fixed toolbar, removed mention of Canva slides

chbh-opensource · Jan 27, 2025 · e305530 · e305530
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diff --git a/docs/stylesheets/extra.css b/docs/stylesheets/extra.css
@@ -2,6 +2,10 @@
     padding-bottom: 4rem; /* Add space for the navigation buttons */
 }
 
+.md-main__inner {
+    padding-bottom: 14rem;  /* Fix problematic toolbar issue for last page */
+}
+
 .md-footer-nav {
     background-color: white;
     color: var(--md-primary-fg-color);

diff --git a/docs/workshop1/intro-to-linux.md b/docs/workshop1/intro-to-linux.md
@@ -317,6 +317,4 @@ The correct commands are provided below. (click to reveal)
 
     - A useful textbook on essential Linux commands is the [Linux Pocket Guide](/~https://github.com/kxzk/library/blob/master/command_line/Linux%20Pocket%20Guide%2C%203rd%20Edition.pdf) by Daniel J. Barratt.
     - The Carpentries (an organisation providing free training for various software engineering and data science skills) have an [introduction to UNIX course](https://preview.carpentries.org/lc-shell/).
-    - Iowa State University also have a [course](https://www.hpc.iastate.edu/guides/unix-introduction) introducing users to UNIX.
-
-<b>The copy of this workshop notes can be found on Canvas 39058 - LM Magnetic Resonance Imaging in Cognitive Neuroscience in Week 01 workshop materials.</b>
+    - Iowa State University also have a [course](https://www.hpc.iastate.edu/guides/unix-introduction) introducing users to UNIX.
diff --git a/docs/workshop1/workshop1-intro.md b/docs/workshop1/workshop1-intro.md
@@ -14,6 +14,4 @@ Linux OS is similar to other operating systems such as Mac OS and Windows, and c
     - An introduction to Linux, and using basic Linux commands in the Terminal
 
 !!! danger "Pre-requisites for the workshop"
-    Please ensure that you have completed the '[Setting Up](https://chbh-opensource.github.io/mri-on-bear-edu/setting-up/)' section of this course, as you will require access to the BEAR Portal for this workshop.
-
-<b>The copy of this workshop notes can be found on Canvas 39058 - LM Magnetic Resonance Imaging in Cognitive Neuroscience in Week 01 workshop materials.</b>
+    Please ensure that you have completed the '[Setting Up](https://chbh-opensource.github.io/mri-on-bear-edu/setting-up/)' section of this course, as you will require access to the BEAR Portal for this workshop.
diff --git a/docs/workshop2/workshop2-intro.md b/docs/workshop2/workshop2-intro.md
@@ -22,6 +22,4 @@ For the purpose of the module we will be using BlueBEAR. You should remember fro
 
 You have already been given access to the RDS project, `rds/projects/c/chechlmy-chbh-mricn`. Inside the module’s RDS project, you will find that you have a folder labelled `xxx` (`xxx` = University of Birmingham ADF username). 
 
-If you navigate to that folder `(rds/projects/c/chechlmy-chbh-mricn/xxx)`, you will be able to perform the various file operations from there during workshops.
-
-<b>The copy of this workshop notes can be found on Canvas 39058 - LM Magnetic Resonance Imaging in Cognitive Neuroscience in Week 02 workshop materials.</b>
+If you navigate to that folder `(rds/projects/c/chechlmy-chbh-mricn/xxx)`, you will be able to perform the various file operations from there during workshops.
diff --git a/docs/workshop3/workshop3-intro.md b/docs/workshop3/workshop3-intro.md
@@ -16,6 +16,4 @@ By the end of the two workshops, you should be able to understand the principles
 
 We will be working with various previously acquired datasets (similar to the data acquired during the CHBH MRI Demonstration/Site visit). We will not go into details as to why and how specific sequence parameters and specific values of the default settings have been chosen. Some values should be clear to you from the lectures or assigned on Canvas readings, please check there, or if you are still unclear, feel free to ask. 
 
-Note that for your own projects, you are very likely to want to change some of these settings/parameters depending on your study aims and design. 
-
-<b>The copy of this workshop notes can be found on Canvas 39058 - LM Magnetic Resonance Imaging in Cognitive Neuroscience in Week 03 workshop materials.</b>
+Note that for your own projects, you are very likely to want to change some of these settings/parameters depending on your study aims and design. 
diff --git a/docs/workshop4/workshop4-intro.md b/docs/workshop4/workshop4-intro.md
@@ -27,6 +27,4 @@ In this workshop we will follow basic steps in the diffusion MRI analysis pipeli
 
 <p align="center">
  <img src="../../assets/images/workshop4/intro/diffusion_mri_pipeline.png" alt="TBSS Pipeline" width="800" height="300">
-</p>
-
-<b>The copy of this workshop notes can be found on Canvas 39058 - LM Magnetic Resonance Imaging in Cognitive Neuroscience in Week 04 workshop materials.</b>
+</p>
diff --git a/docs/workshop5/workshop5-intro.md b/docs/workshop5/workshop5-intro.md
@@ -20,6 +20,4 @@ We will also revisit the use of Brain Extraction Tool (BET), and learn how to tr
 
 We will not go into details as to why and how specific values of the default settings have been chosen.
 Some values should be clear to you from the lectures or resource list readings, please check there or if you are still unclear feel free to ask. 
-We will explore some general examples. Note that for your own projects you are very likely to want to change some of these settings/parameters depending on your study aims and design. 
-
-<b>The copy of this workshop notes can be found on Canvas 39058 - LM Magnetic Resonance Imaging in Cognitive Neuroscience in Week 05 workshop materials.</b>
+We will explore some general examples. Note that for your own projects you are very likely to want to change some of these settings/parameters depending on your study aims and design. 
diff --git a/docs/workshop6/workshop6-intro.md b/docs/workshop6/workshop6-intro.md
@@ -12,6 +12,4 @@ Prior workshops introduced you to running MRI analysis with various FSL tools by
     - Working with FSL software containers using Apptainer as an alternative to pre-installed versions
 
 !!! note "More information"
-    The [BEAR Technical Docs](https://docs.bear.bham.ac.uk/) provides guidance on submitting jobs to the cluster.
-
-<b>The copy of this workshop notes can be found on Canvas 39058 - LM Magnetic Resonance Imaging in Cognitive Neuroscience in Week 06 workshop materials.</b>
+    The [BEAR Technical Docs](https://docs.bear.bham.ac.uk/) provides guidance on submitting jobs to the cluster.
diff --git a/docs/workshop7/workshop7-intro.md b/docs/workshop7/workshop7-intro.md
@@ -19,6 +19,4 @@ As in the other workshops we will not discuss in detail why you might choose cer
 You are encouraged to read the pop-up help throughout (hold your mouse arrow over FSL GUI buttons and menus when setting your FEAT design), refer to your lecture notes lectures or resource list readings.
 
 !!! note "More information"
-    As always, you can also find more information on running higher-level fMRI analyses on the [FSL website](https://fsl.fmrib.ox.ac.uk/fsl/docs/#/).
-
-<b>The copy of this workshop notes can be found on Canvas 39058 - LM Magnetic Resonance Imaging in Cognitive Neuroscience in Week 07 workshop materials.</b>
+    As always, you can also find more information on running higher-level fMRI analyses on the [FSL website](https://fsl.fmrib.ox.ac.uk/fsl/docs/#/).