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: |
-
-
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+
+
+
@@ -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.
@@ -1268,7 +1268,7 @@ The distribution of pull requests as a function of how long it took to close the
](images/blank.svg){#fig:pr-closing-time width="1px"}
diff --git a/manuscript.pdf b/manuscript.pdf
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diff --git a/references.json b/references.json
index 1865b631..205a6acd 100644
--- a/references.json
+++ b/references.json
@@ -1185,7 +1185,7 @@
[
"2023",
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+ 11
]
]
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diff --git 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
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+Alankar
Alpes
Altay
AMR
AMReX
AMRKDTree
-amrvac
+AMRVAC
Aperio
APIs
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+AREPO
Arraki
arraylike
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+ARTIO
arwetzel
AST
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astrojaz
astrophysically
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astrosmith
AthenaPK
atmyers
@@ -37,11 +37,11 @@ binarily
Biondo
Birla
Bitbucket
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bookkeepping
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+Bool
Borro
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+BoxLib
Britton
brittonsmith
Bugfix
@@ -72,9 +72,9 @@ colorbar
colorbars
colormap
colormapping
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colorspace
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+Comoving
conda
connectedness
coord
@@ -156,7 +156,7 @@ Gurvich
Halbert
Havlin
HDF
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+Hexahedral
HippoDraw
histogramming
Hix
@@ -211,7 +211,7 @@ LLC
logarithmically
LSST
Madicken
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+matplotlib
Matplotlib’s
MatthewTurk
megaparsec
@@ -246,11 +246,11 @@ NMSU
nosetests
NSSC
NumFOCUS
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+numpy
OAC
octants
octree
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+octrees
octs
odowska
olebole
@@ -275,7 +275,7 @@ pixelization
pixelize
pixelized
pixelizer
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+Pixelizers
pixelizes
Pixelizing
Planétologie
@@ -291,7 +291,7 @@ protoplanetary
pydata
pytest
PyThreeJS
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+pyxsim
qobilidop
quadtree
radiative
@@ -394,7 +394,7 @@ ytree
yt’s
Yu
Yurlungur
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+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",
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+ "header-includes": "\n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n \n\n",
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