From a83a2caf0c38e7ada975323c246d78ce5c808001 Mon Sep 17 00:00:00 2001
From: Dilawar Singh <dilawars@ncbs.res.in>
Date: Wed, 1 Jun 2016 11:21:45 +0530
Subject: [PATCH] Fixed some more image links.
---
docs/index.rst | 4 ++--
docs/introduction/changes/index.rst | 2 ++
docs/introduction/index.rst | 1 -
docs/introduction/known_issues/index.rst | 2 +-
docs/introduction/release_notes/index.rst | 2 ++
docs/user/py/classes/index.rst | 1 -
docs/user/py/cookbook/index.rst | 16 ++++++++--------
docs/user/py/rdesigneur/index.rst | 4 ++--
8 files changed, 17 insertions(+), 15 deletions(-)
diff --git a/docs/index.rst b/docs/index.rst
index 8e36a24f..9ba3f9d9 100644
--- a/docs/index.rst
+++ b/docs/index.rst
@@ -5,6 +5,7 @@
the Multiscale Object-Oriented Simulation Environment
=====================================================
+
What is MOOSE and what is it good for?
--------------------------------------
@@ -15,7 +16,7 @@ MOOSE can operate at many levels of detail, from stochastic chemical
computations, to multicompartment single-neuron models, to spiking neuron
network models.
-.. figure:: ../../images/Gallery_Moose_Multiscale.png
+.. figure:: ./images/Gallery_Moose_Multiscale.png
:alt: **multiple scales in moose**
:scale: 50%
@@ -56,4 +57,3 @@ Indices and tables
* :ref:`genindex`
* :ref:`modindex`
* :ref:`search`
-
diff --git a/docs/introduction/changes/index.rst b/docs/introduction/changes/index.rst
index 9f43a992..9a167f14 100644
--- a/docs/introduction/changes/index.rst
+++ b/docs/introduction/changes/index.rst
@@ -1,2 +1,4 @@
Changes
=======
+
+.. todo:: collect changes from OBS.
diff --git a/docs/introduction/index.rst b/docs/introduction/index.rst
index 7561ac41..88ba2bda 100644
--- a/docs/introduction/index.rst
+++ b/docs/introduction/index.rst
@@ -2,7 +2,6 @@ Introduction
============
.. toctree::
- :maxdepth: 1
install/index
release_notes/index
diff --git a/docs/introduction/known_issues/index.rst b/docs/introduction/known_issues/index.rst
index f8b15cd3..0ad5cdd6 100644
--- a/docs/introduction/known_issues/index.rst
+++ b/docs/introduction/known_issues/index.rst
@@ -1,5 +1,5 @@
Known issues
-===========
+============
Full report can be found at the following places
diff --git a/docs/introduction/release_notes/index.rst b/docs/introduction/release_notes/index.rst
index 1d58ca6d..862216e9 100644
--- a/docs/introduction/release_notes/index.rst
+++ b/docs/introduction/release_notes/index.rst
@@ -1,2 +1,4 @@
Release Notes
============
+
+.. todo:: Collect release notes from github.
diff --git a/docs/user/py/classes/index.rst b/docs/user/py/classes/index.rst
index c9490cbe..fa64a75b 100644
--- a/docs/user/py/classes/index.rst
+++ b/docs/user/py/classes/index.rst
@@ -2,7 +2,6 @@
.. As visible in the Python module
.. Auto-generated on October 01, 2014
-=============
MOOSE Classes
=============
diff --git a/docs/user/py/cookbook/index.rst b/docs/user/py/cookbook/index.rst
index de319238..193d3eee 100644
--- a/docs/user/py/cookbook/index.rst
+++ b/docs/user/py/cookbook/index.rst
@@ -25,7 +25,7 @@ The Hodgkin-Huxley demo
This is a self-contained graphical demo implemented by Subhasis Ray,
closely based on the 'Squid' demo by Mark Nelson which ran in GENESIS.
-.. figure:: ../../images/squid_demo.png
+.. figure:: ../../../images/squid_demo.png
:alt: Hodgkin-Huxley's squid giant axon experiment
Simulation of Hodgkin-Huxley's experiment on squid giant axon
@@ -51,7 +51,7 @@ Accessing and tweaking parameters
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
.. automodule:: tweakingParameters
:members:
-.. figure:: ../../images/tweakingParameters.png
+.. figure:: ../../../images/tweakingParameters.png
:alt: Three oscillation patterns after tweaking model parameters.
Storing simulation output
@@ -73,7 +73,7 @@ Sometimes you want to calculate arbitrary function of the state
variables of one or more elements and feed the result into another
element during a simulation. The Function class is useful for this.
-.. figure:: ../../images/function.png
+.. figure:: ../../../images/function.png
:alt: Outputs of Function object calculating z = c0 * exp(c1 * x) * cos(y)
:scale: 50%
@@ -142,7 +142,7 @@ Finding steady states
Making a dose-response curve
^^^^^^^^^^^^^^^^^^^^^^^^^^^^
-.. figure:: ../../images/chemDoseResponse.png
+.. figure:: ../../../images/chemDoseResponse.png
:alt: Dose-response curve example for a bistable system.
.. automodule:: chemDoseResponse
:members:
@@ -323,7 +323,7 @@ in every compartment of the model neurons, so as to see nice oscillations
and animations. The first example has a particularly striking pseudo-3D
rendition of the neuron and the molecular spatial oscillations within it.
-.. figure:: ../../images/reacDiffBranchingNeuron.png
+.. figure:: ../../../images/reacDiffBranchingNeuron.png
:alt: Pseudo-3-D rendition of branching neuron and the concs in it.
.. automodule:: reacDiffBranchingNeuron
@@ -374,7 +374,7 @@ C\ :sub:`m`\ , as in the figure below.
--------------
-.. figure:: ../../images/neuroncompartment.png
+.. figure:: ../../../images/neuroncompartment.png
:align: center
:alt: **Equivalent circuit of neuronal compartments**
@@ -621,7 +621,7 @@ stimulating the presynaptic cell as part of experimental setup. The
cells are defined as single-compartments with Hodgkin-Huxley type Na+
and K+ channels (see :ref:`hhmodel`)
-.. figure:: ../../images/twoCells.png
+.. figure:: ../../../images/twoCells.png
:scale: 50%
:alt: Two cells connected via synapse
@@ -643,7 +643,7 @@ Providing random input to a cell
.. automodule:: randomspike
:members:
-.. figure:: ../../images/randomSpike.png
+.. figure:: ../../../images/randomSpike.png
:scale: 50%
:alt: Random spike input to a cell
diff --git a/docs/user/py/rdesigneur/index.rst b/docs/user/py/rdesigneur/index.rst
index 9a86e785..796bfddd 100644
--- a/docs/user/py/rdesigneur/index.rst
+++ b/docs/user/py/rdesigneur/index.rst
@@ -755,9 +755,9 @@ predefined chemical model file for Rdesigneur, which resides in the
electrical calculations here as they are not needed. Here we plot out
the number of receptors on every single spine as a function of time.
-(stuff here)
+.. todo:: (stuff here)
Make a full multiscale model with complex spiny morphology and electrical and chemical signaling.
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-(stuff here)
+.. todo:: (stuff here)
--
GitLab