Merge pull request #1 from shaneknapp/main

new stand-alone logodev image repo

apt.txt

@@ -0,0 +1,93 @@
+# Some linux packages for basic terminal work, particularly
+# oriented at users new to Unix/cmd line environments.
+
+# installing less as more just isn't enough
+less
+
+# Basic unix tools
+man
+man-db
+manpages-posix
+manpages-dev
+manpages-posix-dev
+
+# Download tools
+curl
+wget
+
+# Core text editors on a *nix box: vim
+vim
+
+# A couple of CLI editors that are easier than vim
+# micro  # currently not working on 18.04
+nano
+jed
+jed-extra
+
+# powerful terminal-based file manager, better than the one in JLab
+mc
+
+# for easily managing multiple repositories with one command (perl-doc
+# is needed for its help pages to work)
+mr
+perl-doc
+
+# Regular build tools for compiling common stuff
+build-essential
+gfortran
+
+# Dependencies for nbconvert
+texlive-xetex
+texlive-fonts-recommended
+texlive-plain-generic
+# https://github.com/berkeley-dsep-infra/datahub/issues/3719
+texlive-lang-chinese
+lmodern
+
+# Other useful document-related tools
+pandoc
+latexdiff
+
+# Some useful git utilities use basic Ruby
+ruby
+
+# Other niceties for command-line work and life
+ack   # powerful grep-like tool
+pydf  # colorized disk usage
+tmux
+screen
+htop
+nnn   # cmd line file manager
+zsh
+rsync
+tig  # console UI for git
+multitail
+
+# For later, these are not available in 18.04
+#browsh # text-based web browser, occasionally handy
+#dasel  # json/yml/csv/etc data wrangling at the terminal
+#fzf   # fuzzy file finder
+
+## This section adds tools for desktop environment usage
+dbus-x11
+xorg
+xubuntu-icon-theme
+xfce4
+xfce4-goodies
+xclip
+xsel
+firefox
+chromium-browser
+
+# GUI text editors
+vim-gtk3
+gedit
+
+# Git clients and tools
+git-gui
+gitg
+qgit
+meld
+
+# For jupyter-tree-download. Ref: https://github.com/berkeley-dsep-infra/datahub/issues/3979			
+zip

environment.yml

@@ -1,16 +1,63 @@
-# This is the standard conda configuration file. Use this file to list
-# the conda packages that you need installed in your environment.
+name: logodev
+
 channels:
-  - conda-forge
+- conda-forge
+- pytorch
 
 dependencies:
-  - jupyter_contrib_nbextensions==0.5.1
-  # Required until https://github.com/jupyterhub/repo2docker/pull/1196 is merged
-  - jupyterhub-singleuser>=3.0,<4.0
-  # Set default python version to 3.10 - repo2docker sets it to 3.7 instead by default,
-  # which can limit us to older package versions
-  - python=3.10
-  # Everyone wants to use nbgitpuller for everything, so let's do that
-  - nbgitpuller=1.1.*
-  # Add other packages here
-  # -
+- python==3.11.*
+- git==2.39.1
+- jupyter-resource-usage==1.0.0
+- jupyterlab==4.0.11
+- jupyterlab-favorites==3.0.0
+- jupyterlab_server==2.23.0
+- jupyterlab_widgets==3.0.8
+- jupyter_server==2.7.0
+- nbgitpuller==1.2.1
+- notebook==7.0.7
+- folium==0.14.0
+- h5netcdf==1.0.2
+- ipywidgets==8.0.7
+- jupysql==0.8.0
+- jupyter-archive==3.4.0
+- matplotlib==3.7.1
+- mdit-py-plugins==0.4.0
+- numpy==1.24.2
+- pandas==2.2.2
+- plotly==5.13.1
+- requests==2.28.2
+- scikit-image==0.19.3
+- scikit-learn==1.2.2
+- scipy==1.10.1
+- seaborn==0.12.2
+- statsmodels==0.14.0
+- tensorflow-cpu==2.12.1
+- sqlalchemy==2.0.16
+- mlxtend==0.23.0
+# Spring 2024 data 100
+- pytorch==2.1.2
+- cpuonly==2.0
+- transformers==4.37.1
+# Spring 2024 table demos
+- lxml==5.1.0
+# Spring 2024 Econ 148 Packages
+- geopandas==0.14.2
+- geopy==2.4.1
+- lifelines==0.27.8
+- pycountry==22.3.5
+- pip
+- pip:
+  # - -r infra-requirements.txt
+  - ipywidgets==8.0.7
+  # disable until fixed (probably this:  https://github.com/jupyterlab/jupyter-collaboration/issues/162)
+  # - jupyter_collaboration==1.0.1
+  - jupyterhub==4.1.5
+  - nbconvert[webpdf]
+  #  - pyppeteer==2.0.0
+  - pytest-notebook==0.8.1
+  - gh-scoped-creds==4.1
+  - git+https://github.com/shaneknapp/python-popularity-contest.git@add-error-handling
+  - ydata-profiling==4.6.4
+  - otter-grader==5.4.0
+  - duckdb==0.10.1
+  - duckdb_engine==0.11.2

infra-requirements.txt

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+# WARNING: Original source at scripts/infra-packages/requirements.txt
+# PLEASE DO NOT EDIT ELSEWHERE
+# After editing scripts/infra-packages/requirements.txt, please run
+# scripts/infra-packages/sync.bash.
+
+# This file pins versions of notebook related python packages we want
+# across all hubs. This makes sure we don't need to upgrade them
+# everwhere one by one.
+
+# FIXME: Freeze this to get exact versions of all dependencies
+notebook==7.0.7
+jupyterlab==4.0.11
+nbgitpuller==1.2.1
+jupyter-resource-usage==1.0.1
+# Matches version in images/hub/Dockerfile
+jupyterhub==4.1.5
+appmode==0.8.0
+ipywidgets==8.0.7
+jupyter-tree-download==1.0.1
+git-credential-helpers==0.2
+# Measure popularity of different packages in our hubs
+# https://discourse.jupyter.org/t/request-for-implementation-instrument-libraries-actively-used-by-users-on-a-jupyterhub/7994?u=yuvipanda
+git+https://github.com/shaneknapp/python-popularity-contest.git@add-error-handling
+# RISE is useful for presentations - see https://github.com/berkeley-dsep-infra/datahub/issues/2527
+RISE==5.7.1
+# syncthing for dropbox-like functionality
+jupyter-syncthing-proxy==1.0.3
+# jupyter archival tool for easy user downloads
+jupyter-archive==3.4.0

postBuild

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+#!/usr/bin/env bash
+
+# installing chromium browser to enable webpdf conversion using nbconvert
+export PLAYWRIGHT_BROWSERS_PATH=${CONDA_DIR}
+npm install -g playwright
+playwright install chromium