diff --git a/docs/_build/doctrees/environment.pickle b/docs/_build/doctrees/environment.pickle index 21153166c98617c5bf047095598bbed607431e5f..b7ab6759d69adcb7655b9c813c812205028fce81 100644 Binary files a/docs/_build/doctrees/environment.pickle and b/docs/_build/doctrees/environment.pickle differ diff --git a/docs/_build/doctrees/index.doctree b/docs/_build/doctrees/index.doctree index 34eccbbd16af51ec7b9ec658e41a7cd1f8858e83..fcae77ed1e84bf5e488047d5a1ae225a1cf211cb 100644 Binary files a/docs/_build/doctrees/index.doctree and b/docs/_build/doctrees/index.doctree differ diff --git a/docs/_build/html/index.html b/docs/_build/html/index.html index 1da8f580f7bd0a22f0573e229fd94a68cecb2125..ccac708d9930dd98adfc779e2126beacbee40cb1 100644 --- a/docs/_build/html/index.html +++ b/docs/_build/html/index.html @@ -137,6 +137,7 @@ <ul> <li class="toctree-l1"><a class="reference internal" href="contributors/contributors.html">For Contributors</a><ul> <li class="toctree-l2"><a class="reference 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Contributors","Editorial Administrators","Production of SciPost Publications","Submission processing","SciPost codebase","Models","Views","For Developers","Maintenance of SciPost documentation","Maintenance","Welcome to SciPost’s documentation!"],titleterms:{"final":2,"public":2,"static":8,administr:1,assignment:3,check:[2,3],cite:2,codebas:4,complianc:3,contributor:0,crossref:[2,3],develop:7,doc:8,document:[8,10],doi:[2,3],dure:3,editori:1,file:[2,8],folder:2,format:2,gener:8,handl:[],html:8,implement:[],indice:10,latex:2,mainten:[2,8,9],metadata:2,model:5,onlin:8,online:2,org:2,plagiar:3,pre:3,prepar:2,problem:2,process:3,product:2,proof:2,record:2,refer:2,refere:3,registr:2,requir:3,retriev:2,scipost:[2,4,8,10],screen:3,sourc:2,sphinx:8,sphinxdoc:8,style:[],submiss:3,tabl:10,updat:2,update:8,upload:2,valid:[],version:2,view:6,viewabl:8,welcom:10}}) \ No newline at end of file diff --git a/docs/contributors/editorial_administrators/editorial_administrators.rst b/docs/contributors/editorial_administrators/editorial_administrators.rst index 03174bbbdd6e1706baabbefc4e254d7cec4db835..91bc36a4b50d19296979921e9694b984118b9824 100644 --- a/docs/contributors/editorial_administrators/editorial_administrators.rst +++ b/docs/contributors/editorial_administrators/editorial_administrators.rst @@ -5,4 +5,5 @@ Editorial Administrators .. toctree:: :maxdepth: 2 + submission_processing production diff --git a/docs/contributors/editorial_administrators/production.rst b/docs/contributors/editorial_administrators/production.rst index 007a48c52d92d72e7dc96fcd2b130155cbaf7302..b28952cf43ab7d4b5fd21e88880904c59846d59b 100644 --- a/docs/contributors/editorial_administrators/production.rst +++ b/docs/contributors/editorial_administrators/production.rst @@ -6,43 +6,362 @@ Production of SciPost Publications This guide is meant for **Editorial Administrators** and **Production Officers**. It describes the post-acceptance workflow from paper acceptance to publication. +Formatting check +---------------- + + If the Submission's references are not properly formatted, + and/or if these do not include the required DOIs, + the authors should be emailed and asked to do so, + by providing either the ``.bbl`` file or the ``.bib`` source. + + Source retrieval and folder preparation --------------------------------------- -#. On the SciPost server, navigate to folder ``[Journal full name]/IN PRODUCTION``. -#. Create a folder ``[journal abbrev. name]_[arxiv identifier]_[first author last name]``, e.g. ``SciPost_Phys_1604.98141v3_Smart``. -#. Save the source from arXiv into this folder. -#. NOTE: the file will be named ``####.#####v#``, which is not recognized as a ``.tar.gz`` file on a UNIX system. -#. Rename the file ``####.####v#.tar.gz``. Unzipping it produces the folder ``####.#####v#``. -#. Copy the files in ``[Journal full name]/v##_production/FILES_TO_COPY_IN_PAPER_DIR`` to the paper-in-production’s folder. There are 4 files: ``by.eps, logo_scipost_with_bgd.pdf, SciPost_bibstyle.bst, SciPost.cls``. -#. Copy all the paper’s sources one level down (so from ``####.#####v#`` to the current directory). -#. Copy the ``.tex`` source to a new file using the name convention ``[Journal abbrev. name]_####_#####v#_[first author last name].tex`` (careful: use underscore instead of . between numbers). + #. On the SciPost server, navigate to folder + ``[Journal full name]/IN PRODUCTION``. + #. Create a folder + ``[journal abbrev. name]_[arxiv identifier]_[first author last name]``, + e.g. ``SciPost_Phys_1604.98141v3_Smart``. + #. Save the source from arXiv into this folder. + #. NOTE: the file will be named ``####.#####v#``, which is not recognized + as a ``.tar.gz`` file on a UNIX system. Rename the file + ``####.####v#.tar.gz``. Unzip it to produce the folder ``####.#####v#``. + #. Copy all the paper’s sources one level down (so from ``####.#####v#`` to + the current directory). + #. Copy the files in + ``[Journal full name]/v##_production/FILES_TO_COPY_IN_PAPER_DIR`` + to the current directory. There are 5 files: + + * ``by.eps`` + * ``logo_scipost_with_bgd.pdf`` + * ``SciPost_bibstyle.bst`` + * ``SciPost.cls`` + * ``SciPost_Phys_Skeleton.tex`` + + #. Copy the skeleton ``.tex`` source to a new file using the name convention + ``[Journal abbrev. name]_####_#####v#_[first author last name].tex`` + (careful: use underscore instead of . between numbers). LaTeX file preparation ---------------------- + The next step is to transfer the submission's LaTeX contents into the final file. -Handling references -~~~~~~~~~~~~~~~~~~~ + All steps involed appear in the skeleton ``.tex`` source in the form ``%%%%%%%%%% TODO: [TOKEN]`` opening marked, followed by a corresponding ``%%%%%%%%%% END TODO: [TOKEN]`` marker. -Implementing the SciPost style -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + During the file preparation, if there is anything worth noting about the + production process, please include this in a:: + + %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% + % Production Notes + % [your name here] + % + % [your notes here] + %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% + + block at the beginning of the document, just before the ``\documentclass`` declaration. + + + #. TODO: PAPER CITATION 1 and 2 + + In these two places, fill the missing numbers in the citation header:: + + \rhead{\small \href{https://scipost.org/SciPostPhys.?.?.???}{SciPost Phys. ?, ??? (20??)}} + + + The first argument of the ``href`` is the simple permanent URL for the publication. This includes 3 numbers: the volume number, issue, and three-digit paper number, for example ``SciPostPhys.1.2.011``. At this stage, leave the paper number to ``???``: this number will be assigned and filled in in the last stage of production. + + The second argument to the ``href`` uses the simple citation, dropping the issue number, for example ``SciPostPhys. 1, 011 (2016)``. + + + #. TODO: PACKAGES + + The ``SciPost.cls`` (v1b) class definition requires the following packages: + + * amsmath [NOTE: amsmath, amssymb are redundant and clash with mathdesign] + * cite + * doi + * fancyhdr + * geometry + * graphicx + * hyperref + * inputenc + * lineno [for proofs only] + * titlesec + * tocloft, nottoc,notlot,notlof + * xcolor + + If the authors are using extra packages not already in the list above, + you should paste their list within this TODO block. + + Any package originally included by the authors which you do **not** + include should be commented out with a ``% REMOVED IN PROD`` + comments prepended. + + + #. TODO: COMMANDS + + If the authors have redefined commands, paste the redefinitions in this block. + + + #. Removal of extras + + Strip out other size, length etc. redefinitions by the authors. + + Remove any ``\date``. + + + #. TODO: TITLE + + The title is enclosed in:: + + \begin{center}{\Large \textbf{\color{scipostdeepblue}{ + [title] + }}}\end{center} + + Paste the title in this block. If the title is multiline, end it with ``\\`` + in order to ensure proper uniform spacing between the lines. + + + #. TODO: AUTHORS + + Put the author names in textbf. No ``comma`` but rather an ``and`` before + the last author. If multiple authors and affiliations, use ``\textsuperscript`` + and positive integer labels, with a ``*`` for the corresponding author. + + + #. TODO: AFFILIATIONS + + If there are many affiliations, each is prepended by the appropriate + ``{\bf [nr]}\ ``. Separate affiliations ``\\``. + + Put a ``\\[\baselineskip]`` after the affiliations. + + + #. TODO: EMAIL (OPTION) + + Optionally, provide the email of the corresponding author using:: + + ``\href{mailto:[email]}{\small \sf [email]}`` + + prepended with ``*`` if corresponding author. If a web link is offered, + use the format ``{\small \url{[url]}}``. + + + #. TODO: ABSTRACT + + Paste the abstract in the provided block:: + + \section*{\color{scipostdeepblue}{Abstract}} + {\bf + [abstract] + } + + + #. TODO: TOC + + As a general guideline, the paper should contain a table of contents + if it has more than 6 pages. + + + #. TODO: COPYRIGHT + + Include the first author's initials and family name in the copyright + statement. + + + #. TODO: DATES + + Fill in the appropriate received and accepted dates in + format ``DD-MM-YYYY``. The published date will be filled in later on. + + + #. TODO: DOI + + Provide the volume and issue numbers (two places) in the DOI specifier. + The paper number will be assigned in the final stage of production. + + + #. TODO: LINENO + + During proofs stage, activate line numbers. + + + #. TODO: CONTENTS + Paste the entire bulk of the paper in this block, + including all sections and eventual appendices. + + + #. TODO: BIBNR + + If the bibliography contains more than 100 entries, use + ``999`` instead of ``99`` in the ``\begin{thebibliotraphy}{[nr]}`` + statement. + + + #. TODO: BBL + + The references are explicitly pasted into this block. + If BiBTeX was used, the contents of the ``.bib`` file are pasted here. + + +Problems +~~~~~~~~ + + * package ``lineno`` and ``amsmath`` are incompatible + + Problem: line numbers don't appear when paragraph is followed by align etc. + + Solution: [from `this link <http://phaseportrait.blogspot.nl/2007/08/lineno-and-amsmath-compatibility.html>`_]: paste this in the preamble:: + + {\small + \begin{verbatim} + %% Patch lineno when used with amsmaths + \newcommand*\patchAmsMathEnvironmentForLineno[1]{% + \expandafter\let\csname old#1\expandafter\endcsname\csname #1\endcsname + \expandafter\let\csname oldend#1\expandafter\endcsname\csname end#1\endcsname + \renewenvironment{#1}% + {\linenomath\csname old#1\endcsname}% + {\csname oldend#1\endcsname\endlinenomath}}% + \newcommand*\patchBothAmsMathEnvironmentsForLineno[1]{% + \patchAmsMathEnvironmentForLineno{#1}% + \patchAmsMathEnvironmentForLineno{#1*}}% + \AtBeginDocument{% + \patchBothAmsMathEnvironmentsForLineno{equation}% + \patchBothAmsMathEnvironmentsForLineno{align}% + \patchBothAmsMathEnvironmentsForLineno{flalign}% + \patchBothAmsMathEnvironmentsForLineno{alignat}% + \patchBothAmsMathEnvironmentsForLineno{gather}% + \patchBothAmsMathEnvironmentsForLineno{multline}% + } + %% End patch lineno + + + * Breaking of in-line math equations + + Simply prevent by forcing equations into a math atom by surrouding them with braces,:: + + \begin{verbatim} + Here is an equation that shouldn't be broken: ${E=mc^2}$. + \end{verbatim} + + + * package ``MnSymbol`` is problematic and clashes with amsmath. + + One solution is to import individual symbols according to these + `instructions <http://tex.stackexchange.com/questions/36006/importing-single-symbol-from-mnsymbol>`_. + + +References formatting +~~~~~~~~~~~~~~~~~~~~~ + + References should be in the following format: + + Things to ensure: + + * Author names are in comma-separated list with format [initials] [last name]. + + * Titles are in italics, and capitalization is displayed (using {\it e.g.} \{\{ \}\} in BiBTeX). For PRL: nouns capitalized. + + * Journal names are abbreviated. + + * Volume number is in bold. + + * Year is in parentheses. + + * Commas separate all elements. + + * All doi are present and displayed in format doi:[doi]. + + * The reference is closed by a ``.`` -References validation ---------------------- Proofs ------ + * Once the paper has been properly formatted, the ``.tex`` and ``.pdf`` files + should be copied into new files carrying the ``_proofs_v[nr]`` suffix, + for example ``SciPost_Phys_1699_9999v9_Bee_proofs_v1.tex``. + + * The ``.pdf`` proofs should be email to the authors for verification. + Authors should return either an annotated pdf or a list of corrections + by plain text email. + + * Any modifications should be implemented directly in the main ``.tex`` file. + + * If any further check by the authors are required, start this proofs + todo-list again, increasing the proofs version number. + + * Once the authors have approved the proofs, the paper can be put forward + to online publication. + Online publication ------------------ +Preparation of final version of record +~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + + #. Copy the whole paper folder from folder [journal name]/IN\_PRODUCTION \\to [journal name]/Volume\_[volume nr]. + + #. Check online to see which paper number is next available. + + #. Rename this folder using the convention [journal name]\_[volume number]([issue number])\_[paper nr]. + + #. Within this folder, take the author-accepted version tex file and rename it using the convention [journal name abbrev]\_[volume nr]\_[issue nr]\_[paper nr].tex. + + #. In this tex source, replace the ??? with the 3-digit paper number (6 places: 4 in preamble, 2 in copyright statement). + + #. Ensure that the author names are in format A. Bee, C. Dee and E. Final. + + #. Insert the correct Received, Accepted and Published dates in copyright statement. + + #. Make sure linenumbers are deactivated. + + #. Does the table of contents (if present) look OK? (Beware of hanging closing line pushed to top of second page.) + + #. If the author-accepted proofs version used BiBTeX, copy the contents of the bbl file into the .tex file, so that BiBTeX is not needed anymore. + + #. Manually correct any incorrect references. + + For arXiv entries, use the format ``\href{https://arxiv.org/abs/####.#####}{arXiv:####.#####}``, and remove any ``(YEAR)``. + + J. Stat. Mech. is annoying (volume number is year). Manually remove volume nr for these, so the format becomes ``A. Bee, \emp{Bee's nice paper}, J. Stat. Mech.: Th. Exp. P##### (20##), \doi{10...}.`` + + #. Recompile the LaTeX, and CAREFULLY CHECK EVERYTHING. + + +Uploading to ``scipost.org`` +~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + + + #. From the Submissions Pool, click on the link to initiate the publication process. + + #. Fill in the initiate publication form (using the dates in format YYYY-MM-DD). Submit. You are now on the validate publication page. + + #. Check that the paper number is correct. If not, modify the final tex source to account for this (see previous subsection). + + #. Select who the first author is (if registered as a Contributor; if not, inform the EdAdmin, and choose another author who is registered). + + #. Select the final version's pdf file. + + #. Submit. The paper is now published online. + + Metadata preparation and DOI registration with Crossref ------------------------------------------------------- + + +Maintenance +----------- + + +Cited-by updates +~~~~~~~~~~~~~~~~ diff --git a/docs/contributors/editorial_administrators/submission_processing.rst b/docs/contributors/editorial_administrators/submission_processing.rst new file mode 100644 index 0000000000000000000000000000000000000000..a7d0181e2af776f5b3da113f7398e999c9c326d3 --- /dev/null +++ b/docs/contributors/editorial_administrators/submission_processing.rst @@ -0,0 +1,27 @@ +Submission processing +===================== + + +Pre-screening +------------- + + +Plagiarism check +~~~~~~~~~~~~~~~~ + + +Assignments +~~~~~~~~~~~ + + +During refereeing +----------------- + + +Compliance with Crossref DOI requirements +~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + +If the Submission's references are not properly formatted, +and/or if these do not include the required DOIs, +the authors should be asked to do so in their eventual +resubmission.