a DOI and do save
- check the README.md, NOTICE.md (with the DOI) and the LICENSE.md
- create the zip file
- upload the zip file and publish the DOI.



*******************************************************************************
* Install OpenSCAD
*******************************************************************************

https://ubuntuhandbook.org/index.php/2019/01/install-openscad-ubuntu-18-10-18-04/

> sudo apt-get install openscad  # werkt niet voor Unbuntu 18.04 = Mint 19.03

> sudo add-apt-repository ppa:openscad/releases  # use Personal Package Archive = PPA instead
You are about to add the following PPA:
 Backports of OpenSCAD stable releases
 More info: https://launchpad.net/~openscad/+archive/ubuntu/releases
Press Enter to continue or Ctrl+C to cancel

Executing: /tmp/apt-key-gpghome.2EIWTkQ4Yk/gpg.1.sh --keyserver hkps://keyserver.ubuntu.com:443 --recv-keys CB86A1742C718B1EEA0440B3176F9F68AD382CA4
gpg: key 176F9F68AD382CA4: public key "Launchpad PPA for OpenSCAD packagers" imported
gpg: Total number processed: 1
gpg:               imported: 1

> sudo apt-get update
Hit:1 http://dl.google.com/linux/chrome/deb stable InRelease
Hit:2 http://archive.ubuntu.com/ubuntu bionic InRelease
Get:3 http://ppa.launchpad.net/openscad/releases/ubuntu bionic InRelease [15,9 kB]
Get:4 http://archive.ubuntu.com/ubuntu bionic-updates InRelease [88,7 kB]
Hit:5 http://ppa.launchpad.net/remmina-ppa-team/remmina-next/ubuntu bionic InRelease
Get:6 http://archive.ubuntu.com/ubuntu bionic-backports InRelease [74,6 kB]
Hit:7 http://security.ubuntu.com/ubuntu xenial-security InRelease
Hit:8 http://archive.canonical.com/ubuntu bionic InRelease
Ign:9 http://packages.linuxmint.com tricia InRelease
Get:10 http://ppa.launchpad.net/openscad/releases/ubuntu bionic/main i386 Packages [2296 B]
Hit:11 http://security.ubuntu.com/ubuntu bionic-security InRelease
Get:12 http://ppa.launchpad.net/openscad/releases/ubuntu bionic/main amd64 Packages [2296 B]
Get:13 http://ppa.launchpad.net/openscad/releases/ubuntu bionic/main Translation-en [1020 B]
Hit:14 http://packages.linuxmint.com tricia Release
Fetched 185 kB in 1s (191 kB/s)
Reading package lists... Done

> sudo apt-get install openscad
Gelukt !


*******************************************************************************
* Drawio
*******************************************************************************

Oude drawio uninstall mbv Administration/Software Manager
Nieuw heet nu diagrams.net 18.1.3 installed mbv Administration/Software Manager
Alt-F7 to move window on screen



*******************************************************************************
* DTS-lab unb2c
*******************************************************************************

> mystep
> Program FPGA using USB programmer:
  > run_quartus unb2c &
    - Open programmer via button icon --> Hardware setup --> Add hardware
      Server name 10.87.6.204 (lab laptop) password: uniboard
      JTAG settings (OK)
      Hardware settings dubbel click
      Auto detect
      Select FPGA --> change file (sof) --> select Program/Reconfigure --> Start
  > Via dop421 upe_gear:
    . ./init_upe.sh
    mkdir reginfo
    util_unb2.py --unb2 0 --pn2 0:3 --seq REGMAP


*******************************************************************************
* Flake8
*******************************************************************************

python3 -m pip install flake8

# add to path in ~/.bashrc
export PATH=~/.local/bin:$PATH