Merge remote-tracking branch 'jwpeterson/citations' into devel

jwpeterson · jwpeterson · commit 7e3b4e3a24c8 · 2025-02-03T07:16:08.000-06:00
diff --git a/doc/citations/maybe.bib b/doc/citations/maybe.bib
@@ -2,6 +2,33 @@
 % that they actually use libMesh, and we can't check because they are
 % behind a paywall/not on sci-hub.
 
+% Maybe MOOSE
+% Requested full-text on ResearchGate
+@Article{CHuang_2025,
+  author  = {Chaofan Huang and Sunday Aduloju and John Fritz and V. Roshan Joseph and Mark Messner and Timothy Truster},
+  title   = {{Calibration of RAFM micromechanical model for creep using Bayesian optimization for functional output}},
+  journal = {Journal of Computing and Information Science in Engineering},
+  month   = mar,
+  year    = 2025,
+  volume  = 25,
+  number  = 3,
+  pages   = {031007 (17 pages)},
+  note    = {\url{https://doi.org/10.1115/1.4067584}}
+}
+
+% Maybe MOOSE/BISON
+% Requested full-text on ResearchGate
+@Article{Montoya_2025,
+  author  = {Katherine I. Montoya and Erik G. Herbert and Danny P. Schappel and Tyler J. Gerczak and Christian M. Petrie and Andrew T. Nelson and Tyler J. Gerczak},
+  title   = {{Micromechanical response of SiC-OPyC layers in TRISO fuel particles}},
+  journal = {Journal of Nuclear Materials},
+  month   = feb,
+  year    = 2025,
+  volume  = 606,
+  pages   = {155654 (xx pages)},
+  note    = {\url{https://doi.org/10.1016/j.jnucmat.2025.155654}}
+}
+
 % Maybe MOOSE
 % Requested full-text on ResearchGate
 @Article{Wangen_2025,
diff --git a/doc/citations/preprints.bib b/doc/citations/preprints.bib
@@ -1,28 +1,26 @@
 % Preprints
 
-% MOOSE
-% "An open-source platform, ... (MOOSE), is used to as an enable [sic] tool ..."
-@Article{XZhou_2025,
-  author  = {Xiaoming Zhou and Yongchao Liu and Manthar Ali and Min He},
-  title   = {A multilevel-multiphysics modeling and simulation approach for multichip electronics},
-  journal = {Applied Thermal Engineering},
+% MOOSE/Cardinal
+% "we use the Cardinal ... (MOOSE) application ... to run coupled simulations"
+% To be combined with: Leite_2023
+% Selected papers from NURETH-20
+@Article{Leite_2025,
+  author  = {Victor {Coppo Leite} and Elia Merzari and April Novak and Roberto Ponciroli and Lander Ibarra},
+  title   = {Application of a physics-informed convolutional neural network for monitoring the temperature fields in high-temperature gas reactors},
+  journal = {Nuclear Science and Engineering},
   month   = jan,
   year    = 2025,
-  pages   = {125738 (xx pages)},
-  note    = {\url{https://doi.org/10.1016/j.applthermaleng.2025.125738}}
+  note    = {\url{https://doi.org/10.1080/00295639.2024.2443337}}
 }
 
-% MOOSE
-% "In the final step, the trained DNN acts as a surrogate model within the FEM framework in ... (MOOSE)."
-% https://www.christianpeco.com/uploads/2/3/6/1/23617100/a_bio-lattice_deep_learning_framework_for_modeling_discrete_biological_materials.pdf
-@Article{Kumar_2025,
-  author  = {Manik Kumar and Nilay Upadhyay and Shishir Barai and Wesley F. Reinhart and Christian Peco},
-  title   = {A bio-lattice deep learning framework for modeling discrete biological materials},
-  journal = {Journal of the Mechanical Behavior of Biomedical Materials},
+% Maybe MOOSE
+@Article{ShuaiyiLu_2025,
+  author  = {Shuaiyi Lu and Pan Jiang and Lianghan Cong and L\"{u} Xiaoshu},
+  title   = {{Research progress on CO$_2$ geological storage reservoir and caprock mechanics: Methods and status}},
+  journal = {Greenhouse Gases: Science and Technology},
   month   = jan,
   year    = 2025,
-  pages   = {106900 (xx pages)},
-  note    = {\url{https://doi.org/10.1016/j.jmbbm.2025.106900}, Preprint: \url{https://tinyurl.com/57atznp8}}
+  note    = {\url{https://doi.org/10.1002/ghg.2328}}
 }
 
 % MOOSE
@@ -37,18 +35,6 @@ @Article{Shah_2025
   note    = {\url{https://doi.org/10.1088/1361-6560/adaad3}, ArXiv e-print: \url{https://arxiv.org/abs/2411.13530}}
 }
 
-% Maybe MOOSE/BISON
-% Requested full-text on ResearchGate
-@Article{Montoya_2025,
-  author  = {Katherine I. Montoya and Erik G. Herbert and Danny P. Schappel and Tyler J. Gerczak and Christian M. Petrie and Andrew T. Nelson and Tyler J. Gerczak},
-  title   = {{Micromechanical response of SiC-OPyC layers in TRISO fuel particles}},
-  journal = {Journal of Nuclear Materials},
-  month   = jan,
-  year    = 2025,
-  pages   = {155654 (xx pages)},
-  note    = {\url{https://doi.org/10.1016/j.jnucmat.2025.155654}}
-}
-
 % MOOSE
 % This is a conference paper from PHYSOR 2024
 @Article{Jaradat_2024c,
@@ -81,15 +67,15 @@ @Article{Mostafavi_2025
   note    = {\url{https://doi.org/10.1016/j.jcp.2025.113755}}
 }
 
-% Maybe MOOSE
-% Requested full-text on ResearchGate
+% MOOSE/BlackBear
+% "... these models were implemented in BlackBear ... which is a code based on ... (MOOSE) ..."
 @Article{Jain_2025,
   author  = {Amit Jain and Benjamin W. Spencer and Albert Dahal and Sudipta Biswas and Somayajulu L. N. Dhulipala},
   title   = {Multiphysics simulation of recent experiments on alkali-silica reaction expansion in reinforced concrete members},
   journal = {Structural Concrete},
   month   = jan,
   year    = 2025,
-  note    = {\url{https://doi.org/10.1002/suco.202400893}}
+  note    = {\url{https://doi.org/10.1002/suco.202400893}, engr$\chi$iv e-print: \url{https://doi.org/10.31224/3951}}
 }
 
 % libMesh/RMC
diff --git a/doc/citations/twentyfive.bib b/doc/citations/twentyfive.bib
@@ -1,3 +1,66 @@
+% MOOSE
+% "In the final step, the trained DNN acts as a surrogate model within the FEM framework in ... (MOOSE)."
+% https://www.christianpeco.com/uploads/2/3/6/1/23617100/a_bio-lattice_deep_learning_framework_for_modeling_discrete_biological_materials.pdf
+@Article{Kumar_2025,
+  author  = {Manik Kumar and Nilay Upadhyay and Shishir Barai and Wesley F. Reinhart and Christian Peco},
+  title   = {A bio-lattice deep learning framework for modeling discrete biological materials},
+  journal = {Journal of the Mechanical Behavior of Biomedical Materials},
+  month   = apr,
+  year    = 2025,
+  volume  = 164,
+  pages   = {106900 (xx pages)},
+  note    = {\url{https://doi.org/10.1016/j.jmbbm.2025.106900}, Preprint: \url{https://tinyurl.com/57atznp8}}
+}
+
+% MOOSE/fluid_properties
+@Article{Giudicelli_2025,
+  author  = {Guillaume Giudicelli and Christopher Green and Joshua Hansel and David Andrs and April Novak and Sebastian Schunert and Benjamin Spaude and Steven Isaacs and Matthias Kunick and Robert Salko and Shane Henderson and Lise Charlot and Alexander Lindsay},
+  title   = {{The MOOSE fluid properties module}},
+  journal = {Computer Physics Communications},
+  month   = feb,
+  year    = 2025,
+  volume  = 307,
+  pages   = {109407 (xx pages)},
+  note    = {\url{https://doi.org/10.1016/j.cpc.2024.109407}}
+}
+
+% MOOSE/Pronghorn
+% "The first part of the article describes the ... turbulence models recently introduced to Pronghorn in ... (MOOSE)."
+@Article{Freile_2025,
+  author  = {Ramiro Freile and Peter German and Mauricio Tano},
+  title   = {{Evaluating turbulence modeling for thermal-hydraulics analysis of molten salt reactors}},
+  journal = {Nuclear Engineering and Design},
+  month   = feb,
+  year    = 2025,
+  volume  = 432,
+  pages   = {113787 (xx pages)},
+  note    = {\url{https://doi.org/10.1016/j.nucengdes.2024.113787}}
+}
+
+% MOOSE
+% "The order parameters ... are generated using ... MOOSE ..."
+@Misc{Kadambi_2025,
+  author       = {Sourabh Bhagwan Kadambi and Daniel Schwen and Jia-Hong Ke and Lingfeng He and Andrea M. Jokisaari},
+  title        = {{Phase-field modeling of radiation-induced composition redistribution: An application to additively manufactured austenitic Fe-Cr-Ni}},
+  month        = jan,
+  year         = 2025,
+  howpublished = {ArXiv e-print},
+  note         = {\url{https://arxiv.org/abs/2501.17154}}
+}
+
+% MOOSE
+% "An open-source platform, ... (MOOSE), is used to as an enable [sic] tool ..."
+@Article{XZhou_2025,
+  author  = {Xiaoming Zhou and Yongchao Liu and Manthar Ali and Min He},
+  title   = {A multilevel-multiphysics modeling and simulation approach for multichip electronics},
+  journal = {Applied Thermal Engineering},
+  month   = may,
+  year    = 2025,
+  volume  = 266,
+  pages   = {125738 (xx pages)},
+  note    = {\url{https://doi.org/10.1016/j.applthermaleng.2025.125738}}
+}
+
 % MOOSE/BISON
 % "The SIFGRS model in BISON ... is utilized here to provide the intra- and inter-granular fission gas bubble behavior ..."
 @Article{Rizk_2025,
@@ -144,6 +207,19 @@ @Article{Pai_2025
   note    = {\url{https://doi.org/10.1016/j.ijplas.2024.104228}}
 }
 
+% BISON/MARMOT
+% "A mechanistic multiscale model utilizing the ... MARMOT and BISON codes was developed ..."
+@Article{Hirschhorn_2025b,
+  author  = {J. A. Hirschhorn and L. K. Aagesen and C. Jiang and G. L. {Beausoleil II}},
+  title   = {Development and preliminary validation of a mechanistic multiscale model for fuel-cladding chemical interaction in metallic nuclear fuels},
+  journal = {Nuclear Engineering and Design},
+  month   = feb,
+  year    = 2025,
+  volume  = 432,
+  pages   = {113811 (xx pages)},
+  note    = {\url{https://doi.org/10.1016/j.nucengdes.2024.113811}}
+}
+
 % BISON/Griffin
 % "The MOOSE MultiApp system was used to position a single TRISO particle at the center of the smeared compact ..."
 @Article{Hirschhorn_2025,
diff --git a/doc/citations/twentyfour.bib b/doc/citations/twentyfour.bib
@@ -649,9 +649,9 @@ @Article{Davey_2024
 
 % libMesh/IBAMR
 % "All computations for were completed through IBAMR... IBAMR uses other libraries ... including ... libMesh"
-% author:facci author:koladouz immersed interface
+% author:facci author:kolahdouz immersed interface
 @Misc{Sacci_2024,
-  author       = {Michael J. Facci and Ebrahim M. Koladouz and Boyce E. Griffith},
+  author       = {Michael J. Facci and Ebrahim M. Kolahdouz and Boyce E. Griffith},
   title        = {An immersed interface method for incompressible flows and geometries with sharp features},
   month        = oct,
   year         = 2024,
@@ -991,18 +991,6 @@ @Misc{Dahal_2024
   note         = {\url{https://doi.org/10.31224/4042}}
 }
 
-% MOOSE/BlackBear
-% "... these models were implemented in BlackBear ... which is a code based on ... (MOOSE) ..."
-% author:jain author:spencer author:dahal multiphysics simulation
-@Misc{Jain_2024,
-  author       = {Amit Jain and Benjamin Spencer and Albert Dahal and Sudipta Biswas and Somayajulu Dhulipala},
-  title        = {Multiphysics simulation of recent experiments on alkali-silica reaction expansion in reinforced concrete members},
-  month        = sep,
-  year         = 2024,
-  howpublished = {engr$\chi$iv e-print},
-  note         = {\url{https://doi.org/10.31224/3951}}
-}
-
 % MOOSE
 % "The fatigue-damage model was implemented using the MOOSE ... framework ..."
 @Article{DTian_2024,
diff --git a/doc/statistics/cloc_libmesh.py b/doc/statistics/cloc_libmesh.py
@@ -299,6 +299,8 @@
     '2024-10-04', 968, 232334, # a4553c26
     '2024-11-04', 977, 233532, # 57282298
     '2024-12-04', 977, 233214, # 9b8e371f
+# 2025
+    '2025-01-04', 978, 233494, # 5990e6e3
 ]
 
 # Extract the dates from the data array
diff --git a/doc/statistics/github_traffic_plotclones.csv b/doc/statistics/github_traffic_plotclones.csv
@@ -3826,4 +3826,11 @@
 2025-Jan-24,19,14
 2025-Jan-25,9,8
 2025-Jan-26,5,3
-2025-Jan-27,2,2
+2025-Jan-27,20,14
+2025-Jan-28,16,13
+2025-Jan-29,17,15
+2025-Jan-30,109,56
+2025-Jan-31,53,37
+2025-Feb-01,32,23
+2025-Feb-02,14,9
+2025-Feb-03,13,13
diff --git a/doc/statistics/github_traffic_plotviews.csv b/doc/statistics/github_traffic_plotviews.csv
@@ -3995,4 +3995,11 @@
 2025-Jan-24,144,20
 2025-Jan-25,29,9
 2025-Jan-26,49,14
-2025-Jan-27,20,11
+2025-Jan-27,224,31
+2025-Jan-28,112,22
+2025-Jan-29,131,35
+2025-Jan-30,155,43
+2025-Jan-31,118,21
+2025-Feb-01,21,9
+2025-Feb-02,97,14
+2025-Feb-03,18,10
diff --git a/doc/statistics/libmesh_citations.py b/doc/statistics/libmesh_citations.py
@@ -45,9 +45,9 @@
 '\'20', 190,
 '\'21', 215,
 '\'22', 239,
-'\'23', 235,
+'\'23', 237,
 '\'24', 243,
-'\'25', 21,
+'\'25', 38,
     ]
 
 # Parse command line args
diff --git a/doc/statistics/libmesh_citations_monthly.py b/doc/statistics/libmesh_citations_monthly.py
@@ -242,6 +242,7 @@
   '2024-11-01', 204,
   '2024-12-01', 224,
   '2025-01-01', 243, # new year
+  '2025-02-01', 243,
 ]
 
 # 2025 monthly publication totals (first of each month)
@@ -251,6 +252,7 @@
   '2024-11-01', 8,
   '2024-12-01', 13,
   '2025-01-01', 21, # new year
+  '2025-02-01', 38,
 ]
 
 """
@@ -290,6 +292,7 @@ def plot_one_year(year, data, color):
 plot_one_year(2022, pub_2022, 'k')
 plot_one_year(2023, pub_2023, muted_grey)
 plot_one_year(2024, pub_2024, muted_yellow)
+plot_one_year(2025, pub_2025, muted_brown)
 
 # Label beginning and end of year.
 ax1.set_xticks([0, 12])
diff --git a/doc/statistics/libmesh_mailinglists.py b/doc/statistics/libmesh_mailinglists.py
@@ -182,6 +182,7 @@
     'Nov 2024', 46, 130,
     'Dec 2024', 46, 130,
     'Jan 2025', 46, 130,
+    'Feb 2025', 46, 130,
 ]
 
 # Strip out the dates from membership_data
@@ -280,6 +281,7 @@
     '2022',    0,   0,   0,   0,   0,   0,   0,   0,   0,   0,   0,   0,
     '2023',    0,   0,   0,   0,   0,   0,   0,   0,   0,   0,   0,   0,
     '2024',    0,   0,   0,   0,   0,   0,   0,   0,   0,   0,   0,   0,
+    '2025',    0,
 ]
 
 # libmesh-users starts in Sept 2003!
@@ -308,6 +310,7 @@
     '2022',    0,   0,   2,   8,   0,   0,   0,   3,   0,   3,   0,   0,
     '2023',    2,   0,   0,   0,   0,   0,   0,   7,   3,   0,   0,   1,
     '2024',    0,   0,   0,   0,   0,   0,   0,   0,   0,   0,   0,   0,
+    '2025',    0,
 ]
 
 # Make plot of monthly data
@@ -398,15 +401,15 @@
 # Plot the libmesh-devel data alone
 ax.bar(x, devel_numbers, width, color=secondary, label='libmesh-devel')
 
-# Set bi-yearly xticklabels
-year_labels = ['2003', '2005', '2007', '2009', '2011', '2013', '2015', '2017', '2019', '2021', '2023']
+# Set xticklabels year strings
+year_labels = ['2003', '2007', '2011', '2015', '2019', '2023']
 
 # Set up the corresponding tick locations. This starting point was chosen by
 # trial and error because it lined up the tick marks fairly well, but I don't
 # understand the logic behind it.
 xticks = [.55]
 for i in range(1, len(year_labels)):
-  xticks.append(xticks[i-1] + 24) # 2 years = 24 months
+  xticks.append(xticks[i-1] + 48) # 2 years = 24 months
 
 # Center the ticks slightly
 xticks = [x+width/2. for x in xticks]

Original file line number	Diff line number	Diff line change
`@@ -299,6 +299,8 @@`
`299`	`299`	`'2024-10-04', 968, 232334, # a4553c26`
`300`	`300`	`'2024-11-04', 977, 233532, # 57282298`
`301`	`301`	`'2024-12-04', 977, 233214, # 9b8e371f`
	`302`	`+# 2025`
	`303`	`+ '2025-01-04', 978, 233494, # 5990e6e3`
`302`	`304`	`]`
`303`	`305`
`304`	`306`	`# Extract the dates from the data array`