From 97946e44b77f14b1cbc857659a5b6f2b8ba2461b Mon Sep 17 00:00:00 2001 From: Robert Smith Date: Wed, 1 Jul 2020 18:29:32 +1000 Subject: [PATCH] Docs: Update to match version 3.0.1 --- docs/reference/commands/amp2sh.rst | 2 +- docs/reference/commands/dwi2fod.rst | 2 +- docs/reference/commands/fixel2sh.rst | 2 +- docs/reference/commands/sh2amp.rst | 2 +- docs/reference/commands/sh2peaks.rst | 2 +- docs/reference/commands/sh2power.rst | 2 +- docs/reference/commands/sh2response.rst | 2 +- docs/reference/commands/shbasis.rst | 2 +- docs/reference/commands/shconv.rst | 4 ++-- 9 files changed, 10 insertions(+), 10 deletions(-) diff --git a/docs/reference/commands/amp2sh.rst b/docs/reference/commands/amp2sh.rst index 6565beabc1..2105a41ab3 100644 --- a/docs/reference/commands/amp2sh.rst +++ b/docs/reference/commands/amp2sh.rst @@ -26,7 +26,7 @@ The spherical harmonic decomposition is calculated by least-squares linear fitti The directions can be defined either as a DW gradient scheme (for example to compute the SH representation of the DW signal), a set of [az el] pairs as output by the dirgen command, or a set of [ x y z ] directions in Cartesian coordinates. The DW gradient scheme or direction set can be supplied within the input image header or using the -gradient or -directions option. Note that if a direction set and DW gradient scheme can be found, the direction set will be used by default. The spherical harmonic coefficients are stored according the conventions described the main documentation, which can be found at the following link: |br| -https://mrtrix.readthedocs.io/en/3.0.0/concepts/spherical_harmonics.html +https://mrtrix.readthedocs.io/en/3.0.1/concepts/spherical_harmonics.html Options ------- diff --git a/docs/reference/commands/dwi2fod.rst b/docs/reference/commands/dwi2fod.rst index 623908e05b..0dcf4bbc00 100644 --- a/docs/reference/commands/dwi2fod.rst +++ b/docs/reference/commands/dwi2fod.rst @@ -23,7 +23,7 @@ Description ----------- The spherical harmonic coefficients are stored according the conventions described the main documentation, which can be found at the following link: |br| -https://mrtrix.readthedocs.io/en/3.0.0/concepts/spherical_harmonics.html +https://mrtrix.readthedocs.io/en/3.0.1/concepts/spherical_harmonics.html Example usages -------------- diff --git a/docs/reference/commands/fixel2sh.rst b/docs/reference/commands/fixel2sh.rst index 108a8985f7..369570e545 100644 --- a/docs/reference/commands/fixel2sh.rst +++ b/docs/reference/commands/fixel2sh.rst @@ -24,7 +24,7 @@ Description This command generates spherical harmonic data from fixels that can be visualised using the ODF tool in MRview. The output ODF lobes are scaled according to the values in the input fixel image. The spherical harmonic coefficients are stored according the conventions described the main documentation, which can be found at the following link: |br| -https://mrtrix.readthedocs.io/en/3.0.0/concepts/spherical_harmonics.html +https://mrtrix.readthedocs.io/en/3.0.1/concepts/spherical_harmonics.html Options ------- diff --git a/docs/reference/commands/sh2amp.rst b/docs/reference/commands/sh2amp.rst index fb781e7b28..c2a5f86fb7 100644 --- a/docs/reference/commands/sh2amp.rst +++ b/docs/reference/commands/sh2amp.rst @@ -35,7 +35,7 @@ If a full DW encoding is provided, the number of shells needs to match those fou If the input image contains multiple shells (its size along the 5th dimension is greater than one), the program will expect the direction set to contain multiple shells, which can only be provided as a full DW encodings (the last two options in the list above). The spherical harmonic coefficients are stored according the conventions described the main documentation, which can be found at the following link: |br| -https://mrtrix.readthedocs.io/en/3.0.0/concepts/spherical_harmonics.html +https://mrtrix.readthedocs.io/en/3.0.1/concepts/spherical_harmonics.html Options ------- diff --git a/docs/reference/commands/sh2peaks.rst b/docs/reference/commands/sh2peaks.rst index fc8c9ffaae..19648aa794 100644 --- a/docs/reference/commands/sh2peaks.rst +++ b/docs/reference/commands/sh2peaks.rst @@ -24,7 +24,7 @@ Description Peaks of the spherical harmonic function in each voxel are located by commencing a Newton search along each of a set of pre-specified directions The spherical harmonic coefficients are stored according the conventions described the main documentation, which can be found at the following link: |br| -https://mrtrix.readthedocs.io/en/3.0.0/concepts/spherical_harmonics.html +https://mrtrix.readthedocs.io/en/3.0.1/concepts/spherical_harmonics.html Options ------- diff --git a/docs/reference/commands/sh2power.rst b/docs/reference/commands/sh2power.rst index a9ae03e1f5..f180aff7aa 100644 --- a/docs/reference/commands/sh2power.rst +++ b/docs/reference/commands/sh2power.rst @@ -24,7 +24,7 @@ Description This command computes the sum of squared SH coefficients, which equals the mean-squared amplitude of the spherical function it represents. The spherical harmonic coefficients are stored according the conventions described the main documentation, which can be found at the following link: |br| -https://mrtrix.readthedocs.io/en/3.0.0/concepts/spherical_harmonics.html +https://mrtrix.readthedocs.io/en/3.0.1/concepts/spherical_harmonics.html Options ------- diff --git a/docs/reference/commands/sh2response.rst b/docs/reference/commands/sh2response.rst index d42e24d90a..dde4d0c7dc 100644 --- a/docs/reference/commands/sh2response.rst +++ b/docs/reference/commands/sh2response.rst @@ -24,7 +24,7 @@ Description ----------- The spherical harmonic coefficients are stored according the conventions described the main documentation, which can be found at the following link: |br| -https://mrtrix.readthedocs.io/en/3.0.0/concepts/spherical_harmonics.html +https://mrtrix.readthedocs.io/en/3.0.1/concepts/spherical_harmonics.html Options ------- diff --git a/docs/reference/commands/shbasis.rst b/docs/reference/commands/shbasis.rst index e9fdd6b503..d0ba8c049d 100644 --- a/docs/reference/commands/shbasis.rst +++ b/docs/reference/commands/shbasis.rst @@ -27,7 +27,7 @@ This command provides a mechanism for testing the basis used in storage of image Note that the "force_*" conversion choices should only be used in cases where this command has previously been unable to automatically determine the SH basis from the image data, but the user themselves are confident of the SH basis of the data. The spherical harmonic coefficients are stored according the conventions described the main documentation, which can be found at the following link: |br| -https://mrtrix.readthedocs.io/en/3.0.0/concepts/spherical_harmonics.html +https://mrtrix.readthedocs.io/en/3.0.1/concepts/spherical_harmonics.html Options ------- diff --git a/docs/reference/commands/shconv.rst b/docs/reference/commands/shconv.rst index a9ae8becac..144d252b8d 100644 --- a/docs/reference/commands/shconv.rst +++ b/docs/reference/commands/shconv.rst @@ -28,10 +28,10 @@ If multiple pairs of inputs are provided, their contributions will be summed int If the responses are multi-shell (with one line of coefficients per shell), the output will be a 5-dimensional image, with the SH coefficients of the signal in each shell stored at different indices along the 5th dimension. The spherical harmonic coefficients are stored according the conventions described the main documentation, which can be found at the following link: |br| -https://mrtrix.readthedocs.io/en/3.0.0/concepts/spherical_harmonics.html +https://mrtrix.readthedocs.io/en/3.0.1/concepts/spherical_harmonics.html The spherical harmonic coefficients are stored according the conventions described the main documentation, which can be found at the following link: |br| -https://mrtrix.readthedocs.io/en/3.0.0/concepts/spherical_harmonics.html +https://mrtrix.readthedocs.io/en/3.0.1/concepts/spherical_harmonics.html Options -------