global: minor changes academicpages#4

* Fourth round of minor changes. Signed-off-by: Grzegorz Jacenków <grzegorz@jacenkow.com>
vios-s · Apr 9, 2020 · 08cbf0e · 08cbf0e
1 parent c201811
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Showing 16 changed files with 449 additions and 155 deletions.
diff --git a/_config.yml b/_config.yml
@@ -63,7 +63,7 @@ kramdown:
   smart_quotes: lsquo,rsquo,ldquo,rdquo
   enable_coderay: false
 
-# Collections. TODO: What is that?
+# Collections.
 collections:
   projects:
     output: true
@@ -78,7 +78,7 @@ collections:
     output: true
     permalink: /:collection/:path/
 
-# Defaults. TODO: What is that?
+# Defaults.
 defaults:
   # _posts
   - scope:

diff --git a/_includes/publications/entry_table.html b/_includes/publications/entry_table.html
@@ -0,0 +1,34 @@
+{% if journal %}
+<tr>
+    <td>{{ forloop.index }}.</td>
+    <td>
+        <b>{{ journal.title }}</b>
+        <br />
+        <em>{{ journal.authors }}</em>
+        <br />
+        {{ journal.journal }}, {{ journal.edition }}
+        <br />
+
+    </td>
+    <td>
+        {% if.journal.text %}
+        <a href="{{ journal.text }}" class="btn btn--small" target="_blank">Full Text</a>
+        {% endif %}
+        {% if.journal.preprint %}
+        <a href="{{ journal.preprint }}" class="btn btn--danger btn--small" target="_blank">Preprint</a>
+        {% endif %}
+
+        {% if.journal.pdf %}
+        <a href="{{ base_path }}/assets/pdfs/{{ journal.pdf }}" class="btn btn--primary btn--small" target="_blank">PDF</a>
+        {% endif %}
+
+        {% if.journal.code %}
+        <a href="{{ journal.code }}" class="btn btn--info btn--small" target="_blank">Code</a>
+        {% endif %}
+
+        {% if.journal.url %}
+        <a href="{{ journal.url }}" class="btn btn--info btn--small" target="_blank">Website</a>
+        {% endif %}
+    </td>
+</tr>
+{% endif %}
diff --git a/_includes/publications/publications.html b/_includes/publications/publications.html
@@ -1,6 +1,8 @@
-<h2>Journals</h2>
-<hr>
+<div id="publications">
+  <h2>Journals</h2>
+  <hr>
 
-{% for journal in site.data.publications.journals %}
-  {% include publications/entry.html %}
-{% endfor %}
+  {% for journal in site.data.publications.journals %}
+    {% include publications/entry.html %}
+  {% endfor %}
+</div>
diff --git a/_includes/scripts.html b/_includes/scripts.html
@@ -9,3 +9,13 @@
   });
 </script>
 <script src='https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.4/latest.js?config=TeX-MML-AM_CHTML' async></script>
+<script>
+    (function(i,s,o,g,r,a,m){i['GoogleAnalyticsObject']=r;i[r]=i[r]||function(){
+        (i[r].q=i[r].q||[]).push(arguments)},i[r].l=1*new Date();a=s.createElement(o),
+        m=s.getElementsByTagName(o)[0];a.async=1;a.src=g;m.parentNode.insertBefore(a,m)
+    })(window,document,'script','//www.google-analytics.com/analytics.js','ga');
+
+    ga('create', 'UA-61842337-1', 'auto');
+    ga('send', 'pageview');
+
+</script>
diff --git a/_includes/seo.html b/_includes/seo.html
@@ -1,6 +1,5 @@
 {% include base_path %}
 
-<!-- begin SEO -->
 {% if site.url %}
   {% assign seo_url = site.url | append: site.baseurl %}
 {% endif %}
@@ -20,78 +19,22 @@
 
 <title>{{ seo_title | default: site.title }}{% if paginator %}{% unless paginator.page == 1 %} {{ site.title_separator }} {{ site.data.ui-text[site.locale].page | default: "Page" }} {{ paginator.page }}{% endunless %}{% endif %}</title>
 
-{% assign seo_description = page.description | default: page.excerpt | default: site.description %}
-{% if seo_description %}
-  {% assign seo_description = seo_description | markdownify | strip_html | strip_newlines | escape_once %}
-{% endif %}
-
-{% assign seo_author = page.author | default: page.author[0] | default: site.author[0] %}
-{% if seo_author %}
-  {% if seo_author.twitter %}
-    {% assign seo_author_twitter = seo_author.twitter %}
-  {% else %}
-    {% if site.data.authors and site.data.authors[seo_author] %}
-      {% assign seo_author_twitter = site.data.authors[seo_author].twitter  %}
-    {% else %}
-      {% assign seo_author_twitter = seo_author  %}
-    {% endif %}
-  {% endif %}
-  {% assign seo_author_twitter = seo_author_twitter | replace: "@", "" %}
-{% endif %}
+<meta content="image analysis, medical imaging, MRI, brain, cardiac, phenotyping, image processing" name="Keywords" />
+<meta content="Global" name="Distribution" />
+<meta content="Sotirios Tsaftaris" name="Author" />
+<meta content="index,follow" name="Robots" />
 
 <meta property="og:locale" content="{{ site.locale | default: "en" }}">
 <meta property="og:site_name" content="{{ site.title }}">
 <meta property="og:title" content="{{ page.title | default: site.title | markdownify | strip_html | strip_newlines | escape_once }}">
 
 {% if seo_url %}
-  <link rel="canonical" href="{{ page.url | prepend: seo_url | replace: "/index.html", "/" }}">
-  <meta property="og:url" content="{{ page.url | prepend: seo_url | replace: "/index.html", "/" }}">
+<link rel="canonical" href="{{ page.url | prepend: seo_url | replace: "/index.html", "/" }}">
+<meta property="og:url" content="{{ page.url | prepend: seo_url | replace: "/index.html", "/" }}">
 {% endif %}
 
 {% if page.excerpt %}
-  <meta property="og:description" content="{{ seo_description }}">
-{% endif %}
-
-{% if site.twitter.username %}
-  <meta name="twitter:site" content="@{{ site.twitter.username | replace: "@", "" }}">
-  <meta name="twitter:title" content="{{ page.title | default: site.title | markdownify | strip_html | strip_newlines | escape_once }}">
-  <meta name="twitter:description" content="{{ seo_description }}">
-  <meta name="twitter:url" content="{{ canonical_url }}">
-
-  {% if page.header.image %}
-    <meta name="twitter:card" content="summary_large_image">
-    <meta name="twitter:image" content="{% if page.header.image contains "://" %}{{ page.header.image }}{% else %}{{ page.header.image | prepend: "/images/" | prepend: base_path }}{% endif %}">
-  {% else %}
-    <meta name="twitter:card" content="summary">
-    {% if site.og_image %}
-      <meta name="twitter:image" content="{{ site.og_image | prepend: "/images/" | prepend: base_path }}">
-    {% endif %}
-  {% endif %}
-
-  {% if seo_author_twitter %}
-    <meta name="twitter:creator" content="@{{ seo_author_twitter }}">
-  {% endif %}
-{% endif %}
-
-{% if site.facebook %}
-  {% if site.facebook.publisher %}
-    <meta property="article:publisher" content="{{ site.facebook.publisher }}">
-  {% endif %}
-
-  {% if site.facebook.app_id %}
-    <meta property="fb:app_id" content="{{ site.facebook.app_id }}">
-  {% endif %}
-{% endif %}
-
-{% if page.header.image %}
-  <meta property="og:image" content="{% if page.header.image contains "://" %}{{ page.header.image }}{% else %}{{ page.header.image | prepend: "/images/" | prepend: base_path }}{% endif %}">
-{% elsif page.header.overlay_image %}
-  <meta property="og:image" content="{% if page.header.overlay_image contains "://" %}{{ page.header.overlay_image }}{% else %}{{ page.header.overlay_image | prepend: "/images/" | prepend: base_path }}{% endif %}">
-{% endif %}
-
-{% if page.date %}
-  <meta property="og:type" content="article">
-  <meta property="article:published_time" content="{{ page.date | date_to_xmlschema }}">
+<meta property="og:description" content="{{ seo_description }}">
 {% endif %}
 
 {% if paginator.previous_page %}
@@ -100,40 +43,3 @@
 {% if paginator.next_page %}
   <link rel="next" href="{{ paginator.next_page_path | prepend: seo_url }}">
 {% endif %}
-
-{% if site.og_image %}
-  <script type="application/ld+json">
-    {
-      "@context": "http://schema.org",
-      "@type": "Organization",
-      "url": {{ seo_url | jsonify }},
-      "logo": {{ site.og_image | prepend: "/images/" | prepend: base_path | jsonify }}
-    }
-  </script>
-{% endif %}
-
-{% if site.social %}
-  <script type="application/ld+json">
-    {
-      "@context" : "http://schema.org",
-      "@type" : "{% if site.social.type %}{{ site.social.type }}{% else %}Person{% endif %}",
-      "name" : "{{ site.social.name | default: site.name }}",
-      "url" : {{ seo_url | jsonify }},
-      "sameAs" : {{ site.social.links | jsonify }}
-    }
-  </script>
-{% endif %}
-
-{% if site.google_site_verification %}
-  <meta name="google-site-verification" content="{{ site.google_site_verification }}" />
-{% endif %}
-{% if site.bing_site_verification %}
-  <meta name="msvalidate.01" content="{{ site.bing_site_verification }}">
-{% endif %}
-{% if site.alexa_site_verification %}
-  <meta name="alexaVerifyID" content="{{ site.alexa_site_verification }}">
-{% endif %}
-{% if site.yandex_site_verification %}
-  <meta name="yandex-verification" content="{{ site.yandex_site_verification }}">
-{% endif %}
-<!-- end SEO -->
diff --git a/_includes/sidebar.html b/_includes/sidebar.html
@@ -1,17 +1,13 @@
 {% include base_path %}
 
 <div class="sidebar sticky">
-  <img src="{{ base_path }}/assets/images/edinburgh.png">
+  <img src="{{ base_path }}/assets/images/edinburgh.svg">
   <hr />
   <img src="{{ base_path }}/assets/images/raeng.svg">
   <hr />
-  <p>
-    Tsaftaris' Collaboratory
-    <br />
-    Institute for Digital Communications
-    <br />
+  <p class="text-center">
+    Tsaftaris' Collaboratory <br />
+    Institute for Digital Communications <br />
     The School of Engineering
-    <br />
-    The University of Edinburgh
   </p>
 </div>
diff --git a/_pages/team.md b/_pages/team.md
@@ -44,14 +44,20 @@ chat.
 
 ## Alumni
 
-* Dr. Mario Valerio Giuffrida (PhD/PostDoc) - Lecturer, Napier University,
-  United Kingdom
-* Mr. Hao Chen (BEng) - MSc Student, Carnegie Mellon University, United States
-* Dr. Thomas Joyce (PostDoc) - PostDoc, ETH Zurich, Switzerland
-* Dr. Ilkay Oksuz (PhD) - PostDoc, King's College London, United Kingdom
-* Dr. Massimo Minervini (PhD/PostDoc) - CET Electronics, Italy
-* Dr. Cristian Rusu (PostDoc) - Lecturer, National University of Ireland,
-  Ireland
-* Dr. Marco Bevilacqua (PostDoc) - PostDoc, Bordeaux, INP, France
-* Dr. Anirban Mukhopadhyay (PostDoc) - Head, Medical and Environmental Computing
- (MEC-Lab), TU Darmstadt, Germany
+* Dr [Mario Valerio Giuffrida](http://www.valeriogiuffrida.academy/)
+  (PhD/PostDoc) - Lecturer, Napier University, United Kingdom
+* Mr [Hao Chen](https://www.linkedin.com/in/haochen97) (BEng) - MSc Student,
+  Carnegie Mellon University, United States
+* Dr [Thomas Joyce](https://biomed.ee.ethz.ch/institute/People/person-detail.MjU0MzMx.TGlzdC8yNTA2LC0xMTc1NTEzMTIz.html)
+  (PostDoc) - PostDoc, ETH Zurich, Switzerland
+* Dr [Ilkay Oksuz](https://sites.google.com/view/oksuzilkay) (PhD) - Assistant
+  Professor, Istanbul Technical University, Turkey
+* Dr [Massimo Minervini](https://www.linkedin.com/in/minervini/) (PhD/PostDoc) -
+  CET Electronics, Italy
+* Dr [Cristian Rusu](https://www.ncirl.ie/About/A-Z-Staff-Directory/Staff/347)
+  (PostDoc) - Lecturer, National University of Ireland, Ireland
+* Dr [Marco Bevilacqua](https://www.linkedin.com/in/marcobevilacqua) (PostDoc) -
+  Cdiscount, France
+* Dr [Anirban Mukhopadhyay](https://sites.google.com/site/geometricanirban/)
+  (PostDoc) - Head, Medical and Environmental Computing (MEC-Lab), TU Darmstadt,
+  Germany
diff --git a/_sass/_custom.scss b/_sass/_custom.scss
@@ -31,3 +31,16 @@ table {
     @include prefix(0.5 of 12);
   }
 }
+
+#publications {
+  p {
+    margin-top: 10px !important;
+    margin-bottom: 10px !important;
+  }
+}
+
+.sidebar {
+  img {
+    max-height: 75px;
+  }
+}
diff --git a/_team/agis.md b/_team/agis.md
@@ -7,10 +7,12 @@ profile: "agis.jpg"
 collection: team
 permalink: /team/chartsias
 ---
-Agisilaos Chartsias received his MSc in Artificial Intelligence from the
-University of Edinburgh. He is currently a PhD student working on deep learning
-for medical image analysis. He is interested in representation learning,
-specifically in disentangled and multimodal representations for medical
-segmentation.
+Agisilaos Chartsias is currently a PhD student working on deep learning
+for medical image analysis. His research interests include multi-modal
+representation learning.
+
+He received his MSc in Artificial Intelligence from the University of Edinburgh.
+He is interested in representation learning, specifically in disentangled and
+multimodal representations for medical segmentation.
 
 URL: [GitHub](https://github.com/agis85)
diff --git a/_team/andrei.md b/_team/andrei.md
@@ -7,16 +7,19 @@ profile: "andrei.jpg"
 collection: team
 permalink: /team/dobrescu
 ---
-Andrei Dobrescu is a third year PhD student in the Tsaftaris Group. He received
-a BSc Honours in Biotechnology, followed by an MSc in Systems and Synthetic
-Biology, both from the University of Edinburgh. He has been fascinated by how
-machines can help improve biological systems so he continued his studies to
-research deep learning and computer vision. The focus of his PhD is researching
-deep learning and computer vision algorithms for image-based plant phenotyping.
-When you look at a plant or a crop the traits that you can visibly see are a
-result of their genetics and their environment. Plant phenotyping is effectively
-measuring these visible plant traits in order to help improve and accelerate
-plant science and breeding.
+Andrei Dobrescu is a third year PhD student supervised by Prof. Tsaftaris.
+The focus of his PhD is researching deep learning and computer vision algorithms
+for image-based plant phenotyping.
+
+He received a BSc Honours in Biotechnology, followed by an MSc in Systems and
+Synthetic Biology, both from the University of Edinburgh. He has been fascinated
+by how machines can help improve biological systems so he continued his studies
+to research deep learning and computer vision. The focus of his PhD is
+researching deep learning and computer vision algorithms for image-based plant
+phenotyping. When you look at a plant or a crop the traits that you can visibly
+see are a result of their genetics and their environment. Plant phenotyping is
+effectively measuring these visible plant traits in order to help improve and
+accelerate plant science and breeding.
 
 URL: [GitHub](https://github.com/andobrescu),
      [LinkedIn](https://www.linkedin.com/in/andreidobrescu/)
diff --git a/_team/greg.md b/_team/greg.md
@@ -8,17 +8,15 @@ collection: team
 permalink: /team/jacenkow
 ---
 Grzegorz Jacenków is a PhD student at The University of Edinburgh supervised by
-Professor Sotirios Tsaftaris and Dr Alison O'Neil (Canon Medical Research). The
-core of his research is focused on integrating medical imaging and non-imaging
-data to improve decision support systems. His project is done in collaboration
-with Canon Medical Research Europe.
+Professor Sotirios Tsaftaris and Dr Alison O'Neil. His research is focused on
+integrating medical imaging and non-imaging modalities.
 
 He holds a Master's degree in Artificial Intelligence with specialisation in
 machine learning from The University of Edinburgh. He has graduated with
 First-class honours Bachelor's degree in Computer Science with Business and
 Management from The University of Manchester. During his undergraduate studies,
-he has done internships at CERN, Microsoft and Credit Suisse.
+he has done internships at CERN, Microsoft and Credit Suisse. His PhD project
+is done in collaboration with Canon Medical Research Europe.
 
 URL: [GitHub](https://github.com/jacenkow),
      [LinkedIn](https://www.linkedin.com/in/jacenkow/)
-
diff --git a/_team/phivos.md b/_team/phivos.md
@@ -7,8 +7,10 @@ profile: "phivos.jpg"
 collection: team
 permalink: /team/sofokleous
 ---
-Phivos is a 1st year PhD student at the University of Edinburgh supervised by
+Phivos is a first year PhD student at the University of Edinburgh supervised by
 Professor Tsaftaris and co-supervised by Dr. Joao Mota of Heriot-Watt
-University. The focus of his research is to develop new compression algorithms
+University.
+
+The focus of his research is to develop new compression algorithms
 using machine learning and new developments in signal processing and information
 theory.
diff --git a/_team/spiros.md b/_team/spiros.md
@@ -7,11 +7,13 @@ profile: "spiros.jpg"
 collection: team
 permalink: /team/thermos
 ---
-Spyridon Thermos received his diploma and masters from the Department of
+Spyridon Thermos is a researcher at the University of Edinburgh working with
+Prof. Sotirios Tsaftaris on machine learning models for medical image analysis.
+
+He received his diploma and masters from the Department of
 Electrical and Computer Engineering of the University of Thessaly in 2013 and
 2015, respectively. Currently, he is a PhD candidate at the same university
-supervised by Prof. Gerasimos Potamianos, and a researcher at the University of
-Edinburgh working with Prof. Sotirios Tsaftaris. In the past, he was a research
+supervised by Prof. Gerasimos Potamianos. In the past, he was a research
 assistant at the Visual Computing Lab (CERTH), where he worked with Dr. Petros
 Daras who co-supervises his PhD. His research interests lie in computer vision
 and machine learning with a focus on unsupervised and self-supervised learning,