From aa564726d50548cf85aecdcdb7fcea82e322814a Mon Sep 17 00:00:00 2001 From: Matthew Turk Date: Fri, 11 Aug 2023 09:43:39 +0000 Subject: [PATCH] fix references and update plot [ci skip] This build is based on https://github.com/yt-project/yt-4.0-paper/commit/c1a99f15e46ef0307c7e4596b4446fb48ecd5dc1. This commit was created by the following CI build and job: https://github.com/yt-project/yt-4.0-paper/commit/c1a99f15e46ef0307c7e4596b4446fb48ecd5dc1/checks https://github.com/yt-project/yt-4.0-paper/actions/runs/5831099538 --- manuscript.html | 18 +++++++++--------- manuscript.md | 18 +++++++++--------- manuscript.pdf | Bin 4744475 -> 4744619 bytes references.json | 4 ++-- spelling-errors.txt | 36 ++++++++++++++++++------------------ variables.json | 16 ++++++++-------- 6 files changed, 46 insertions(+), 46 deletions(-) diff --git a/manuscript.html b/manuscript.html index 4860aa66..9676df43 100644 --- a/manuscript.html +++ b/manuscript.html @@ -177,8 +177,8 @@ - - + + @@ -388,9 +388,9 @@ - - - + + + @@ -508,9 +508,9 @@

Introducing yt 4.0: Analysis and Visualization of Volumetric D

This manuscript -(permalink) +(permalink) was automatically generated -from yt-project/yt-4.0-paper@4643cc9 +from yt-project/yt-4.0-paper@c1a99f1 on August 11, 2023.

Authors

@@ -1306,7 +1306,7 @@

Development Procedure

One result of this is in figures such as the top row of Figure 1, some contributors appear to have made a smaller quantity of contributions than an informed observer would recognize. Specifically, this applies to Clément Robert, who has contributed a considerable amount of change to the code base but has done so in a way that does not maximize the “statistics” presented below. This particular bias, toward contributions measured in count, is one that affects other members of the community as well, especially those whose participation is through community engagement, documentation, tutorials, and mentoring, rather than through direct modifications of the code base. -To mitigate this shortcoming, we present the number of pull requests merged into the code base, as a function of time, as well as the time between their creation and their merge, in the lower row of Figure ??. +To mitigate this shortcoming, we present the number of pull requests merged into the code base, as a function of time, as well as the time between their creation and their merge, in the lower row of Figure 1. This demonstrates that in many cases, the number of discrete contributions to the codebase varies greatly depending on the developer, and we believe gives a more informed perception of the activity in the code base.

@@ -1334,7 +1334,7 @@

Development Procedure

Unit Testing

The yt codebase includes a number of unit tests; although extensive, their existence post-dates the initial development of the code, and they largely work around the extant APIs at the time of their creation. diff --git a/manuscript.md b/manuscript.md index 26e6810e..c6965020 100644 --- a/manuscript.md +++ b/manuscript.md @@ -87,8 +87,8 @@ header-includes: | - - + + @@ -298,9 +298,9 @@ header-includes: | - - - + + + @@ -323,9 +323,9 @@ manubot-clear-requests-cache: false This manuscript -([permalink](https://yt-project.github.io/yt-4.0-paper/v/4643cc98eec97781251d222b087a847d3825fb6c/)) +([permalink](https://yt-project.github.io/yt-4.0-paper/v/c1a99f15e46ef0307c7e4596b4446fb48ecd5dc1/)) was automatically generated -from [yt-project/yt-4.0-paper@4643cc9](https://github.com/yt-project/yt-4.0-paper/tree/4643cc98eec97781251d222b087a847d3825fb6c) +from [yt-project/yt-4.0-paper@c1a99f1](https://github.com/yt-project/yt-4.0-paper/tree/c1a99f15e46ef0307c7e4596b4446fb48ecd5dc1) on August 11, 2023. @@ -1243,7 +1243,7 @@ Recent practice, however, is more inclined toward commit "squashing," where mult One result of this is in figures such as the top row of Figure @fig:commit-graph, some contributors appear to have made a smaller quantity of contributions than an informed observer would recognize. Specifically, this applies to Clément Robert, who has contributed a considerable amount of change to the code base but has done so in a way that does not maximize the "statistics" presented below. This particular bias, toward contributions measured in count, is one that affects other members of the community as well, especially those whose participation is through community engagement, documentation, tutorials, and mentoring, rather than through direct modifications of the code base. -To mitigate this shortcoming, we present the number of pull requests merged into the code base, as a function of time, as well as the time between their creation and their merge, in the lower row of Figure @fig:figure-commit-graph. +To mitigate this shortcoming, we present the number of pull requests merged into the code base, as a function of time, as well as the time between their creation and their merge, in the lower row of Figure @fig:commit-graph. This demonstrates that in many cases, the number of discrete contributions to the codebase varies greatly depending on the developer, and we believe gives a more informed perception of the activity in the code base.

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a/spelling-errors.txt b/spelling-errors.txt index df189c1e..41311814 100644 --- a/spelling-errors.txt +++ b/spelling-errors.txt @@ -4,25 +4,25 @@ ahf AIP Aitoff Alamos -alankar +Alankar Alpes Altay AMR AMReX AMRKDTree -amrvac +AMRVAC Aperio APIs -Arepo +AREPO Arraki arraylike -artio +ARTIO arwetzel AST -astro +Astro astrojaz astrophysically -astropy +AstroPy astrosmith AthenaPK atmyers @@ -37,11 +37,11 @@ binarily Biondo Birla Bitbucket -Bitwise +bitwise bookkeepping -bool +Bool Borro -boxlib +BoxLib Britton brittonsmith Bugfix @@ -72,9 +72,9 @@ colorbar colorbars colormap colormapping -colormaps +Colormaps colorspace -comoving +Comoving conda connectedness coord @@ -156,7 +156,7 @@ Gurvich Halbert Havlin HDF -hexahedral +Hexahedral HippoDraw histogramming Hix @@ -211,7 +211,7 @@ LLC logarithmically LSST Madicken -Matplotlib +matplotlib Matplotlib’s MatthewTurk megaparsec @@ -246,11 +246,11 @@ NMSU nosetests NSSC NumFOCUS -NumPy +numpy OAC octants octree -Octrees +octrees octs odowska olebole @@ -275,7 +275,7 @@ pixelization pixelize pixelized pixelizer -pixelizers +Pixelizers pixelizes Pixelizing Planétologie @@ -291,7 +291,7 @@ protoplanetary pydata pytest PyThreeJS -pyXSIM +pyxsim qobilidop quadtree radiative @@ -394,7 +394,7 @@ ytree yt’s Yu Yurlungur -Zingale +zingale zorder Zuckerberg ZuHone diff --git a/variables.json b/variables.json index f4dd7409..fe18a72e 100644 --- a/variables.json +++ b/variables.json @@ -77,7 +77,7 @@ "amrvac-paper": "doi:10.1016/S0010-4655(03)00139-5", "berger-collela-paper": "doi:10.1016/0021-9991(89)90035-1" }, - "header-includes": 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