From aaf078bbc140428a4953c2fd917c7d39da9e28b3 Mon Sep 17 00:00:00 2001
From: Michiel Cottaar <michiel.cottaar@ndcn.ox.ac.uk>
Date: Thu, 23 Jan 2020 16:18:49 +0000
Subject: [PATCH] Updated instructions to reflect jupyter notebook is already
installed
---
README.md | 36 +++++-------------------------------
1 file changed, 5 insertions(+), 31 deletions(-)
diff --git a/README.md b/README.md
index 3d52f27..3caa354 100644
--- a/README.md
+++ b/README.md
@@ -24,36 +24,13 @@ installed.
## For attendees
-To run these notebooks in the `fslpython` environment, you must first install
-jupyter:
-
-
-```
-# If your FSL installation requires administrative privileges to modify, then
-# you MUST run these commands as root - don't just prefix each individual
-# command with sudo, or you will probably install jupyter into the wrong
-# location!
-#
-# One further complication - once you have become root, $FSLDIR may not be set,
-# so either set it as we have done below, or make sure that it is set, before
-# proceeding.
-sudo su
-export FSLDIR=/usr/local/fsl
-source $FSLDIR/fslpython/bin/activate fslpython
-conda install jupyter
-source deactivate
-ln -s $FSLDIR/fslpython/envs/fslpython/bin/jupyter $FSLDIR/bin/fsljupyter
-```
-
-
-Then, clone this repository on your local machine, and run
-`fsljupyter notebook`:
+These notebooks can be run in the `fslpython` environment using:
```
git clone git@git.fmrib.ox.ac.uk:fsl/pytreat-2018-practicals.git
cd pytreat-2018-practicals
-fsljupyter notebook
+fslpython -m notebook
```
@@ -110,17 +87,14 @@ To contribute to the practicals:
repository.
-When you install `jupyter` above, you may also wish to install
+You may also wish to install
[`notedown`](https://github.com/aaren/notedown):
```
-# .
-# see instructions above
-# .
-conda install jupyter
+source $FSLDIR/fslpython/bin/activate fslpython
pip install notedown
source deactivate
-ln -s $FSLDIR/fslpython/envs/fslpython/bin/jupyter $FSLDIR/bin/fsljupyter
+fslpython -m notedown
ln -s $FSLDIR/fslpython/envs/fslpython/bin/notedown $FSLDIR/bin/fslnotedown
```
--
GitLab