Fixing more /src and index.md links.

content/admin/internals/data-model/index.md

@@ -6,7 +6,7 @@ TODO: Describe data model.  For now, have a picture!
 Marten: I use DB Visualizer for the Galaxy's database and it works pretty well. (http://www.dbvis.com/)
 
 <div class='center'>
-<a href='/src/admin/internals/data-model/galaxy_schema.png'><img src="/admin/internals/data-model/galaxy_schema.png" alt="Galaxy Data Model; click to enlarge" width="600" /></a>
+<a href='/admin/internals/data-model/galaxy_schema.png'><img src="/admin/internals/data-model/galaxy_schema.png" alt="Galaxy Data Model; click to enlarge" width="600" /></a>
 
 [Galaxy Data Model; click to enlarge](/admin/internals/data-model/galaxy_schema.png).
 </div>

content/admin/tools/data-managers/index.md

@@ -18,7 +18,7 @@ The Data Manager framework supports any kind of built-in ("pre-cached") data tha
 
 # Graphical Overview of Interplay between Built-in Data and Galaxy Tools
 
-<a href='/src/images/learn/data_managers_figure_S1_schematic_overview.png'><img src="/images/learn/data_managers_figure_S1_schematic_overview.png" alt="" width=600 /></a> 
+<a href='/images/learn/data_managers_figure_S1_schematic_overview.png'><img src="/images/learn/data_managers_figure_S1_schematic_overview.png" alt="" width=600 /></a> 
 
 # List of pages in this category
 

content/blog/2017-10-05-elixir-galaxy-community/index.md

@@ -2,7 +2,7 @@
 date: '2017-10-05'
 title: "ELIXIR establishes a new official Community for Galaxy"
 tease: ""
-image: /src/images/logos/ElixirNoTextLogo.png
+image: /images/logos/ElixirNoTextLogo.png
 authors: "Frederik Coppens, Gildas Le Corguillé, Björn Grüning"
 ---
 

content/blog/2017-10-10-scipy-galaxy/index.md

@@ -3,7 +3,7 @@ date: '2017-10-10'
 title: "SciPy and scikit-learn integration into Galaxy"
 tease: ""
 authors: "Björn Grüning"
-image: /src/blog/2017-10-10-scipy-galaxy/sci-py-kit-learn.png
+image: /blog/2017-10-10-scipy-galaxy/sci-py-kit-learn.png
 ---
 
 [Numpy](http://www.numpy.org), [SciPy](https://www.scipy.org), [scikit-learn](http://scikit-learn.org),

content/blog/2017-10-5000-pubs/index.md

@@ -2,7 +2,7 @@
 date: '2017-10-16'
 title: "Galaxy: the first 5,000 pubs "
 tease: "The Galaxy Publication Library hits a milestone"
-image: /src/images/logos/zotero-logo-small-trans.png
+image: /images/logos/zotero-logo-small-trans.png
 authors: "Dave Clements"
 ---
 

content/blog/2017-10-a-blog-is-born/index.md

@@ -2,7 +2,7 @@
 date: '2017-10-04'
 title: "Welcome to the Galactic Blog"
 tease: "It needs you"
-image: /src/images/galaxy-logos/galactic-blog-400.png
+image: /images/galaxy-logos/galactic-blog-400.png
 authors: "Dave Clements"
 ---
 

content/blog/2017-12-galaksio/index.md

@@ -4,7 +4,7 @@ title: "Galaksio: a Galaxy user interface focused on running prepared workflows"
 tease: "Make your workflows more accessible to non-bioinformaticians"
 authors: "Tomas Klingström"
 external_url: ""
-image: "/src/images/logos/galaksio_logo.png"
+image: "/images/logos/galaksio_logo.png"
 source_blog_url: ""
 source_blog: 
 ---

content/blog/2018-06-training-material/index.md

@@ -2,7 +2,7 @@
 date: '2018-06-15'
 title: "A fruitful year for the Galaxy Training material"
 authors: "Bérénice Batut, on behalf of the Galaxy Training Network"
-image: "/src/blog/2018-06-training-material/cover_art.png"
+image: "/blog/2018-06-training-material/cover_art.png"
 ---
 
 The Galaxy Training Network has developed an infrastructure to deliver interactive training based on Galaxy: one central place ([https://training.galaxyproject.org](https://training.galaxyproject.org)) to aggregate training materials covering many current research topics.

content/blog/2018-08-cotm-pablo-moreno/index.md

@@ -2,7 +2,7 @@
 date: '2018-08-01'
 title: "Contributor of the Month: Pablo Moreno"
 authors: "Björn Grüning"
-image: "/src/blog/2018-08-cotm-pablo-moreno/pablo-moreno.jpg"
+image: "/blog/2018-08-cotm-pablo-moreno/pablo-moreno.jpg"
 ---
 
 **Welcome to the first ever Galaxy Contributor of the Month posting!** 

content/blog/2018-09-cotm-carrie-ganote/index.md

@@ -2,7 +2,7 @@
 date: '2018-09-05'
 title: "Contributor of the Month: Carrie Ganote"
 authors: "Björn Grüning"
-image: "/src/blog/2018-09-cotm-carrie-ganote/carrie-ganote.png"
+image: "/blog/2018-09-cotm-carrie-ganote/carrie-ganote.png"
 ---
 
 The Galaxy ecosystem is a direct result of the Galaxy community and the contributions and involvement of community members.  The community makes it all work in innumerable ways, including support, training and tutorial development, talks, posters, documentation, issue reporting, feature requests, tool publishing, coding, and Galaxy server, cloud, and appliance support. 

content/blog/2018-10-cotm-yvan-le-bras/index.md

@@ -3,7 +3,7 @@ date: '2018-10-01'
 title: "Contributor of the Month: Yvan Le Bras"
 authors: "Björn Grüning"
 tease: "Citizen Science and Galaxy for Ecology"
-image: "/src/images/photos/yvanlebras.png"
+image: "/images/photos/yvanlebras.png"
 ---
 
 This month we welcome Yvan Le Bras, also called the magic Yvan ([@yvanlebras](https://github.com/yvanlebras)) as our *Galaxy contributor of the Month!* Yvan is a long time community member and PI of the GalaxyE project for Ecology data science. Yvan thanks for doing this interview with us, we are looking forward to learn more about you and your work!

content/blog/2018-11-cotm-saskia-hiltemann/index.md

@@ -2,7 +2,7 @@
 date: '2018-11-01'
 title: "Contributor of the Month: Saskia Hiltemann"
 authors: "Martin Čech"
-image: "/src/blog/2018-11-cotm-saskia-hiltemann/saskia-hiltemann.png"
+image: "/blog/2018-11-cotm-saskia-hiltemann/saskia-hiltemann.png"
 ---
 
 This month we welcome Saskia Hiltemann (Twitter: [@shiltemann](https://twitter.com/shiltemann), GitHub: [@shiltemann](https://github.com/shiltemann)) as our Galaxy contributor of the Month! Saskia is a bioinformatician and a PhD student working in metagenomics at Rotterdam’s Erasmus Medical Center in the Netherlands, a core member of the [Intergalactic Utilities Commission](https://galaxyproject.org/iuc/), and one of the two primary creators of the [Galaxy Training Framework](https://training.galaxyproject.org/) ([published](https://doi.org/10.1016/j.cels.2018.05.012) in *Cell Systems*).

content/blog/2018-12-cotm-simon-gladman/index.md

@@ -2,7 +2,7 @@
 date: '2018-12-12'
 title: "Contributor of the Month: Simon Gladman"
 authors: "Martin Čech"
-image: "/src/blog/2018-12-cotm-simon-gladman/simon_small.jpg"
+image: "/blog/2018-12-cotm-simon-gladman/simon_small.jpg"
 ---
 
 This month we welcome Simon Gladman (Twitter: [@SimonGladman1](https://twitter.com/SimonGladman1), GitHub: [@slugger70](https://github.com/slugger70)) as our Galaxy contributor of the Month! Simon works at the [University of Melbourne](https://www.unimelb.edu.au/) and is one of the developers of the [Genomics Virtual Laboratory](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4621043/) cloud image. Simon is a firefighter, cheesemaker, pillar of the [Galaxy Australia](https://usegalaxy.org.au/), and an overall jolly good fellow.

content/blog/2019-02-cvmfs/index.md

@@ -3,7 +3,7 @@ date: '2019-02-28'
 title: "Interview with Nate Coraor: CVMFS & Galaxy"
 authors: "Mo Heydarian"
 tease: "Find out about Galaxy's favorite filesystem"
-image: "/src/blog/2019-02-cvmfs/Nate_face.jpeg"
+image: "/blog/2019-02-cvmfs/Nate_face.jpeg"
 ---
 
 This month we interviewed [Nate Coraor](https://github.com/natefoo) of the Galaxy Team to learn about what CVMFS is and how it is being used for Galaxy.

content/blog/2019-04-gcc2019/index.md

@@ -3,7 +3,7 @@ date: '2019-04-02'
 title: "A sneak peak at GCC2019"
 authors: "Björn Grüning"
 tease: "New scheduling format this year"
-image: "/src/blog/2019-04-gcc2019/bjorn-gcc2017.jpg"
+image: "/blog/2019-04-gcc2019/bjorn-gcc2017.jpg"
 ---
 
 As you probably know GCC2019 will be held in Freiburg, Germany, from 1-6 July. Like [previous Galaxy Community Conferences](https://galaxyproject.org/gcc/), GCC2019 will [feature](https://gcc2019.sched.com) keynotes, accepted talks, posters, and demos, birds-of-a-feather gatherings, multiple days of collaborative work, and plenty of opportunities to network with your fellow data-intensive researchers and practitioners. If you are working in data-intensive life science, there is no better place to be.

content/blog/2019-04-gcp/index.md

@@ -3,7 +3,7 @@ date: '2019-04-15'
 title: "Building up support for the Google Cloud Platform in Galaxy"
 authors: "Enis Afgan and Vahid Jalili"
 tease: "Get on the cloud, Google Cloud!"
-image: "/src/blog/2019-04-gcp/ggcp.png"
+image: "/blog/2019-04-gcp/ggcp.png"
 highlight: true
 ---
 
@@ -81,17 +81,17 @@ Having restarted Galaxy, ObjectStore will persist all the new datasets on the
 given GCS bucket. For instance, in the following figure we show uploading a new
 dataset to Galaxy.
 
-<a href="/src/blog/2019-04-gcp/os1.png">
+<a href="/blog/2019-04-gcp/os1.png">
     <img class="float-left" src="/blog/2019-04-gcp/os1.png" alt="Galaxy data upload" width="48%" />
 </a>
-<a href="/src/blog/2019-04-gcp/os2.png">
+<a href="/blog/2019-04-gcp/os2.png">
     <img class="float-right" src="/blog/2019-04-gcp/os2.png" alt="Galaxy data" width="48%" />
 </a>
 
 The uploaded dataset is persisted on the given GCS bucket, as shown in the
 following figure.
 
-<div class="center"><a href="/src/blog/2019-04-gcp/os3.png">
+<div class="center"><a href="/blog/2019-04-gcp/os3.png">
     <img src="/blog/2019-04-gcp/os3.png" alt="Galaxy data" width="50%" />
 </a></div>
 
@@ -107,18 +107,18 @@ https://launch.usegalaxy.org/ and select CloudMan 2.0 appliance from the list.
 The CloudMan 2.0 appliance is currently a placeholder for launching the
 containerized version of Galaxy that was described above.
 
-<div class="center"><a href="/src/blog/2019-04-gcp/cl1.png">
+<div class="center"><a href="/blog/2019-04-gcp/cl1.png">
     <img class="center" src="/blog/2019-04-gcp/cl1.png" alt="CloudLaunch landing" width="50%" />
 </a></div>
 
 Follow the launch wizard to create your new instance. If you do not already have
 the required Google cloud credentials, check out the documentation here:
 https://www.galaxyproject.org/admin/objectstore/gce/#create-a-service-account.
 
-<a href="/src/blog/2019-04-gcp/cl2.png">
+<a href="/blog/2019-04-gcp/cl2.png">
     <img class="float-left" src="/blog/2019-04-gcp/cl2.png" alt="CloudLaunch wizard 1" width="48%" />
 </a>
-<a href="/src/blog/2019-04-gcp/cl3.png">
+<a href="/blog/2019-04-gcp/cl3.png">
     <img class="float-right" src="/blog/2019-04-gcp/cl3.png" alt="CloudLaunch wizard 2" width="48%" />
 </a>
 
@@ -130,10 +130,10 @@ username and the password you supplied in CloudLaunch. From there, you can
 observe the status of the machine and, after a few more minutes, access Galaxy
 to use it for some of the task suggested above.
 
-<a href="/src/blog/2019-04-gcp/cl4.png">
+<a href="/blog/2019-04-gcp/cl4.png">
     <img class="float-left" src="/blog/2019-04-gcp/cl4.png" alt="CloudMan status" width="48%" />
 </a>
-<a href="/src/blog/2019-04-gcp/cl5.png">
+<a href="/blog/2019-04-gcp/cl5.png">
     <img class="float-right" src="/blog/2019-04-gcp/cl5.png" alt="Galaxy CloudMan" width="48%" />
 </a>
 
@@ -142,7 +142,7 @@ Galaxy configurations directly from CloudMan. Making yourself a Galaxy Admin is
 one idea here that translates to the ability to install additional tools in
 Galaxy.
 
-<div class="center"><a href="/src/blog/2019-04-gcp/cl6.png">
+<div class="center"><a href="/blog/2019-04-gcp/cl6.png">
     <img class="center" src="/blog/2019-04-gcp/cl6.png" alt="CloudMan config" width="50%" />
 </a></div>
 

content/blog/2019-05-gcr/index.md

@@ -3,7 +3,7 @@ date: '2019-05-30'
 title: "Enabling cloud bursting for Galaxy"
 authors: "Enis Afgan and Nuwan Goonasekera"
 tease: "Expand your compute horizons."
-image: "/src/blog/2019-05-gcr/gcr.png"
+image: "/blog/2019-05-gcr/gcr.png"
 highlight: true
 ---
 
@@ -108,7 +108,7 @@ capacity, just delete the machines from CloudLaunch.
 In the following screenshots, we're using the Google Cloud Platform to add a
 machine. Note that you can also mix which providers you use for your workers.
 
-<div class="center"><a href="/src/blog/2019-05-gcr/cloudlaunch.png">
+<div class="center"><a href="/blog/2019-05-gcr/cloudlaunch.png">
     <img src="/blog/2019-05-gcr/cloudlaunch.png"
      alt="Running instance" width="80%" />
 </a></div>
@@ -123,7 +123,7 @@ a job submitted on a local laptop was sent to a remote GalaxyCloudRunner
 instance running on GCP where Pulsar automatically installs the necessary tools
 via Conda and runs the job via an embedded Slurm job manager.
 
-<div class="center"><a href="/src/blog/2019-05-gcr/job-run.png">
+<div class="center"><a href="/blog/2019-05-gcr/job-run.png">
     <img src="/blog/2019-05-gcr/job-run.png" alt="Launch page 1" width="80%" />
 </a></div>
 

content/blog/2019-07-galaxy-resources/index.md

@@ -3,7 +3,7 @@ date: ''
 title: "nn Galaxy Resources You Should Know About - 2019 Edition"
 tease: "Resources that will help you use Galaxy in your research"
 authors: "Dave Clements, ..."
-image: "/src/images/galaxy-logos/galactic-blog-400.png"
+image: "/images/galaxy-logos/galactic-blog-400.png"
 ---
 
 Galaxy is a platform, and a community, and a sprawling ecosystem of related projects, efforts, and resources.  And, it's hard to keep track of all of it.

content/blog/2020-02-gvl5-beta/index.md

@@ -3,7 +3,7 @@ date: '2020-02-14'
 title: "With Love: The All-new GVL 5.0 (beta)"
 authors: "Enis Afgan, Nuwan Goonasekera, Alexandru Mahmoud, Alex Ostrovsky, the GVL and Galaxy teams"
 tease: "Now more reliable, with better security, and with new features."
-image: "/src/blog/2020-02-gvl5-beta/gvl-logo-landscape-2018.svg"
+image: "/blog/2020-02-gvl5-beta/gvl-logo-landscape-2018.svg"
 highlight: true
 ---
 
@@ -31,7 +31,7 @@ end-users, or researchers (see section “Looking Ahead”). Together, the new
 platform enables a more robust deployment process, a more reliable Galaxy
 service, improved system security, and new user features.
 
-<div class="center"><a href="/src/blog/2020-02-gvl5-beta/gvl-login.png">
+<div class="center"><a href="/blog/2020-02-gvl5-beta/gvl-login.png">
     <img src="/blog/2020-02-gvl5-beta/gvl-login.png"
      alt="GVL login" width="80%" />
 </a></div>
@@ -43,7 +43,7 @@ Getting access to a GVL instance is accomplished by launching your own instance
 
 A key feature of the GVL v5.0 is its uniform availability on at least 4 cloud providers, up from just 2 supported by the previous GVL. By combining the [CloudBridge library](http://cloudbridge.cloudve.org/), which provides an abstraction over differences in cloud providers, with software containers, it is now possible to launch an identical version of the GVL on Amazon, Google, Jetstream, and NeCTAR clouds (Azure support is pending). Choosing which provider you want to use is as simple as selecting the appropriate provider from the _Target_ dropdown in CloudLaunch.
 
-<div class="center"><a href="/src/blog/2020-02-gvl5-beta/five-clouds.png">
+<div class="center"><a href="/blog/2020-02-gvl5-beta/five-clouds.png">
     <img src="/blog/2020-02-gvl5-beta/five-clouds.png"
      alt="Multi-cloud selection" width="80%" />
 </a></div>
@@ -53,7 +53,7 @@ The GVL v5.0 also comes with an all-new implementation of CloudMan. CloudMan is
 
 Specifically for Galaxy, CloudMan offers a graphical management interface for Galaxy configuration files. Changing values of `galaxy.yml` or `job_conf.xml` for example can now be accomplished with a visual editor made available within the web browser. Adding new configuration files is also supported. Importantly, all configuration changes are performed with zero-downtime, so when you change a configuration value that requires a process restart, Galaxy will continue to be available and serve user requests during this entire period without users experiencing service disruption. An erroneous configuration can also be rolled back with the click of a button, as all configuration changes are versioned and tracked. Overall, we believe this makes Galaxy administration more accessible while retaining the benefits of a scripted configuration management approach. With this setup, for example, it is possible to manually edit a configuration file without having to setup and use a tool such as Ansible. Meanwhile, Helm will ensure the changes are tracked and can be reversed in case of an undesirable change.
 
-<div class="center"><a href="/src/blog/2020-02-gvl5-beta/cm-galaxy-configs.png">
+<div class="center"><a href="/blog/2020-02-gvl5-beta/cm-galaxy-configs.png">
     <img src="/blog/2020-02-gvl5-beta/cm-galaxy-configs.png"
      alt="Visual Galaxy configuration via CloudMan" width="80%" />
 </a></div>
@@ -65,7 +65,7 @@ Since cloud computing became available, the ability to dynamically scale availab
 
 When should you scale? CloudMan now comes with a customizable status dashboard that monitors system status and allows you to react to the current load. By default, there are two dashboards: a system dashboard and a Galaxy dashboard. The system dashboard provides an overview of system resources, such as CPU and memory usage while the Galaxy dashboard provides insight into Galaxy metrics, such as the number of currently running jobs and distribution of tools used. The dashboard can be customized via [Grafana](https://grafana.com/) so the world is your oyster.
 
-<div class="center"><a href="/src/blog/2020-02-gvl5-beta/cluster-metrics.png">
+<div class="center"><a href="/blog/2020-02-gvl5-beta/cluster-metrics.png">
     <img src="/blog/2020-02-gvl5-beta/cluster-metrics.png"
      alt="CloudMan cluster metrics dashboard" width="80%" />
 </a></div>
@@ -77,7 +77,7 @@ GVL v5.0 also implements improved security practices. The authentication to the
 
 It is now possible to launch GVL instances on any supported cloud with an automatically signed SSL certificate so all the traffic to and from the instance is encrypted. The only requirements are you either have cloud DNS available on your cloud, in which case a DNS name can be automatically assigned for you, or you can pre-map a DNS name to the instance IP address yourself. During launch, select the “Cloud DNS” option and assign a domain name, or if your cloud provider does not support it, select the “Manually Specify” option, in which case you must map the DNS to a floating IP yourself before launching the cluster. CloudMan will take care of the rest to setup a valid SSL certificate that will be automatically renewed before it expires.
 
-<div class="center"><a href="/src/blog/2020-02-gvl5-beta/ssl.png">
+<div class="center"><a href="/blog/2020-02-gvl5-beta/ssl.png">
     <img src="/blog/2020-02-gvl5-beta/ssl.png"
      alt="SSL certificate" width="80%" />
 </a></div>

content/blog/2020-04-gvl5-beta2/index.md

@@ -3,7 +3,7 @@ date: '2020-04-24'
 title: "GVL 5.0-beta2 release"
 authors: "Alexandru Mahmoud, Nuwan Goonasekera, Luke Sargent, Enis Afgan"
 tease: "30% faster and single sign-on, ohh my"
-image: "/src/blog/2020-02-gvl5-beta/gvl-logo-landscape-2018.svg"
+image: "/blog/2020-02-gvl5-beta/gvl-logo-landscape-2018.svg"
 highlight: true
 ---
 

content/blog/2020-06-gvl5-beta3/index.md

@@ -3,7 +3,7 @@ date: '2020-06-22'
 title: "Multi-tenant, multi-project GVL with Galaxy, Jupyter, Terminal, and RStudio"
 authors: "Alexandru Mahmoud, Nuwan Goonasekera, Enis Afgan"
 tease: "Complete analysis on one platform, including training and collaboration"
-image: "/src/blog/2020-02-gvl5-beta/gvl-logo-landscape-2018.svg"
+image: "/blog/2020-02-gvl5-beta/gvl-logo-landscape-2018.svg"
 highlight: true
 ---
 
@@ -46,7 +46,7 @@ can run differentiated toolsets, be supported by different cloud allocations,
 or be made available to targeted users.
 
 <div class="center">
-    <a href="/src/blog/2020-06-gvl5-beta3/gvl-projects.png">
+    <a href="/blog/2020-06-gvl5-beta3/gvl-projects.png">
         <img src="/blog/2020-06-gvl5-beta3/gvl-projects.png" width="80%" />
     </a>
 </div>
@@ -77,7 +77,7 @@ access to those applications and can install any additional packages within
 those applications that are needed for the analysis.
 
 <div class="center">
-    <a href="/src/blog/2020-06-gvl5-beta3/gvl-login.png">
+    <a href="/blog/2020-06-gvl5-beta3/gvl-login.png">
         <img src="/blog/2020-06-gvl5-beta3/gvl-apps.png" width="80%" />
     </a>
 </div>

content/blog/2020-07-gvl5-beta4/index.md

@@ -3,7 +3,7 @@ date: '2020-07-16'
 title: "GVL 5.0-beta4: data browser, project-level isolation, and Galaxy 20.05"
 authors: "Nuwan Goonasekera, Alexandru Mahmoud, Mohamad Safadieh, Enis Afgan"
 tease: "The GVL workbench now integrated through data"
-image: "/src/blog/2020-02-gvl5-beta/gvl-logo-landscape-2018.svg"
+image: "/blog/2020-02-gvl5-beta/gvl-logo-landscape-2018.svg"
 highlight: true
 ---
 

content/blog/2020-08-10k-pubs/index.md

@@ -2,7 +2,7 @@
 date: '2020-08-26'
 title: "Galaxy: the first 10,000 pubs "
 tease: "The Galaxy Publication Library hits a milestone"
-image: /src/images/logos/zotero-logo-small-trans.png
+image: /images/logos/zotero-logo-small-trans.png
 authors: "Dave Clements"
 ---