diff options
Diffstat (limited to 'bh20simplewebuploader')
| -rw-r--r-- | bh20simplewebuploader/main.py | 14 | ||||
| -rw-r--r-- | bh20simplewebuploader/templates/about.html | 4 | ||||
| -rw-r--r-- | bh20simplewebuploader/templates/form.html | 2 | ||||
| -rw-r--r-- | bh20simplewebuploader/templates/org-header.html | 293 |
4 files changed, 309 insertions, 4 deletions
diff --git a/bh20simplewebuploader/main.py b/bh20simplewebuploader/main.py index a30d350..eb9a0f5 100644 --- a/bh20simplewebuploader/main.py +++ b/bh20simplewebuploader/main.py @@ -428,7 +428,19 @@ def blog_page(): @app.route('/about') def about_page(): - return render_template('about.html',menu='ABOUT') + buf = "" + in_body = False + begin_body = re.compile(r"<body>",re.IGNORECASE) + end_body = re.compile(r"(</body>|.*=\"postamble\")",re.IGNORECASE) + with open('doc/web/about.html') as f: + for line in f: + if end_body.match(line): + break + if in_body: + buf += line + elif begin_body.match(line): + in_body = True + return render_template('about.html',menu='ABOUT',embed=buf) ## Dynamic API functions starting here ## This is quick and dirty for now, just to get something out and demonstrate the queries diff --git a/bh20simplewebuploader/templates/about.html b/bh20simplewebuploader/templates/about.html index 286a211..07b6951 100644 --- a/bh20simplewebuploader/templates/about.html +++ b/bh20simplewebuploader/templates/about.html @@ -1,11 +1,11 @@ <!DOCTYPE html> <html> - {% include 'header.html' %} + {% include 'org-header.html' %} <body> {% include 'banner.html' %} {% include 'menu.html' %} - WIP + {{ embed|safe }} {% include 'footer.html' %} diff --git a/bh20simplewebuploader/templates/form.html b/bh20simplewebuploader/templates/form.html index b1bbad2..3a1b03b 100644 --- a/bh20simplewebuploader/templates/form.html +++ b/bh20simplewebuploader/templates/form.html @@ -12,7 +12,7 @@ Upload your SARS-CoV-2 sequence (FASTA or FASTQ formats) with metadata (JSONLD) to the <a href="https://workbench.lugli.arvadosapi.com/collections/lugli-4zz18-z513nlpqm03hpca">public sequence resource</a>. The upload will trigger a recompute with all available sequences into a Pangenome available for - <a href="https://workbench.lugli.arvadosapi.com/collections/lugli-4zz18-z513nlpqm03hpca">download</a>! + <a href="https://collections.lugli.arvadosapi.com/c=lugli-4zz18-z513nlpqm03hpca/">download</a>! </p> <p> Your uploaded sequence will automatically be processed diff --git a/bh20simplewebuploader/templates/org-header.html b/bh20simplewebuploader/templates/org-header.html new file mode 100644 index 0000000..915bcb7 --- /dev/null +++ b/bh20simplewebuploader/templates/org-header.html @@ -0,0 +1,293 @@ +<head> + <link href="https://fonts.googleapis.com/css2?family=Inter:wght@100;200;300;400;500;600;700;800;900&display=swap" rel="stylesheet"> + <link href="/static/main.css" rel="stylesheet" type="text/css"> + <meta name="viewport" content="width=device-width, initial-scale=1"> + <title>Web uploader for Public SARS-CoV-2 Sequence Resource</title> + <script type="text/javascript" src="/static/main.js"></script> +<!-- 2020-05-24 Sun 08:10 --> +<meta http-equiv="Content-Type" content="text/html;charset=utf-8" /> +<meta name="viewport" content="width=device-width, initial-scale=1" /> +<meta name="generator" content="Org mode" /> +<meta name="author" content="Pjotr Prins" /> +<style type="text/css"> + <!--/*--><![CDATA[/*><!--*/ + .title { text-align: center; + margin-bottom: .2em; } + .subtitle { text-align: center; + font-size: medium; + font-weight: bold; + margin-top:0; } + .todo { font-family: monospace; color: red; } + .done { font-family: monospace; color: green; } + .priority { font-family: monospace; color: orange; } + .tag { background-color: #eee; font-family: monospace; + padding: 2px; font-size: 80%; font-weight: normal; } + .timestamp { color: #bebebe; } + .timestamp-kwd { color: #5f9ea0; } + .org-right { margin-left: auto; margin-right: 0px; text-align: right; } + .org-left { margin-left: 0px; margin-right: auto; text-align: left; } + .org-center { margin-left: auto; margin-right: auto; text-align: center; } + .underline { text-decoration: underline; } + #postamble p, #preamble p { font-size: 90%; margin: .2em; } + p.verse { margin-left: 3%; } + pre { + border: 1px solid #ccc; + box-shadow: 3px 3px 3px #eee; + padding: 8pt; + font-family: monospace; + overflow: auto; + margin: 1.2em; + } + pre.src { + position: relative; + overflow: visible; + padding-top: 1.2em; + } + pre.src:before { + display: none; + position: absolute; + background-color: white; + top: -10px; + right: 10px; + padding: 3px; + border: 1px solid black; + } + pre.src:hover:before { display: inline;} + /* Languages per Org manual */ + pre.src-asymptote:before { content: 'Asymptote'; } + pre.src-awk:before { content: 'Awk'; } + pre.src-C:before { content: 'C'; } + /* pre.src-C++ doesn't work in CSS */ + pre.src-clojure:before { content: 'Clojure'; } + pre.src-css:before { content: 'CSS'; } + pre.src-D:before { content: 'D'; } + pre.src-ditaa:before { content: 'ditaa'; } + pre.src-dot:before { content: 'Graphviz'; } + pre.src-calc:before { content: 'Emacs Calc'; } + pre.src-emacs-lisp:before { content: 'Emacs Lisp'; } + pre.src-fortran:before { content: 'Fortran'; } + pre.src-gnuplot:before { content: 'gnuplot'; } + pre.src-haskell:before { content: 'Haskell'; } + pre.src-hledger:before { content: 'hledger'; } + pre.src-java:before { content: 'Java'; } + pre.src-js:before { content: 'Javascript'; } + pre.src-latex:before { content: 'LaTeX'; } + pre.src-ledger:before { content: 'Ledger'; } + pre.src-lisp:before { content: 'Lisp'; } + pre.src-lilypond:before { content: 'Lilypond'; } + pre.src-lua:before { content: 'Lua'; } + pre.src-matlab:before { content: 'MATLAB'; } + pre.src-mscgen:before { content: 'Mscgen'; } + pre.src-ocaml:before { content: 'Objective Caml'; } + pre.src-octave:before { content: 'Octave'; } + pre.src-org:before { content: 'Org mode'; } + pre.src-oz:before { content: 'OZ'; } + pre.src-plantuml:before { content: 'Plantuml'; } + pre.src-processing:before { content: 'Processing.js'; } + pre.src-python:before { content: 'Python'; } + pre.src-R:before { content: 'R'; } + pre.src-ruby:before { content: 'Ruby'; } + pre.src-sass:before { content: 'Sass'; } + pre.src-scheme:before { content: 'Scheme'; } + pre.src-screen:before { content: 'Gnu Screen'; } + pre.src-sed:before { content: 'Sed'; } + pre.src-sh:before { content: 'shell'; } + pre.src-sql:before { content: 'SQL'; } + pre.src-sqlite:before { content: 'SQLite'; } + /* additional languages in org.el's org-babel-load-languages alist */ + pre.src-forth:before { content: 'Forth'; } + pre.src-io:before { content: 'IO'; } + pre.src-J:before { content: 'J'; } + pre.src-makefile:before { content: 'Makefile'; } + pre.src-maxima:before { content: 'Maxima'; } + pre.src-perl:before { content: 'Perl'; } + pre.src-picolisp:before { content: 'Pico Lisp'; } + pre.src-scala:before { content: 'Scala'; } + pre.src-shell:before { content: 'Shell Script'; } + pre.src-ebnf2ps:before { content: 'ebfn2ps'; } + /* additional language identifiers per "defun org-babel-execute" + in ob-*.el */ + pre.src-cpp:before { content: 'C++'; } + pre.src-abc:before { content: 'ABC'; } + pre.src-coq:before { content: 'Coq'; } + pre.src-groovy:before { content: 'Groovy'; } + /* additional language identifiers from org-babel-shell-names in + ob-shell.el: ob-shell is the only babel language using a lambda to put + the execution function name together. */ + pre.src-bash:before { content: 'bash'; } + pre.src-csh:before { content: 'csh'; } + pre.src-ash:before { content: 'ash'; } + pre.src-dash:before { content: 'dash'; } + pre.src-ksh:before { content: 'ksh'; } + pre.src-mksh:before { content: 'mksh'; } + pre.src-posh:before { content: 'posh'; } + /* Additional Emacs modes also supported by the LaTeX listings package */ + pre.src-ada:before { content: 'Ada'; } + pre.src-asm:before { content: 'Assembler'; } + pre.src-caml:before { content: 'Caml'; } + pre.src-delphi:before { content: 'Delphi'; } + pre.src-html:before { content: 'HTML'; } + pre.src-idl:before { content: 'IDL'; } + pre.src-mercury:before { content: 'Mercury'; } + pre.src-metapost:before { content: 'MetaPost'; } + pre.src-modula-2:before { content: 'Modula-2'; } + pre.src-pascal:before { content: 'Pascal'; } + pre.src-ps:before { content: 'PostScript'; } + pre.src-prolog:before { content: 'Prolog'; } + pre.src-simula:before { content: 'Simula'; } + pre.src-tcl:before { content: 'tcl'; } + pre.src-tex:before { content: 'TeX'; } + pre.src-plain-tex:before { content: 'Plain TeX'; } + pre.src-verilog:before { content: 'Verilog'; } + pre.src-vhdl:before { content: 'VHDL'; } + pre.src-xml:before { content: 'XML'; } + pre.src-nxml:before { content: 'XML'; } + /* add a generic configuration mode; LaTeX export needs an additional + (add-to-list 'org-latex-listings-langs '(conf " ")) in .emacs */ + pre.src-conf:before { content: 'Configuration File'; } + + table { border-collapse:collapse; } + caption.t-above { caption-side: top; } + caption.t-bottom { caption-side: bottom; } + td, th { vertical-align:top; } + th.org-right { text-align: center; } + th.org-left { text-align: center; } + th.org-center { text-align: center; } + td.org-right { text-align: right; } + td.org-left { text-align: left; } + td.org-center { text-align: center; } + dt { font-weight: bold; } + .footpara { display: inline; } + .footdef { margin-bottom: 1em; } + .figure { padding: 1em; } + .figure p { text-align: center; } + .equation-container { + display: table; + text-align: center; + width: 100%; + } + .equation { + vertical-align: middle; + } + .equation-label { + display: table-cell; + text-align: right; + vertical-align: middle; + } + .inlinetask { + padding: 10px; + border: 2px solid gray; + margin: 10px; + background: #ffffcc; + } + #org-div-home-and-up + { text-align: right; font-size: 70%; white-space: nowrap; } + textarea { overflow-x: auto; } + .linenr { font-size: smaller } + .code-highlighted { background-color: #ffff00; } + .org-info-js_info-navigation { border-style: none; } + #org-info-js_console-label + { font-size: 10px; font-weight: bold; white-space: nowrap; } + .org-info-js_search-highlight + { background-color: #ffff00; color: #000000; font-weight: bold; } + .org-svg { width: 90%; } + /*]]>*/--> + +.title { font-family: Lucida Sans Typewriter,Lucida Console,monaco,Bitstream Vera Sans Mono,monospace } +.table-of-contents { font-family: monospace; color: red; } +/* .text-table-of-contents { font-family: monospace; color: black; font-size:80%; } */ +.timestamp { font-family: monospace; color: darkgreen; } + +h1,h2 { font-family: Lucida Sans Typewriter,Lucida Console,monaco,Bitstream Vera Sans Mono,monospace; color +:black;background-color:#F0F8FF; } +h2,h3,h4 { color: darkblue; } +code { color: darkblue; } +body {font-family: Palatino, 'Palatino Linotype', serif; color:black; font-size: l +arge } + +div.verbatim { color: black; background-color: white; border-style:outset; font-family: palatino font, mono +space; font-size:80%; font-weight:bold; } +div.quote { font-family: palatino font, monospace; font-size:80%; } +div.quotation { font-family: palatino font, monospace; font-size:80%; } +pre.example { font-family: prestige, monospace; color:black; font-size:70%; background-color: lightyellow; + } +pre.src { font-family: prestige, monospace; font-weight: bold; color:white; font-size:80%; background-color +: black; } + +div[id="text-table-of-contents"]{ + font-family: palatino font, monospace; background-color:white; + border-style: dotted; + border-color: #98bf21; + border-width: 1px; +} +div[class^="outline-text"] { + background-color:#ebe6f0; + border-style: dotted; + border-color: #98bf21; + border-width: 1px; + font-family: Palatino, 'Palatino Linotype', serif; color:black; font-size: large +} +span[class="todo TESTING"] { + color:purple; +} +span[class="todo IN_PROGRESS"] { + color:brown; +} +span[class^="section-number"] { + color:grey; +} +span[class="journal"] { + color:darkblue; +} +span[class="year"] { + color:darkred; +} + +</style> +<script type="text/javascript"> +/* +@licstart The following is the entire license notice for the +JavaScript code in this tag. + +Copyright (C) 2012-2020 Free Software Foundation, Inc. + +The JavaScript code in this tag is free software: you can +redistribute it and/or modify it under the terms of the GNU +General Public License (GNU GPL) as published by the Free Software +Foundation, either version 3 of the License, or (at your option) +any later version. The code is distributed WITHOUT ANY WARRANTY; +without even the implied warranty of MERCHANTABILITY or FITNESS +FOR A PARTICULAR PURPOSE. See the GNU GPL for more details. + +As additional permission under GNU GPL version 3 section 7, you +may distribute non-source (e.g., minimized or compacted) forms of +that code without the copy of the GNU GPL normally required by +section 4, provided you include this license notice and a URL +through which recipients can access the Corresponding Source. + + +@licend The above is the entire license notice +for the JavaScript code in this tag. +*/ +<!--/*--><![CDATA[/*><!--*/ + function CodeHighlightOn(elem, id) + { + var target = document.getElementById(id); + if(null != target) { + elem.cacheClassElem = elem.className; + elem.cacheClassTarget = target.className; + target.className = "code-highlighted"; + elem.className = "code-highlighted"; + } + } + function CodeHighlightOff(elem, id) + { + var target = document.getElementById(id); + if(elem.cacheClassElem) + elem.className = elem.cacheClassElem; + if(elem.cacheClassTarget) + target.className = elem.cacheClassTarget; + } +/*]]>*///--> +</script> +</head> |