[MRG] Updating citation and codemeta

[luizirber]

A mix of running

• https://github.com/citation-file-format/cff-converter-python cffconvert -if CITATION.cff -f codemeta
• https://github.com/proycon/codemetapy (codemetapy sourmash)

and merging the results.

TODO

• wondering how to add more data (like https://docs.ropensci.org/codemetar/articles/codemeta-intro.html) without having to update it manually
• document how/when to update data (new papers?
• put in release checklist to bump version numbers?
• how to validate CITATION.cff and codemeta.json?
• add to PR checklist: add your ORCID if new contributor (also see GitHub templates update (checklist) #834)
  • Another idea; add a CI check based on first interaction with repo? https://github.com/actions/first-interaction/blob/main/src/main.ts
• check/contact everyone in https://github.com/dib-lab/sourmash/graphs/contributors to add as contributors (can we extract this from github API?)
  • Mostly done in Update author list for 4.0 #622
  • maybe automate this with https://allcontributors.org/ ?
• set it up in a way that https://www.softwareheritage.org/save-and-reference-research-software/ can pick up and archive
  • https://forge.softwareheritage.org/source/codemeta-generator/
• check https://github.com/con/tributors to automate this

Checklist

• Is it mergeable?
• make test Did it pass the tests?
• make coverage Is the new code covered?
• Did it change the command-line interface? Only additions are allowed
  without a major version increment. Changing file formats also requires a
  major version number increment.
• Was a spellchecker run on the source code and documentation after
  changes were made?

Related PRs and issues:

• [WIP] Citation #478 and Use duecredit for citation management? #255 (using duecredit)
• it is really unclear as to how to actually cite sourmash #511 (really unclear on how to actually cite sourmash). See especially it is really unclear as to how to actually cite sourmash #511 (comment)
• Since this is the ramp up for JOSS sourmash 3.0, http://ivory.idyll.org/blog/2019-authorship-revisiting.html

[codecov]

Codecov Report

Merging #837 (5624174) into latest (9712009) will increase coverage by 4.99%.
The diff coverage is n/a.

@@            Coverage Diff             @@
##           latest     #837      +/-   ##
==========================================
+ Coverage   90.20%   95.20%   +4.99%     
==========================================
  Files         126       99      -27     
  Lines       21192    17492    -3700     
  Branches     1594     1594              
==========================================
- Hits        19117    16653    -2464     
+ Misses       1844      608    -1236     
  Partials      231      231              

Flag	Coverage Δ
python	95.20% <ø> (ø)
rust	?

Flags with carried forward coverage won't be shown. Click here to find out more.

Impacted Files	Coverage Δ
src/core/src/index/mod.rs
src/core/src/ffi/nodegraph.rs
src/core/src/ffi/cmd/compute.rs
src/core/tests/minhash.rs
src/core/src/sketch/nodegraph.rs
src/core/src/index/bigsi.rs
src/core/src/index/sbt/mhbt.rs
src/core/src/sketch/minhash.rs
src/core/tests/test.rs
src/core/src/index/sbt/mod.rs
... and 17 more

---

Continue to review full report at Codecov.

Legend - Click here to learn more
Δ = absolute <relative> (impact), ø = not affected, ? = missing data
Powered by Codecov. Last update 9712009...5624174. Read the comment docs.

[luizirber]

Running git shortlog --summary --numbered (from #622)

$ git shortlog --summary --numbered
   770  C. Titus Brown
   130  Luiz Irber
    34  Laurent Gautier
    17  Tim Head
     7  Connor Tiffany
     7  Olga Botvinnik
     5  Pranathi Vemuri
     5  Taylor Reiter
     3  S. Joshua Swamidass
     3  brooksph
     2  Camille Scott
     2  Daniel Standage
     2  Harriet Alexander
     2  Titus Brown
     1  Andreas Sjödin
     1  Arfon Smith
     1  Connor T. Skennerton
     1  Daniel Dsouza
     1  Katrin Leinweber
     1  NapsterInBlue
     1  Phillip Brooks
     1  Ricky Lim
     1  Tessa Pierce
     1  ljcohen
     1  pyup.io bot
     1  swamidass

[luizirber]

I used the codemeta generator from the Software Heritage project for some cleanups.

[luizirber]

Another interesting tool: sourcecred takes into account all interactions in the repo (issues, comments, PRs...), and there is a GitHub Action in development for running it automatically.

I ran it manually, here's an example screenshot:

[ctb]

hello! I decided to try taking over this PR, preparatory to the JOSS paper #1361. Any objections to merging this (after appropriate review) and punting the remaining stuff to a new issue, @luizirber?

I'm not sure about keeping the new github action. Guidance welcome.

[mr-eyes]

This PR was left behind for a while, I am just bringing it up for an update or review.