Add publication page generation (#20)

Project.toml

@@ -1,4 +1,5 @@
 [deps]
+Bibliography = "f1be7e48-bf82-45af-a471-ae754a193061"
 Franklin = "713c75ef-9fc9-4b05-94a9-213340da978e"
 NodeJS = "2bd173c7-0d6d-553b-b6af-13a54713934c"
 TOML = "fa267f1f-6049-4f14-aa54-33bafae1ed76"

_data/publications.bib

@@ -0,0 +1,68 @@
+% Some mandatory keys (apart from the obvious):
+%  - `url`: Use to provide a link to accessing the paper in open-access form
+%           (e.g. arxiv, link to pdf on preprint server etc.).
+%  - `year` `month` and `day` are used for ordering the entries
+%  - `note`: Needs to be non-empty for unpublished items for reasons
+%            of technical limitations
+% Optional keys:
+%  - `code`: Use to provide link to github repo or similar containing reproducer
+%  - `data`: Use to provide link where data required for the study is available
+
+
+%
+% Preprints
+%
+@unpublished{Nottoli2024ddx,
+  title   = {DDX: Polarizable continuum solvation from small molecules to
+             proteins},
+  author  = {Nottoli, Michele and Herbst, Michael F and Mikhalev, Aleksandr
+             and Jha, Abhinav and Lipparini, Filippo and Stamm, Benjamin},
+  url     = {https://doi.org/10.26434/chemrxiv-2024-787rx-v2},
+  year    = {2024},
+  month   = {2},
+  day     = {1},
+  note    = {Unpublished},
+}
+
+%
+% Peer-reviewed publications
+%
+@article{Fisher2024multitask,
+  title   = {Multitask methods for predicting molecular properties from heterogeneous data},
+  author  = {Fisher, Katharine Fisher and Herbst, Michael F and Marzouk, Youssef},
+  url     = {http://arxiv.org/abs/2401.17898},
+  year    = {2024},
+  journal = {Journal of Chemical Physics},
+  month   = {7},
+  day     = {1},
+}
+@article{Brehmer2023reduced,
+  title   = {Reduced basis surrogates for quantum spin systems based on tensor networks},
+  author  = {Brehmer, Paul and Herbst, Michael F. and Wessel, Stefan and Rizzi, Matteo and Stamm, Benjamin},
+  journal = {Physical Review E},
+  volume  = {108},
+  pages   = {025306},
+  year    = {2023},
+  month   = {7},
+  day     = {30},
+  doi     = {10.1103/PhysRevE.108.025306},
+  url     = {http://arxiv.org/abs/2304.13587},
+}
+@article{Cances2023response,
+  author  = {Cancès, Eric and Herbst, Michael F. and Kemlin, Gaspard and Levitt, Antoine and Stamm, Benjamin},
+  journal = {Letters in Mathematical Physics},
+  pages   = {21},
+  title   = {Numerical stability and efficiency of response property calculations in density functional theory},
+  code    = {https://github.com/gkemlin/response-calculations-metals},
+  volume  = {113},
+  year    = {2023},
+  month   = {01},
+  day     = {12},
+  doi     = {10.1007/s11005-023-01645-3},
+  url     = {https://arxiv.org/abs/2210.04512},
+}
+
+
+%
+% Other articles
+%

publications.md

@@ -2,10 +2,7 @@
 
 # Publications
 
-- Michele Nottoli, **Michael F. Herbst**, Aleksandr Mikhalev, Abhinav Jha, Filippo Lipparini and Benjamin Stamm. [*ddX: Polarizable Continuum Solvation from Small Molecules to Proteins*](https://doi.org/10.26434/chemrxiv-2024-787rx). [DOI 10.26434/chemrxiv-2024-787r](https://doi.org/10.26434/chemrxiv-2024-787rx)
-- Katharine Fisher, **Michael F. Herbst**, Youssef Marzouk. [*Multitask methods for predicting molecular properties from heterogeneous data*](https://arxiv.org/pdf/2401.17898). Journal of Chemical Physics (2024). [arXiv:2401.17898](https://arxiv.org/abs/2401.17898)
-- Paul Brehmer, **Michael F. Herbst**, Stefan Wessel, Matteo Rizzi and Benjamin Stamm. [*Reduced basis surrogates for quantum spin systems based on tensor networks.*](https://michael-herbst.com/publications/2023.05.12_rbm_dmrg.pdf) Physical Review E **108**, 025306 (2023). [arXiv:2304.13587](https://arxiv.org/abs/2304.13587)
-
+{{allpublications}}
 
 \newline
 For older publications of Michael Herbst

utils.jl

@@ -1,6 +1,12 @@
 using TOML
+using Bibliography
+using Bibliography: BibInternal
 using Markdown: htmlesc
 
+#
+# Email protection
+#
+
 """Insert a javascript blob for assembling emails"""
 function hfun_email_unprotect_js()
     return """<script>
@@ -19,6 +25,9 @@ function protected_email_link(email::AbstractString)
 end
 hfun_protect_email(params) = protected_email_link(params[1])
 
+#
+# News
+#
 
 """Get all news sorted by publication date"""
 function news_sorted()
@@ -121,6 +130,10 @@ function hfun_newsheader()
     end
 end
 
+#
+# People list
+#
+
 function normalised_from_email(s::AbstractString)
     @assert endswith(s, "@epfl.ch")
     beginning  = split(s, "@")[1]
@@ -240,3 +253,62 @@ function hfun_people_table()
 
     String(take!(io))
 end
+
+#
+# Publications
+#
+
+
+function format_bibentry(entry::BibInternal.Entry)
+    @assert entry.type == "article" || entry.type == "unpublished"
+    io = IOBuffer()
+
+    # TODO Highlight authors from my group
+
+    # Format authors
+    function format_name(s)
+        join(filter(!isempty, [s.first, s.middle, s.particle, s.last, s.junior]), " ")
+    end
+    join(io, format_name.(entry.authors), ", ", " and ")
+    print(io, ". ")
+    print(io, "*[$(entry.title)]($(entry.access.url))*. ")
+
+    if !isempty(entry.in.journal)
+        # Published article
+        print(io, entry.in.journal, " ")
+        if !isempty(entry.in.volume) && !isempty(entry.in.pages)
+            print(io, "**", entry.in.volume, "**, $(entry.in.pages) ")
+        end
+        print(io, "(", entry.date.year, ").")
+    end
+
+    if !isempty(entry.access.doi)
+        print(io, " [DOI $(entry.access.doi)](https://doi.org/$(entry.access.doi))")
+    end
+
+    # TODO Code, data etc.
+
+    String(take!(io))
+end
+
+function hfun_allpublications()
+    biblio = collect(values(Bibliography.import_bibtex("_data/publications.bib")))
+    biblio = sort(biblio, by=e -> Date(
+        parse(Int, e.date.year),
+        parse(Int, e.date.month),
+        parse(Int, e.date.day),
+    ), rev=true)
+    io = IOBuffer()
+
+    println(io, "## Under review")
+    for entry in filter(e -> e.type == "unpublished", biblio)
+        println(io, "- ", format_bibentry(entry))
+    end
+
+    println(io, "## Peer-reviewed articles")
+    for entry in filter(e -> e.type == "article", biblio)
+        # TODO Improve
+        println(io, "- ", format_bibentry(entry))
+    end
+    Franklin.fd2html(String(take!(io)); internal=true)
+end