Software Updates 2018

Note

This is an archive of older updates of the Default environment.

2018-12-30

2018-12-22

  • (py3) - new: nbval for unit-testing Jupyter Notebooks

  • (x11) - new: sqlitebrowser - updated: OpenModelica 1.14

  • (software) - SageMath development version 8.5.rc1 - we have sqlite (version 2) and sqlite3 (version 3) command line interface on board - Updated Rust to 1.30 - broad Linux package update

  • (node/upd): npm 6.50, TypeScript 3.2.2, prettier from 1.11 to 1.15.3, …

  • (julia): removing deprecated 0.6 Jupyter kernel

2018-12-16

  • (Py3)
  • (x11)

  • (software/new): ROOT version 6.14/06, released 2018-11-05. To work with graphical interface: first, open up an X11 environment, then start ROOT by calling start-root in the terminal.

  • (Sage/upd) Sage Development updated to 8.5.rc0

Note about future updates:

  • We will remove Julia 0.6.x (0.7 and 1.0 remains for now)

  • Make the python2 jupyter kernel choice more explicit (System’s global version vs. SageMath’s)

2018-12-08

  • (Julia/upd) Julia 1.0.2 (julia-1) and packages CSV, DataFrames, Gadfly, Statistics, LinearAlgebra and GLM in default julia 0.7

  • (Software/new) sqlline, JDBC for PostgreSQL and MySQL – issue #3400

  • (Linux/upd) various updates, only minor version number changes

  • (X11/new) kgraphviewer and additional launcher buttons

  • (Py3/upd) graphviz 0.10.1, mxnet 1.3.1, tellurium 2.1.3, jinja2 2.9.6, pymc3 3.5, scikit-image 0.14.1

  • (Py2&3/new) hmmlearn 0.2.1

  • (Library) new entry Scikit Image Tutorial and updates of several entries

2018-12-03

  • (Sage/upd) Sage Development updated to 8.5.beta6

2018-12-01

2018-11-28

  • (Sage/upd) Sage Development updated to 8.5.beta5

  • (Linux/upd) noteworthy minor updates: vs code: 1.29.1, bazel: 0.19.2, idle: 3.6.7, python3: 3.6.7, postgresql: 11.1

  • (Py3/new) NOAA SDK

  • (Py3/upd) yapf 0.25, tensorflow 1.12, tensorboard 1.12, tensorflow-probability 0.5, scikit-learn 0.20.1, numba 0.40.1, arctic 1.73 (also Py2)

2018-11-13

2018-11-10

2018-11-03

  • (py2/py3 updates): Bokeh 1.0, Sphinx 1.8.1, Plotly 3.3.0, tensorflow 1.11 (py3 only), Pip 18.1

  • (Sage/upd) Sage Development version updated to 8.5.beta2

  • (py3/new)

  • (x11) xdotool, xclip, xvfb update

  • (linux/upd) broad Linux update, in particular rustc 1.28, cargo 0.29, bazel 0.19, …

  • (node.js/upd) noteworthy are typescript 3.1.4, coffeescript 2.3.2, prettier 1.14.3, reveal-md 2.3.0 and tldr 3.2.5

  • (R/upd) updating some packages like dplyr, knitr, data.table, plotly, etc.

  • (R/new) export package

  • (R/new) installing “swirl” courses globally for R. Create an “X11 Desktop” file, run R, and then start it:

    > require(swirl)
> swirl_options(swirl_data_dir = "/home/user/swirl")
> swirl()

2018-10-27

2018-10-18

  • (new) Sage 8.4 (default still 8.3). Use sage_select to switch it, test it, and maybe give us feedback.

  • (new) PostgreSQL 11 (default still 10). It’s in /usr/lib/postgresql/11/bin/. To use it, fix your path, e.g. via path-remove "/usr/lib/postgresql/10/bin"; path-append "/usr/lib/postgresql/11/bin" in your ~/.bashrc.

  • (upd) overall Linux software update. notable: * git (1:2.17.1-1ubuntu0.3`_ * texlive-binaries (2017.20170613.44572-8ubuntu0.1)

  • (new) xpra/websockify

  • (new) couple of X11 related software, like PSPP, Gimp, LibreOffice, …

  • (fix) relaxing policies for ImageMagick to be able to run convert on PDF files.

2018-10-06

2018-09-29

  • (upd) broad Linux software packages update, including minor updates to bazel, chrome, curl and python3.6

  • (upd/py3) “pip3” 18.0, seaborn 0.9.0, geopandas 0.4.0, and scikit-learn 0.20.0

  • (upd/py2) “pip2” 18.0, seaborn 0.9.0, tensorflow 1.10.1

  • (rem/ac5) removing broken pandas-datareader from anaconda5 (no update available yet, use Ubuntu’s Python 3)

  • (new/npm) tldr pages

2018-09-23

  • (upd) broad round of updating Anaconda 5 packages

  • (rem) Removal of PostgreSQL 9.6. We provide the 10.x series by default. - for the purpose of upgrading, the old install is kept in /usr/lib/postgresql/9.6/ for a little while.

  • (fix) pandas-datareader incompatibility resolved

  • (upd/py3) dask/distributed, SymPy 1.3, Numba 0.38.1/llvmlite, and pandas-datareader 0.7.0

  • (upd/py2) pandas 0.23.4 and pandas-datareader 0.7.0

  • (upd) LEAN mathlib to rev d0f1b21a9df64f, located in /ext/lean/lean-3.4.1-linux/mathlib/.

  • (new/py2+py3) pyLADvis

  • (new) C++ 17 Jupyter kernel via xeus-cling

  • (upd) SageMath release 8.4.beta6 2018-09-22

2018-09-15

  • (new) R packages: roperators and a couple from R Views 2018-07

  • (upd) bazel 0.17.1

  • (upd) nodejs 8.12 (+ npm package updates)

  • (upd) relaxing browser compatibility check specifically for newest Firefox 60.2 ESR

  • (upd) major changes in handling RMarkdown files

  • (new) support for automatically processing PythonTeX code in LaTeX documents

  • (new) additional Library entries for RMarkdown and LaTeX/PythonTeX examples

  • (new) first iteration to support LEAN

  • (upd) SageMath 8.4.beta5 (released on 2018-07-16)

2018-09-11

2018-09-08

  • (fix) irregularities with man-pages introduces in previous update

  • (compat) Firefox 62 was released, which works well again with CoCalc’s websocket over Cloudflare

  • (upd/py3) tensorflow 1.10.1

  • (upd/node) npm 5.6.0 → 6.4.1, typescript 3.0.3, CoffeeScript 2.3.1 and a couple other global node packages

  • (upd/linux) headless chrome 69, and a couple of linux system libs

  • (upd/sage) SageMath development 8.4beta4 available

  • (upd/anaconda) broad package upgrade of Anaconda5 environment

  • (chg) Jupyter plots done via R in Sage output SVG by default

2018-09-01