Add orcid, ror and license

.github/workflows/draft.yml

@@ -0,0 +1,18 @@
+name: Create Preview Draft from PR
+on:
+  pull_request:
+    branches: ['main']
+permissions:
+  contents: read
+  pull-requests: write
+jobs:
+  draft:
+    uses: curvenote/actions/.github/workflows/draft.yml@v1
+    with:
+      venue: microscopy
+      kind: article
+      collection: articles
+      id-pattern-regex: '^msa-em-[a-zA-Z0-9_-]{1,30}$'
+    secrets:
+      CURVENOTE: ${{ secrets.CURVENOTE_TOKEN }}
+      GITHUB: ${{ secrets.GITHUB_TOKEN }}

.github/workflows/submit.yml

@@ -0,0 +1,17 @@
+name: Create Submission from Main
+on:
+  push:
+    branches: ['main']
+permissions:
+  contents: write
+jobs:
+  submit:
+    uses: curvenote/actions/.github/workflows/submit.yml@v1
+    with:
+      venue: microscopy
+      kind: article
+      collection: articles
+      id-pattern-regex: '^msa-em-[a-zA-Z0-9_-]{1,30}$'
+    secrets:
+      CURVENOTE: ${{ secrets.CURVENOTE_TOKEN }}
+      GITHUB: ${{ secrets.GITHUB_TOKEN }}

03_derivations.md

@@ -950,6 +950,7 @@ dislocation microstructures in three dimensions {cite:p}`liu2011three, hata2020e
 
 :::{figure} #app:AgAu_tilt_series
 :name: fig21_interactive
+:placeholder: images/ag-au-interactive.png
 Tilt series collected across a Ag-Au grain boundary
 exhibiting void evolution ahead of an stress corrosion cracking (SCC)
 tip in the binary alloy {cite:p}`badwe2018decoupling`.

04_applications.md

@@ -171,6 +171,7 @@ beneficial to understanding crystallographic data of an unknown sample.
 
 :::{figure} #app:superellipse
 :name: fig29
+:placeholder: images/superellipse.png
 
 Double tilt stage limits as calculated through a
 squircle (superellipse) estimation using various r values.

main.bib

@@ -15,7 +15,7 @@ @article{alam1954high
   volume={221},
   pages={224--242},
   year={1954},
-  doi={https://10.1098/rspa.1954.0017}
+  doi={https://doi.org/10.1098/rspa.1954.0017}
 }
 
 @book{aroyo2016international,
@@ -125,7 +125,6 @@ @article{Cole2015
 year = "2015",
 month = "6",
 url = "https://repository.lboro.ac.uk/articles/thesis/Modelling_CPV/9523520",
-doi={https://repository.lboro.ac.uk/articles/thesis/Modelling_CPV/9523520?fbclid=IwAR3vekW7G3j4FAvlvNrkupa5WrL6mGQi7I8dIsf5FoYtyZPxan7cXJ0-UQs}
 }
 
 @book{council1995global,
@@ -331,7 +330,7 @@ @article{li2016spica
   volume={49},
   pages={1818--1826},
   year={2016},
-  doi={ https://doi.org/10.1107/S1600576716011109}
+  doi={https://doi.org/10.1107/S1600576716011109}
 }
 
 @article{lidke2012advances,
@@ -363,7 +362,7 @@ @article{liu1994simple
   number={4},
   pages={755--761},
   year={1994},
-  doi={ https://doi.org/10.1107/S0021889894002062}
+  doi={https://doi.org/10.1107/S0021889894002062}
 }
 
 @article{liu1995simple,
@@ -407,7 +406,7 @@ @article{midgley2015precession
   number={2},
   pages={126--136},
   year={2015},
-  doi={https://doi/org/10.1107/S2052252514022283}
+  doi={https://doi.org/10.1107/S2052252514022283}
 }
 
 @article{moeck2006transmission,
@@ -433,7 +432,7 @@ @article{olszta2014high
   author={Olszta, M and Schreiber, DK and Bruemmer, SM},
   journal={NACE - International Corrosion Conference Series},
   year={2014},
-  doi={https://onepetro.org/NACECORR/proceedings-abstract/CORR14/All-CORR14/NACE-2014-4251/123100}
+  url={https://onepetro.org/NACECORR/proceedings-abstract/CORR14/All-CORR14/NACE-2014-4251/123100}
 }
 
 @article{olszta2022stage,
@@ -697,7 +696,7 @@ @article{zhang2018atomic
   pages={675--679},
   year={2018},
   publisher={Nature Publishing Group},
-  doi={https://doi.org/DOI: 10.1126/science.aao0865}
+  doi={https://doi.org/10.1126/science.aao0865}
 }
 
 @article{zhu2018towards,

myst.yml

@@ -1,19 +1,33 @@
 # See docs at: https://myst-tools.org/docs/mystjs/frontmatter
 version: 1
 project:
+  id: msa-em-nanocartography
+  doi: 10.69761/DNKA1581
   title: 'Nanocartography: Planning for success in analytical electron microscopy'
   short_title: Nanocartography
+  description: With the increasing diversity in material systems, ever-expanding number of analysis techniques, and the large capital costs of next generation instruments the ability to quickly and efficiently collect data in the electron microscope has become paramount to successful data analysis.
+  banner: banner.png
+  thumbnail: thumbnail.webp
   authors:
     - name: Matthew J Olszta
-      affiliation: Pacific Northwest National Laboratory, Richland, WA 99354, USA
+      affiliations:
+        - name: Pacific Northwest National Laboratory, Richland, WA 99354, USA
+          ror: 05h992307
       phone: (509) 371-7217
       fax: (509) 375-3033
       email: [email protected]
     - name: Kevin R Fiedler
-      affiliation: Washington State University, Tri-Cities, Richland, WA, 99354, USA
+      orcid: 0000-0002-9656-7663
+      affiliations:
+        - name: Washington State University, Tri-Cities, Richland, WA, 99354, USA
+          ror: 05dk0ce17
+  funding:
+    - statement: Pacific Northwest National Laboratory is a multiprogram national laboratory operated by Battelle for the U.S. Department of Energy under contract DEAC05-76RL01830.
+      id: DEAC05-76RL01830
+      source:
+        - name: U.S. Department of Energy Office of Science, Basic Energy Sciences, Materials Sciences and Engineering Division
+          doi: 10.13039/100000015
   keywords: []
-  # github:
-  # bibliography: []
   numbering:
     heading_2: true
     heading_3: true
@@ -44,18 +58,9 @@ project:
     XEDS: x-ray energy-dispersive Spectroscopy
     IPF: inverse pole figure
     DOE: Department of Energy
-  thebe:
-      server: true
+  github: https://github.com/msa-em/nanocartography
+  jupyter: true
+  open_access: true
+  license: CC-BY-4.0
 site:
   template: book-theme
-  title: Nanocartography
-  logo_text: Nanocartography
-  nav: []
-  projects:
-      - slug: myst
-        path: .
-  actions:
-    - title: Learn More
-      url: https://myst-tools.org/docs/mystjs
-  domains: []
-