links.md

[abandonware]: glossary.html#abandonware
[absolute-error]: glossary.html#absolute-error
[absolute-import]: glossary.html#absolute-import
[absolute-path]: glossary.html#absolute-path
[actual-result]: glossary.html#actual-result
[agile]: glossary.html#agile
[ally]: glossary.html#ally
[append-mode]: glossary.html#append-mode
[argparse]: https://docs.python.org/3/library/argparse.html
[arxiv]: https://arxiv.org/
[assertion]: glossary.html#assertion
[authentic-task]: glossary.html#authentic-task
[authorea]: https://authorea.com/
[auto-completion]: glossary.html#auto-completion
[automatic-variable-make]: glossary.html#automatic-variable-make
[bibtex]: http://www.bibtex.org/
[biorxiv]: https://www.biorxiv.org/
[bitbucket]: https://bitbucket.org/
[boilerplate]: glossary.html#boilerplate
[branch-per-feature]: glossary.html#branch-per-feature-workflow
[bug-report]: glossary.html#bug-report
[bug-tracker]: glossary.html#bug-tracker
[build-manager]: glossary.html#build-manager
[byte-code]: glossary.html#byte-code
[call-stack]: glossary.html#call-stack
[camel-case]: glossary.html#camel-case
[capes-gerard]: https://github.com/gcapes
[captain-awkward]: https://captainawkward.com/
[carpentries]: https://carpentries.org/
[catch]: glossary.html#catch
[caulfield-chorus]: https://hapgood.us/2016/05/13/choral-explanations/
[cc-0]: glossary.html#cc-0
[cc-by]: glossary.html#cc-by
[cdd]: glossary.html#cdd
[charles-rules]: https://geekfeminism.wikia.com/wiki/Charles%27_Rules_of_Argument
[checklist]: glossary.html#checklist
[chocolatey]: https://chocolatey.org/
[choose-license]: https://choosealicense.com/
[cli]: glossary.html#cli
[cmdline-provenance]: https://cmdline-provenance.readthedocs.io/en/latest/
[code-review]: glossary.html#code-review
[code-smells-and-feels]: https://github.com/jennybc/code-smells-and-feels
[cognitive-load]: glossary.html#cognitive-load
[command-argument]: glossary.html#command-argument
[command-flag]: glossary.html#command-flag
[command-history-unix]: glossary.html#command-history-unix
[command-option]: glossary.html#command-option
[command-shell]: glossary.html#command-shell
[command-switch]: glossary.html#command-switch
[comment]: glossary.html#comment
[commit-message]: glossary.html#commit-message
[commit]: glossary.html#commit
[commons]: glossary.html#commons
[competent-practitioner]: glossary.html#competent-practitioner
[compiled-language]: glossary.html#compiled-language
[compiler]: glossary.html#compiler
[computational-notebook]: glossary.html#computational-notebook
[conda]: https://conda.io/
[conda-skeleton-pypi]: https://docs.conda.io/projects/conda-build/en/latest/user-guide/tutorials/build-pkgs-skeleton.html
[conditional-expression]: glossary.html#conditional-expression
[confirmation-bias]: glossary.html#confirmation-bias
[continuation-prompt]: glossary.html#continuation-prompt
[continuous-integration]: glossary.html#continuous-integration
[covenant]: https://www.contributor-covenant.org
[coverage]: glossary.html#coverage
[creative-commons]: https://creativecommons.org/
[current-working-directory]: glossary.html#current-working-directory
[data-package]: glossary.html#data-package
[default-target-make]: glossary.html#default-target-make
[defensive-programming]: glossary.html#defensive-programming
[desc-cmt-msgs]: https://chris.beams.io/posts/git-commit/
[destructuring]: glossary.html#destructuring
[dictionary]: glossary.html#dictionary
[docker]: https://en.wikipedia.org/wiki/Docker_(software)
[docstring]: glossary.html#docstring
[documentation-generator]: glossary.html#documentation-generator
[doi]: glossary.html#doi
[down-vote]: glossary.html#down-vote
[drake]: https://ropenscilabs.github.io/drake-manual/
[dryad]: https://datadryad.org/
[dursi-jonathan]: https://www.dursi.ca/
[dursi-pattern-rules]: https://github.com/ljdursi/make_pattern_rules
[entry-point]: glossary.html#entry-point
[exception]: glossary.html#exception
[expected-result]: glossary.html#expected-result
[expert]: glossary.html#expert
[explicit-relative-import]: glossary.html#explicit-relative-import
[exploratory-programming]: glossary.html#exploratory-programming
[export-variable]: glossary.html#export-variable
[external-error]: glossary.html#external-error
[fair-questionnaire]: https://www.ands-nectar-rds.org.au/fair-tool
[false-beginner]: glossary.html#false-beginner
[faq]: glossary.html#faq
[feature-request]: glossary.html#feature-request
[figshare]: https://figshare.com/
[filename-extension]: glossary.html#filename-extension
[filename-stem]: glossary.html#filename-stem
[filesystem]: glossary.html#filesystem
[filter]: glossary.html#filter
[find-packages]: https://setuptools.readthedocs.io/en/latest/setuptools.html#using-find-packages
[fixture]: glossary.html#fixture
[flag-variable]: glossary.html#flag-variable
[folder]: glossary.html#folder
[forge]: glossary.html#forge
[full-identifier-git]: glossary.html#full-identifier-git
[function-make]: glossary.html#function-make
[geek-feminism]: https://geekfeminism.wikia.com/
[geoscience-data-journal]: https://rmets.onlinelibrary.wiley.com/journal/20496060
[geoscientific-model-development]: https://www.geoscientific-model-development.net/
[gistemp]: https://data.giss.nasa.gov/gistemp/
[git-branch]: glossary.html#git-branch
[git-clone]: glossary.html#git-clone
[git-conflict]: glossary.html#git-conflict
[git-fork]: glossary.html#git-fork
[git-merge]: glossary.html#git-merge
[git-pull]: glossary.html#git-pull
[git-push]: glossary.html#git-push
[git-ssh-bitbucket]: https://confluence.atlassian.com/bitbucket/set-up-ssh-for-git-728138079.html
[git-ssh-github]: https://help.github.com/articles/generating-ssh-keys
[git-ssh-gitlab]: https://about.gitlab.com/2014/03/04/add-ssh-key-screencast/
[git-stage]: glossary.html#git-stage
[git]: glossary.html#git
[github-gitignore]: https://github.com/github/gitignore
[github-zenodo-tutorial]: https://guides.github.com/activities/citable-code/
[github]: https://github.com
[gitkraken]: https://www.gitkraken.com/
[gitlab]: https://gitlab.com/
[gnu-make]: https://www.gnu.org/software/make/
[gnu-man-coreutils]: https://www.gnu.org/software/coreutils/manual/coreutils.html
[gnu-man]: https://www.gnu.org/manual/manual.html
[go-fair]: https://www.go-fair.org/fair-principles/
[governance]: glossary.html#governance
[gpl]: glossary.html#gpl
[gui]: glossary.html#gui
[heaps-law]: https://en.wikipedia.org/wiki/Heaps%27_law
[hippocratic-license]: https://firstdonoharm.dev/
[hitchhiker]: glossary.html#hitchhiker
[home-directory]: glossary.html#home-directory
[impact-effort-matrix]: glossary.html#impact-effort-matrix
[implicit-relative-import]: glossary.html#implicit-relative-import
[impostor-syndrome]: glossary.html#impostor-syndrome
[in-place-operator]: glossary.html#in-place-operator
[ini-format]: https://en.wikipedia.org/wiki/INI_file
[insight]: https://www.insightdatascience.com/
[integration-testing]: glossary.html#integration-testing
[internal-error]: glossary.html#internal-error
[interpeter]: glossary.html#interpeter
[interpreted-language]: glossary.html#interpreted-language
[interruption-bingo]: glossary.html#interruption-bingo
[invariant]: glossary.html#invariant
[iso-date-format]: glossary.html#iso-date-format
[issue-label]: glossary.html#issue-label
[issue-tracking-system]: glossary.html#issue-tracking-system
[issue]: glossary.html#issue
[jors]: https://openresearchsoftware.metajnl.com/
[json]: glossary.html#json
[jupyter]: https://jupyter.org/
[kebab-case]: glossary.html#kebab-case
[latex]: glossary.html#latex
[lint]: https://en.wikipedia.org/wiki/Lint_(software)
[linter]: glossary.html#linter
[list-comprehension]: glossary.html#list-comprehension
[logging-framework]: glossary.html#logging-framework
[long-option]: glossary.html#long-option
[loop-body]: glossary.html#loop-body
[loop-unix]: glossary.html#loop-unix
[magic-number]: glossary.html#magic-number
[make]: https://www.gnu.org/software/make/
[makefile]: glossary.html#makefile
[markdown]: https://en.wikipedia.org/wiki/Markdown
[marthas-rules]: glossary.html#marthas-rules
[max-like-est]: glossary.html#max-like-est
[mental-model]: glossary.html#mental-model
[merely-useful]: https://github.com/merely-useful/merely-useful.github.io/
[milestone]: glossary.html#milestone
[mit-license]: glossary.html#mit-license
[model-coc]: https://geekfeminism.wikia.com/wiki/Conference_anti-harassment/Policy
[nano]: glossary.html#nano
[ngo]: glossary.html#ngo
[novice]: glossary.html#novice
[oop]: glossary.html#oop
[open-license]: glossary.html#open-license
[open-science]: glossary.html#open-science
[openrefine]: https://openrefine.org/
[operating-system]: glossary.html#operating-system
[oppression]: glossary.html#oppression
[optional-argument]: glossary.html#optional-argument
[orcid]: https://orcid.org/
[orthogonality]: glossary.html#orthogonality
[orwells-rules]: https://en.wikipedia.org/wiki/Politics_and_the_English_Language#Remedy_of_Six_Rules
[osf]: https://osf.io/
[osi-license-list]: https://opensource.org/licenses
[our-research]: http://ourresearch.org/
[overlay-configuration]: glossary.html#overlay-configuration
[overleaf]: https://authorea.com/
[pager]: glossary.html#pager
[parent-directory]: glossary.html#parent-directory
[patch]: glossary.html#patch
[path-coverage]: glossary.html#path-coverage
[path]: glossary.html#path
[pattern-rule-make]: glossary.html#pattern-rule-make
[pep-8]: https://www.python.org/dev/peps/pep-0008/
[pep-8-hobgoblin]: https://www.python.org/dev/peps/pep-0008/#a-foolish-consistency-is-the-hobgoblin-of-little-minds
[phony-target-make]: glossary.html#phony-target-make
[pip]: https://pypi.org/project/pip/
[pipe-unix]: glossary.html#pipe-unix
[positional-argument]: glossary.html#positional-argument
[postcondition]: glossary.html#postcondition
[pothole-case]: glossary.html#pothole-case
[power-law]: glossary.html#power-law
[precondition]: glossary.html#precondition
[prerequisite-make]: glossary.html#prerequisite-make
[privilege]: glossary.html#privilege
[procedural-programming]: glossary.html#procedural-programming
[process]: glossary.html#process
[product-manager]: glossary.html#product-manager
[project-gutenberg]: https://www.gutenberg.org/
[project-manager]: glossary.html#project-manager
[prompt]: glossary.html#prompt
[provenance]: glossary.html#provenance
[pull-request]: glossary.html#pull-request
[pypi-user-guide]: https://packaging.python.org/guides/using-testpypi/
[pypi]: https://pypi.org/
[pytest]: https://pytest.org/
[python-102]: https://python-102.readthedocs.io/
[python-exceptions]: https://docs.python.org/3/library/exceptions.html#exception-hierarchy
[python-standard-library]: https://docs.python.org/3/library/
[python]: glossary.html#python
[raise]: glossary.html#raise
[raster-image]: glossary.html#raster-image
[readthedocs]: https://docs.readthedocs.io/en/latest/
[readthedocs-config]: https://docs.readthedocs.io/en/stable/config-file/v2.html
[recipe-make]: https://www.gnu.org/software/make/manual/html_node/Rule-Introduction.html
[recursion]: glossary.html#recursion
[redirection]: glossary.html#redirection
[refactoring]: glossary.html#refactoring
[regression-testing]: glossary.html#regression-testing
[regression]: glossary.html#regression
[regular-expression]: glossary.html#regular-expression
[relative-error]: glossary.html#relative-error
[relative-path]: glossary.html#relative-path
[remote-login-server]: glossary.html#remote-login-server
[remote-login]: glossary.html#remote-login
[remote-repository]: glossary.html#remote-repository
[repl]: glossary.html#repl
[repository]: glossary.html#repository
[reprex]: glossary.html#reprex
[reproducible-research]: glossary.html#reproducible-research
[restructured-text]: glossary.html#restructured-text
[revision]: glossary.html#revision
[root-directory]: glossary.html#root-directory
[rotating-file]: glossary.html#rotating-file
[rse]: glossary.html#rse
[rstudio-ide]: https://www.rstudio.com/products/rstudio/
[rule-make]: glossary.html#rule-make
[scalzi-easy-mode]: https://whatever.scalzi.com/2012/05/15/straight-white-male-the-lowest-difficulty-setting-there-is/
[scientific-data]: https://www.nature.com/sdata/
[script]: glossary.html#script
[search-path]: glossary.html#search-path
[secure-shell]: glossary.html#secure-shell
[semantic-versioning]: glossary.html#semantic-versioning
[sense-vote]: glossary.html#sense-vote
[setuptools]: https://setuptools.readthedocs.io/
[shebang]: glossary.html#shebang
[shell-script]: glossary.html#shell-script
[short-circuit-test]: glossary.html#short-circuit-test
[short-identifier-git]: glossary.html#short-identifier-git
[short-option]: glossary.html#short-option
[snake-case]: glossary.html#snake-case
[snakemake]: https://snakemake.readthedocs.io/
[so-bash]: https://stackoverflow.com/questions/tagged/bash
[source-distribution]: glossary.html#source-distribution
[sphinx]: https://www.sphinx-doc.org/en/master/
[sprint]: glossary.html#sprint
[srinath-ashwin]: https://ccit.clemson.edu/research/researcher-profiles/ashwin-srinath/
[ssh-daemon]: glossary.html#ssh-daemon
[ssh-key]: glossary.html#ssh-key
[ssh-protocol]: glossary.html#ssh-protocol
[stack-overflow-good-question]: https://stackoverflow.com/help/how-to-ask
[stack-overflow]: https://stackoverflow.com/
[standard-input]: glossary.html#standard-input
[standard-output]: glossary.html#standard-output
[stderr]: glossary.html#stderr
[stdin]: glossary.html#stdin
[stdout]: glossary.html#stdout
[stop-word]: glossary.html#stop-word
[subcommand]: glossary.html#subcommand
[subdirectory]: glossary.html#subdirectory
[sustainable-software]: glossary.html#sustainable-software
[swc-make]: https://github.com/swcarpentry/make-novice
[tab-completion]: glossary.html#tab-completion
[tag]: glossary.html#tag
[target-make]: glossary.html#target-make
[target]: glossary.html#target
[tdd]: glossary.html#tdd
[ternary-expression]: glossary.html#ternary-expression
[test-framework]: glossary.html#test-framework
[test-runner]: glossary.html#test-runner
[testpypi]: https://test.pypi.org
[theoj]: https://joss.theoj.org/
[three-stickies]: glossary.html#three-stickies
[ticket]: glossary.html#ticket
[ticketing-system]: glossary.html#ticketing-system
[tidy-data]: glossary.html#tidy-data
[timestamp]: glossary.html#timestamp
[tldr-gpl]: https://tldrlegal.com/license/gnu-general-public-license-v3-(gpl-3)
[tldr]: https://tldr.sh/
[tolerance]: glossary.html#tolerance
[transitive-dependency]: glossary.html#transitive-dependency
[travis-ci]: https://travis-ci.org/
[triage]: glossary.html#triage
[troy-meetings]: https://chelseatroy.com/2018/03/29/why-do-remote-meetings-suck-so-much/
[tuple]: glossary.html#tuple
[twine]: https://twine.readthedocs.io/en/latest/
[udhr]: https://en.wikipedia.org/wiki/Universal_Declaration_of_Human_Rights
[ukho-accessibility]: https://ukhomeoffice.github.io/accessibility-posters/posters/accessibility-posters.pdf
[unit-test]: glossary.html#unit-test
[unix-shell]: glossary.html#unix-shell
[up-vote]: glossary.html#up-vote
[update-operator]: glossary.html#update-operator
[uwm-git-lesson]: https://uw-madison-datascience.github.io/git-novice-custom/
[validation]: glossary.html#validation
[vanderplas-licensing]: https://www.astrobetter.com/blog/2014/03/10/the-whys-and-hows-of-licensing-scientific-code/
[variable-make]: glossary.html#variable-make
[verification]: glossary.html#verification
[version-control-system]: glossary.html#version-control-system
[virtual-environment]: glossary.html#virtual-environment
[virtual-machine]: glossary.html#virtual-machine
[wayback-machine]: https://web.archive.org/
[whitespace]: glossary.html#whitespace
[wildcard]: glossary.html#wildcard
[womens-pockets-data]: https://github.com/the-pudding/data/blob/master/pockets/README.md
[working-memory]: glossary.html#working-memory
[wrap-code]: glossary.html#wrap-code
[yaml]: https://bookdown.org/yihui/rmarkdown/html-document.html
[zenodo]: https://zenodo.org/
[zipf-project-page]: https://test.pypi.org/project/zipf/
[zipfs-law]: https://en.wikipedia.org/wiki/Zipf%27s_law