DOC: Update BIAP links

effigies · effigies · commit 0d3737ab2326 · 2021-05-13T08:38:50.000-04:00
diff --git a/doc/source/devel/biaps/biap_0001.rst b/doc/source/devel/biaps/biap_0001.rst
@@ -1,3 +1,5 @@
+.. _biap1:
+
 ################################
 BIAP1 - towards immutable images
 ################################
diff --git a/doc/source/devel/biaps/biap_0002.rst b/doc/source/devel/biaps/biap_0002.rst
@@ -1,3 +1,5 @@
+.. _biap2:
+
 #################
 BIAP2 : Slicecopy
 #################
diff --git a/doc/source/devel/biaps/biap_0003.rst b/doc/source/devel/biaps/biap_0003.rst
@@ -1,3 +1,5 @@
+.. _biap3:
+
 #####################################
 BIAP3 - a JSON nifti header extension
 #####################################
diff --git a/doc/source/devel/biaps/biap_0004.rst b/doc/source/devel/biaps/biap_0004.rst
@@ -1,3 +1,5 @@
+.. _biap4:
+
 ####################################
 BIAP4 - merging nibabel and dcmstack
 ####################################
diff --git a/doc/source/devel/biaps/biap_0005.rst b/doc/source/devel/biaps/biap_0005.rst
@@ -1,3 +1,5 @@
+.. _biap5:
+
 ###############################
 BIAP5 - a streamlines converter
 ###############################
diff --git a/doc/source/devel/biaps/biap_0006.rst b/doc/source/devel/biaps/biap_0006.rst
@@ -1,3 +1,5 @@
+.. _biap6:
+
 ##############################
 BIAP6 - identifying image axes
 ##############################
diff --git a/doc/source/devel/biaps/biap_0007.rst b/doc/source/devel/biaps/biap_0007.rst
@@ -1,3 +1,5 @@
+.. _biap7:
+
 ###############################
 BIAP7 - loading multiple images
 ###############################
diff --git a/doc/source/devel/biaps/biap_0008.rst b/doc/source/devel/biaps/biap_0008.rst
@@ -1,3 +1,5 @@
+.. _biap8:
+
 ################################################
 BIAP8 - always load image data as floating point
 ################################################
diff --git a/doc/source/devel/biaps/biap_template.rst b/doc/source/devel/biaps/biap_template.rst
@@ -1,4 +1,4 @@
-.. _`biap_template`:
+.. _biap_template:
 
 ==================================
 BIAP X — Template and Instructions
diff --git a/doc/source/devel/roadmap.rst b/doc/source/devel/roadmap.rst
@@ -37,7 +37,7 @@ way the image was acquired.  Axes have natural labels, expressing meaning,
 such as "time" or "slice", and they may have tick labels such as acquisition
 time. The scanner captures this information, but typical image formats cannot
 store it, so it is easy to lose metadata and make analysis errors; see
-:doc:`biap_0006`.
+:ref:`biap6`.
 
 We plan to expand Nibabel's API to encode axis and tick labels by integrating
 the Xarray package: `http://xarray.pydata.org`_.  Xarray simplifies HDF5
@@ -49,12 +49,12 @@ data, or save them with the image.  We plan to:
 * Develop HDF5 equivalents of standard image formats, for serialization of
   data with labels.
 * Expand the current standard image format, NIfTI, to store labels in a JSON
-  addition to image metadata: `https://github.com/nipy/nibabel/wiki/BIAP3`_.
+  addition to image metadata: :ref:`biap3`.
 * Read image metadata from DICOM, the standard scanner format.
 
-Reading and attaching DICOM data will start with code integrated from Dcmstack,
-by Brendan Moloney: `https://github.com/moloney/dcmstack`_; see:
-`https://github.com/nipy/nibabel/wiki/BIAP4`_.
+Reading and attaching DICOM data will start with code integrated from
+`Dcmstack <https://github.com/moloney/dcmstack>`_, by Brendan Moloney; see:
+:ref:`biap4`.
 
 DICOM metadata is often hidden inside "private" DICOM elements that need
 specialized parsers. We want to expand these parsers to preserve full metadata

Original file line number	Diff line number	Diff line change
`@@ -1,3 +1,5 @@`
	`1`	`+.. _biap1:`
	`2`	`+`
`1`	`3`	`################################`
`2`	`4`	`BIAP1 - towards immutable images`
`3`	`5`	`################################`
Original file line number	Diff line number	Diff line change
`@@ -1,3 +1,5 @@`
	`1`	`+.. _biap2:`
	`2`	`+`
`1`	`3`	`#################`
`2`	`4`	`BIAP2 : Slicecopy`
`3`	`5`	`#################`
Original file line number	Diff line number	Diff line change
`@@ -1,3 +1,5 @@`
	`1`	`+.. _biap3:`
	`2`	`+`
`1`	`3`	`#####################################`
`2`	`4`	`BIAP3 - a JSON nifti header extension`
`3`	`5`	`#####################################`
Original file line number	Diff line number	Diff line change
`@@ -1,3 +1,5 @@`
	`1`	`+.. _biap4:`
	`2`	`+`
`1`	`3`	`####################################`
`2`	`4`	`BIAP4 - merging nibabel and dcmstack`
`3`	`5`	`####################################`
Original file line number	Diff line number	Diff line change
`@@ -1,3 +1,5 @@`
	`1`	`+.. _biap5:`
	`2`	`+`
`1`	`3`	`###############################`
`2`	`4`	`BIAP5 - a streamlines converter`
`3`	`5`	`###############################`
Original file line number	Diff line number	Diff line change
`@@ -1,3 +1,5 @@`
	`1`	`+.. _biap6:`
	`2`	`+`
`1`	`3`	`##############################`
`2`	`4`	`BIAP6 - identifying image axes`
`3`	`5`	`##############################`
Original file line number	Diff line number	Diff line change
`@@ -1,3 +1,5 @@`
	`1`	`+.. _biap7:`
	`2`	`+`
`1`	`3`	`###############################`
`2`	`4`	`BIAP7 - loading multiple images`
`3`	`5`	`###############################`
Original file line number	Diff line number	Diff line change
`@@ -1,3 +1,5 @@`
	`1`	`+.. _biap8:`
	`2`	`+`
`1`	`3`	`################################################`
`2`	`4`	`BIAP8 - always load image data as floating point`
`3`	`5`	`################################################`
Original file line number	Diff line number	Diff line change
`@@ -1,4 +1,4 @@`
`1`		-.. _`biap_template`:
	`1`	`+.. _biap_template:`
`2`	`2`
`3`	`3`	`==================================`
`4`	`4`	`BIAP X — Template and Instructions`