Skip to content

SoftwareUpgrades

Jump to bottom
Harald Schilly edited this page Jan 12, 2019 · 38 revisions

This page contains notes about new software upgrades for the "default" environment.

2019-01-12

  • (r): Rstan 2.18.2 → demo worksheet, with some setup instructions specific to CoCalc
  • (py2/py3): PyStan 2.18.1 (demo)
  • Julia 1:
    • JuMP & Ipopt (demo)
    • We'll also switch the default version of Julia to be 1.0.x soon!
  • Linux updates, notably bazel 0.21
  • Fonts: ocr-a, ocr-b, opendyslexic, mononoki, comic-neue, linex, roboto, vollkorn, tuffy. Testing some fonts in LuaTeX

2019-01-06

  • Julia 1.0.3: comes with packages PyPlot, Plots, DifferentialEquations, Compat, LinearAlgebra, GLM, etc. now!
  • Sage development version 8.6.rc0

2018-12-30

2018-12-22

  • (py3)
    • new: nbval for unit-testing Jupyter Notebooks
  • (x11)
  • (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 -- #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

  • (upd) SageMath 8.4 as the new default Sage version.
    • Run sage_select in a terminal to change the default in a project.
    • known issue: libhomfly not available, because it doesn't compile
  • (upd) SageMath development version 8.5.beta0

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

  • (upd/enh) Julia 1.0.1 and associated Julia Jupyter kernel
    • in a terminal, run julia-1 to get the 1.0.1 release.
  • (new) Ada programming language (Ada wikibook), including syntax highlighting of *.adb files
  • (upd) overall Linux software update, in particular OpenCV libraries and python-opencv
  • (new/lib) libopenblas-dev for building C/Fortran code on top of it
  • (new/bin) screen, powerline, glances, docsify, gnat (GNU Ada compiler)
  • (env) changing TERM=xterm-256color default environment variable
  • (env) global config file for htop
  • (new/py2,py3): prettytable
  • (chg) switching videochat from https://appear.in to https://meet.jit.si
  • (new/py3) jupytext, notedown, control, and slycot
  • (upd/py3) jupyter nbconvert (just 5.3.1 to 5.4.0, but there could be noticeable changes)
  • (bug/py) there are known issues with mpl_toolkits/Basemap -- please use Ubuntu's Python 3 environment.

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 (https://leanprover.github.io/) 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

This Wiki is for CoCalc.com.

A more structured documentation is the CoCalc User Manual.

For further questions, please contact us.

Clone this wiki locally