sort layout power up

pangenome · Jan 31, 2024 · f75c854 · f75c854
1 parent 1e12685
commit f75c854
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Showing 4 changed files with 7 additions and 7 deletions.
diff --git a/docs/img/DRB1-3123_sorting_layouting.png b/docs/img/DRB1-3123_sorting_layouting.png
diff --git a/docs/index.rst b/docs/index.rst
@@ -79,7 +79,7 @@ Core Functionalities
     :target: rst/tutorials/extract_selected_loci.html
 
 .. |sorting_layouting| image:: img/DRB1-3123_sorting_layouting.png
-    :target: rst/tutorials/sorting_layouting.html
+    :target: rst/tutorials/sort_layout.html
 
 .. |navigating_and_annotating_graphs| image:: img/nav_welcome.png
     :target: rst/tutorials/navigating_and_annotating_graphs.html

diff --git a/docs/rst/quick_start.rst b/docs/rst/quick_start.rst
@@ -18,12 +18,12 @@ version 1 (`GFAv1 <https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8006571/#FN8>`_)
 Build graph from GFA
 ----------------------------
 
-Assuming that your current working directory is the root of the ``odgi`` project, to construct an ``odgi`` file from a
-``GFA`` file, execute:
+To construct an ``odgi`` file from a ``GFA`` file, execute:
 
 .. code-block:: bash
 
-    odgi build -g test/DRB1-3123.gfa -o DRB1-3123.og
+	wget https://raw.githubusercontent.com/pangenome/odgi/master/test/DRB1-3123.gfa
+    odgi build -g DRB1-3123.gfa -o DRB1-3123.og
 
 The command creates a file called ``DRB1-3123.og``, which contains the input graph in ``odgi`` format.
 

diff --git a/docs/rst/tutorials/sort_layout.rst b/docs/rst/tutorials/sort_layout.rst
@@ -39,12 +39,12 @@ to take a look at the calculated layout using static and interactive tools.
 Build the unsorted DRB1-3123 graph
 ----------------------------------
 
-Assuming that your current working directory is the root of the ``odgi`` project, to construct an ``odgi`` graph from the
-``DRB1-3123`` dataset in ``GFA`` format, execute:
+To construct an ``odgi`` graph from the ``DRB1-3123`` dataset in ``GFA`` format, execute:
 
 .. code-block:: bash
 
-    odgi build -g test/DRB1-3123_unsorted.gfa -o DRB1-3123_unsorted.og
+	wget https://raw.githubusercontent.com/pangenome/odgi/master/test/DRB1-3123_unsorted.gfa
+    odgi build -g DRB1-3123_unsorted.gfa -o DRB1-3123_unsorted.og
 
 The command creates a file called ``DRB1-3123_unsorted.og``, which contains the input graph in ``odgi`` format. This graph contains
 12 ALT sequences of the `HLA-DRB1 gene <https://www.ncbi.nlm.nih.gov/gene/3123>`_ from the GRCh38 reference genome.