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<article id="content">
<header>
<h1 class="title">Module <code>pymskt.mesh.anatomical.femur_long_axis</code></h1>
</header>
<section id="section-intro">
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">import numpy as np
from vtk.util.numpy_support import vtk_to_numpy
import pyvista as pv
from pymskt.statistics.pca import pca_svd
class FitLongAxisFemur:
def __init__(
self,
femur,
labels_name='labels',
cart_label=1,
bone_label=0,
percent_epiph_higher=0.3,
n_pts=100,
buffer=1,
use_center_pts_only=True
):
self.femur = femur
self.labels_name = labels_name
self.cart_label = cart_label
self.bone_label = bone_label
self.percent_epiph_higher = percent_epiph_higher
self.n_pts = n_pts
self.buffer = buffer
self.use_center_pts_only = use_center_pts_only
self._bone_pts = None
self._cart_pts = None
self.min_cart = None
self.min_bone = None
self.max_cart = None
self.max_bone = None
self.long_axis = None
self.proximal = None
self.origin = None
self._diaph_points = None
self._epiph_points = None
self._vector = None
def get_bone_cart_points(self):
labels = vtk_to_numpy(self.femur.mesh.GetPointData().GetArray(self.labels_name))
if (type(self.cart_label) == list) or (type(self.cart_label) == tuple):
cart_indices = None
for cart_label in self.cart_label:
if cart_indices is None:
cart_indices = labels == cart_label
cart_indices += labels == cart_label
else:
cart_indices = labels == self.cart_label
cart_ids = np.where(cart_indices)
cart_pts = np.squeeze(self.femur.point_coords[cart_ids,:])
bone_ids = np.where(labels == self.bone_label)
bone_pts = np.squeeze(self.femur.point_coords[bone_ids,:])
self._bone_pts = bone_pts
self._cart_pts = cart_pts
def get_min_max_bone_cart(self):
if (self._bone_pts is None) or (self._cart_pts is None):
self.get_bone_cart_points()
self.max_cart = np.max(self._cart_pts, axis=0)
self.max_bone = np.max(self._bone_pts, axis=0)
self.min_cart = np.min(self._cart_pts, axis=0)
self.min_bone = np.min(self._bone_pts, axis=0)
def get_long_axis_and_proximal_direction(self):
if (self._bone_pts is None) or (self._cart_pts is None):
self.get_bone_cart_points()
if (self.max_cart is None) or (self.max_bone is None) or (self.min_cart is None) or (self.min_bone is None):
self.get_min_max_bone_cart()
cart_range = self.max_cart - self.min_cart
bone_range = self.max_bone - self.min_bone
long_axis = np.argmax(np.abs(cart_range - bone_range))
if np.abs(self.max_cart[2] - self.max_bone[2]) > np.abs(self.min_cart[2] - self.min_bone[2]):
proximal = int(1)
else:
proximal = int(-1)
self.proximal = proximal
self.long_axis = long_axis
def guess_origin(self):
if (self.max_cart is None) or (self.max_bone is None) or (self.min_cart is None) or (self.min_bone is None):
self.get_min_max_bone_cart()
epiphysis_height = self.max_cart[self.long_axis] - self.min_cart[self.long_axis]
origin = np.mean(self.femur.point_coords, axis=0)
if self.proximal == 1:
origin[self.long_axis] = self.max_cart[self.long_axis] + epiphysis_height * self.percent_epiph_higher # add 5mm buffer?
if self.proximal == -1:
origin[self.long_axis] = self.min_cart[self.long_axis] - epiphysis_height * self.percent_epiph_higher # add 5mm buffer?
self.origin = origin
def get_diaph_epiph_points(self):
if (self.long_axis is None) or (self.proximal is None):
self.get_long_axis_and_proximal_direction()
if self.origin is None:
self.guess_origin()
# NORMAL MUST HAVE MAGNITUDE OF 1
normal = np.zeros(3)
normal[self.long_axis] = 1
# create a random point on the plane we want to slice from.
point_on_plane = np.random.random_sample(size=3) * 20 - 10 # make random sample in range [-10, 10]
point_on_plane[self.long_axis] = self.origin[self.long_axis]
side = normal @ (self.femur.point_coords - point_on_plane).T
diaph_points = self.femur.point_coords[side > 0, :]
epiph_points = self.femur.point_coords[side < 0, :]
pv_femur = pv.PolyData(self.femur.mesh)
pv_diaph, _ = pv_femur.remove_points(side<0)
self.pv_diaph = pv_diaph
self._diaph_points = diaph_points
self._epiph_points = epiph_points
def get_diaph_vector(self):
if (self._diaph_points is None) or (self._epiph_points is None) or (self.pv_diaph):
self.get_diaph_epiph_points()
min_long = np.min(self._diaph_points[:, self.long_axis])
max_long = np.max(self._diaph_points[:, self.long_axis])
if self.proximal == 1:
min_ = min_long + self.buffer
max_ = max_long - self.buffer
elif self.proximal == -1:
max_ = max_long - self.buffer
min_ = min_long + self.buffer
normal = [0, 0, 0]
normal[self.long_axis] = 1
centers = []
for idx, depth in enumerate(np.linspace(min_, max_, self.n_pts)):
# get slice
origin_ = [0, 0, 0]
origin_[self.long_axis] = depth
slice_ = self.pv_diaph.slice(normal=normal, origin=origin_)
# get points from slice
slice_pts = slice_.points
if self.use_center_pts_only is True:
ptp = np.ptp(slice_pts, axis=0)
min_ = np.min(slice_pts, axis=0)
middle = min_ + ptp/2
lower = middle - 0.05 * ptp
upper = middle + 0.05 * ptp
pts = None
for axis in range(3):
if ptp[axis] == 0:
pass
else:
indices = (slice_pts[:,axis] < upper[axis]) * (slice_pts[:,axis] > lower[axis])
pts_ = slice_pts[indices, :]
if pts is None:
pts = pts_
else:
pts = np.append(pts, pts_, axis=0)
# pts.append()
elif self.use_center_pts_only is False:
pts = slice_.points
centroid = np.mean(pts, axis=0)
# append Y-position of that point to the `Ys` list
centers.append(centroid)
centers = np.asarray(centers)
inertial_matrix, _ = pca_svd(centers.T)
vector = inertial_matrix[:,0]
self._vector = vector
def fit(self):
self.get_diaph_vector()
@property
def vector(self):
return self._vector
@property
def diaph_points(self):
return self._diaph_points
@property
def epiph_points(self):
return self._epiph_points
@property
def cart_pts(self):
return self._cart_pts
@property
def bone_pts(self):
return self._bone_pts</code></pre>
</details>
</section>
<section>
</section>
<section>
</section>
<section>
</section>
<section>
<h2 class="section-title" id="header-classes">Classes</h2>
<dl>
<dt id="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur"><code class="flex name class">
<span>class <span class="ident">FitLongAxisFemur</span></span>
<span>(</span><span>femur, labels_name='labels', cart_label=1, bone_label=0, percent_epiph_higher=0.3, n_pts=100, buffer=1, use_center_pts_only=True)</span>
</code></dt>
<dd>
<div class="desc"></div>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">class FitLongAxisFemur:
def __init__(
self,
femur,
labels_name='labels',
cart_label=1,
bone_label=0,
percent_epiph_higher=0.3,
n_pts=100,
buffer=1,
use_center_pts_only=True
):
self.femur = femur
self.labels_name = labels_name
self.cart_label = cart_label
self.bone_label = bone_label
self.percent_epiph_higher = percent_epiph_higher
self.n_pts = n_pts
self.buffer = buffer
self.use_center_pts_only = use_center_pts_only
self._bone_pts = None
self._cart_pts = None
self.min_cart = None
self.min_bone = None
self.max_cart = None
self.max_bone = None
self.long_axis = None
self.proximal = None
self.origin = None
self._diaph_points = None
self._epiph_points = None
self._vector = None
def get_bone_cart_points(self):
labels = vtk_to_numpy(self.femur.mesh.GetPointData().GetArray(self.labels_name))
if (type(self.cart_label) == list) or (type(self.cart_label) == tuple):
cart_indices = None
for cart_label in self.cart_label:
if cart_indices is None:
cart_indices = labels == cart_label
cart_indices += labels == cart_label
else:
cart_indices = labels == self.cart_label
cart_ids = np.where(cart_indices)
cart_pts = np.squeeze(self.femur.point_coords[cart_ids,:])
bone_ids = np.where(labels == self.bone_label)
bone_pts = np.squeeze(self.femur.point_coords[bone_ids,:])
self._bone_pts = bone_pts
self._cart_pts = cart_pts
def get_min_max_bone_cart(self):
if (self._bone_pts is None) or (self._cart_pts is None):
self.get_bone_cart_points()
self.max_cart = np.max(self._cart_pts, axis=0)
self.max_bone = np.max(self._bone_pts, axis=0)
self.min_cart = np.min(self._cart_pts, axis=0)
self.min_bone = np.min(self._bone_pts, axis=0)
def get_long_axis_and_proximal_direction(self):
if (self._bone_pts is None) or (self._cart_pts is None):
self.get_bone_cart_points()
if (self.max_cart is None) or (self.max_bone is None) or (self.min_cart is None) or (self.min_bone is None):
self.get_min_max_bone_cart()
cart_range = self.max_cart - self.min_cart
bone_range = self.max_bone - self.min_bone
long_axis = np.argmax(np.abs(cart_range - bone_range))
if np.abs(self.max_cart[2] - self.max_bone[2]) > np.abs(self.min_cart[2] - self.min_bone[2]):
proximal = int(1)
else:
proximal = int(-1)
self.proximal = proximal
self.long_axis = long_axis
def guess_origin(self):
if (self.max_cart is None) or (self.max_bone is None) or (self.min_cart is None) or (self.min_bone is None):
self.get_min_max_bone_cart()
epiphysis_height = self.max_cart[self.long_axis] - self.min_cart[self.long_axis]
origin = np.mean(self.femur.point_coords, axis=0)
if self.proximal == 1:
origin[self.long_axis] = self.max_cart[self.long_axis] + epiphysis_height * self.percent_epiph_higher # add 5mm buffer?
if self.proximal == -1:
origin[self.long_axis] = self.min_cart[self.long_axis] - epiphysis_height * self.percent_epiph_higher # add 5mm buffer?
self.origin = origin
def get_diaph_epiph_points(self):
if (self.long_axis is None) or (self.proximal is None):
self.get_long_axis_and_proximal_direction()
if self.origin is None:
self.guess_origin()
# NORMAL MUST HAVE MAGNITUDE OF 1
normal = np.zeros(3)
normal[self.long_axis] = 1
# create a random point on the plane we want to slice from.
point_on_plane = np.random.random_sample(size=3) * 20 - 10 # make random sample in range [-10, 10]
point_on_plane[self.long_axis] = self.origin[self.long_axis]
side = normal @ (self.femur.point_coords - point_on_plane).T
diaph_points = self.femur.point_coords[side > 0, :]
epiph_points = self.femur.point_coords[side < 0, :]
pv_femur = pv.PolyData(self.femur.mesh)
pv_diaph, _ = pv_femur.remove_points(side<0)
self.pv_diaph = pv_diaph
self._diaph_points = diaph_points
self._epiph_points = epiph_points
def get_diaph_vector(self):
if (self._diaph_points is None) or (self._epiph_points is None) or (self.pv_diaph):
self.get_diaph_epiph_points()
min_long = np.min(self._diaph_points[:, self.long_axis])
max_long = np.max(self._diaph_points[:, self.long_axis])
if self.proximal == 1:
min_ = min_long + self.buffer
max_ = max_long - self.buffer
elif self.proximal == -1:
max_ = max_long - self.buffer
min_ = min_long + self.buffer
normal = [0, 0, 0]
normal[self.long_axis] = 1
centers = []
for idx, depth in enumerate(np.linspace(min_, max_, self.n_pts)):
# get slice
origin_ = [0, 0, 0]
origin_[self.long_axis] = depth
slice_ = self.pv_diaph.slice(normal=normal, origin=origin_)
# get points from slice
slice_pts = slice_.points
if self.use_center_pts_only is True:
ptp = np.ptp(slice_pts, axis=0)
min_ = np.min(slice_pts, axis=0)
middle = min_ + ptp/2
lower = middle - 0.05 * ptp
upper = middle + 0.05 * ptp
pts = None
for axis in range(3):
if ptp[axis] == 0:
pass
else:
indices = (slice_pts[:,axis] < upper[axis]) * (slice_pts[:,axis] > lower[axis])
pts_ = slice_pts[indices, :]
if pts is None:
pts = pts_
else:
pts = np.append(pts, pts_, axis=0)
# pts.append()
elif self.use_center_pts_only is False:
pts = slice_.points
centroid = np.mean(pts, axis=0)
# append Y-position of that point to the `Ys` list
centers.append(centroid)
centers = np.asarray(centers)
inertial_matrix, _ = pca_svd(centers.T)
vector = inertial_matrix[:,0]
self._vector = vector
def fit(self):
self.get_diaph_vector()
@property
def vector(self):
return self._vector
@property
def diaph_points(self):
return self._diaph_points
@property
def epiph_points(self):
return self._epiph_points
@property
def cart_pts(self):
return self._cart_pts
@property
def bone_pts(self):
return self._bone_pts</code></pre>
</details>
<h3>Instance variables</h3>
<dl>
<dt id="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.bone_pts"><code class="name">var <span class="ident">bone_pts</span></code></dt>
<dd>
<div class="desc"></div>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">@property
def bone_pts(self):
return self._bone_pts</code></pre>
</details>
</dd>
<dt id="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.cart_pts"><code class="name">var <span class="ident">cart_pts</span></code></dt>
<dd>
<div class="desc"></div>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">@property
def cart_pts(self):
return self._cart_pts</code></pre>
</details>
</dd>
<dt id="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.diaph_points"><code class="name">var <span class="ident">diaph_points</span></code></dt>
<dd>
<div class="desc"></div>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">@property
def diaph_points(self):
return self._diaph_points</code></pre>
</details>
</dd>
<dt id="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.epiph_points"><code class="name">var <span class="ident">epiph_points</span></code></dt>
<dd>
<div class="desc"></div>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">@property
def epiph_points(self):
return self._epiph_points</code></pre>
</details>
</dd>
<dt id="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.vector"><code class="name">var <span class="ident">vector</span></code></dt>
<dd>
<div class="desc"></div>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">@property
def vector(self):
return self._vector</code></pre>
</details>
</dd>
</dl>
<h3>Methods</h3>
<dl>
<dt id="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.fit"><code class="name flex">
<span>def <span class="ident">fit</span></span>(<span>self)</span>
</code></dt>
<dd>
<div class="desc"></div>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">def fit(self):
self.get_diaph_vector()</code></pre>
</details>
</dd>
<dt id="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.get_bone_cart_points"><code class="name flex">
<span>def <span class="ident">get_bone_cart_points</span></span>(<span>self)</span>
</code></dt>
<dd>
<div class="desc"></div>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">def get_bone_cart_points(self):
labels = vtk_to_numpy(self.femur.mesh.GetPointData().GetArray(self.labels_name))
if (type(self.cart_label) == list) or (type(self.cart_label) == tuple):
cart_indices = None
for cart_label in self.cart_label:
if cart_indices is None:
cart_indices = labels == cart_label
cart_indices += labels == cart_label
else:
cart_indices = labels == self.cart_label
cart_ids = np.where(cart_indices)
cart_pts = np.squeeze(self.femur.point_coords[cart_ids,:])
bone_ids = np.where(labels == self.bone_label)
bone_pts = np.squeeze(self.femur.point_coords[bone_ids,:])
self._bone_pts = bone_pts
self._cart_pts = cart_pts</code></pre>
</details>
</dd>
<dt id="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.get_diaph_epiph_points"><code class="name flex">
<span>def <span class="ident">get_diaph_epiph_points</span></span>(<span>self)</span>
</code></dt>
<dd>
<div class="desc"></div>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">def get_diaph_epiph_points(self):
if (self.long_axis is None) or (self.proximal is None):
self.get_long_axis_and_proximal_direction()
if self.origin is None:
self.guess_origin()
# NORMAL MUST HAVE MAGNITUDE OF 1
normal = np.zeros(3)
normal[self.long_axis] = 1
# create a random point on the plane we want to slice from.
point_on_plane = np.random.random_sample(size=3) * 20 - 10 # make random sample in range [-10, 10]
point_on_plane[self.long_axis] = self.origin[self.long_axis]
side = normal @ (self.femur.point_coords - point_on_plane).T
diaph_points = self.femur.point_coords[side > 0, :]
epiph_points = self.femur.point_coords[side < 0, :]
pv_femur = pv.PolyData(self.femur.mesh)
pv_diaph, _ = pv_femur.remove_points(side<0)
self.pv_diaph = pv_diaph
self._diaph_points = diaph_points
self._epiph_points = epiph_points</code></pre>
</details>
</dd>
<dt id="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.get_diaph_vector"><code class="name flex">
<span>def <span class="ident">get_diaph_vector</span></span>(<span>self)</span>
</code></dt>
<dd>
<div class="desc"></div>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">def get_diaph_vector(self):
if (self._diaph_points is None) or (self._epiph_points is None) or (self.pv_diaph):
self.get_diaph_epiph_points()
min_long = np.min(self._diaph_points[:, self.long_axis])
max_long = np.max(self._diaph_points[:, self.long_axis])
if self.proximal == 1:
min_ = min_long + self.buffer
max_ = max_long - self.buffer
elif self.proximal == -1:
max_ = max_long - self.buffer
min_ = min_long + self.buffer
normal = [0, 0, 0]
normal[self.long_axis] = 1
centers = []
for idx, depth in enumerate(np.linspace(min_, max_, self.n_pts)):
# get slice
origin_ = [0, 0, 0]
origin_[self.long_axis] = depth
slice_ = self.pv_diaph.slice(normal=normal, origin=origin_)
# get points from slice
slice_pts = slice_.points
if self.use_center_pts_only is True:
ptp = np.ptp(slice_pts, axis=0)
min_ = np.min(slice_pts, axis=0)
middle = min_ + ptp/2
lower = middle - 0.05 * ptp
upper = middle + 0.05 * ptp
pts = None
for axis in range(3):
if ptp[axis] == 0:
pass
else:
indices = (slice_pts[:,axis] < upper[axis]) * (slice_pts[:,axis] > lower[axis])
pts_ = slice_pts[indices, :]
if pts is None:
pts = pts_
else:
pts = np.append(pts, pts_, axis=0)
# pts.append()
elif self.use_center_pts_only is False:
pts = slice_.points
centroid = np.mean(pts, axis=0)
# append Y-position of that point to the `Ys` list
centers.append(centroid)
centers = np.asarray(centers)
inertial_matrix, _ = pca_svd(centers.T)
vector = inertial_matrix[:,0]
self._vector = vector</code></pre>
</details>
</dd>
<dt id="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.get_long_axis_and_proximal_direction"><code class="name flex">
<span>def <span class="ident">get_long_axis_and_proximal_direction</span></span>(<span>self)</span>
</code></dt>
<dd>
<div class="desc"></div>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">def get_long_axis_and_proximal_direction(self):
if (self._bone_pts is None) or (self._cart_pts is None):
self.get_bone_cart_points()
if (self.max_cart is None) or (self.max_bone is None) or (self.min_cart is None) or (self.min_bone is None):
self.get_min_max_bone_cart()
cart_range = self.max_cart - self.min_cart
bone_range = self.max_bone - self.min_bone
long_axis = np.argmax(np.abs(cart_range - bone_range))
if np.abs(self.max_cart[2] - self.max_bone[2]) > np.abs(self.min_cart[2] - self.min_bone[2]):
proximal = int(1)
else:
proximal = int(-1)
self.proximal = proximal
self.long_axis = long_axis</code></pre>
</details>
</dd>
<dt id="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.get_min_max_bone_cart"><code class="name flex">
<span>def <span class="ident">get_min_max_bone_cart</span></span>(<span>self)</span>
</code></dt>
<dd>
<div class="desc"></div>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">def get_min_max_bone_cart(self):
if (self._bone_pts is None) or (self._cart_pts is None):
self.get_bone_cart_points()
self.max_cart = np.max(self._cart_pts, axis=0)
self.max_bone = np.max(self._bone_pts, axis=0)
self.min_cart = np.min(self._cart_pts, axis=0)
self.min_bone = np.min(self._bone_pts, axis=0)</code></pre>
</details>
</dd>
<dt id="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.guess_origin"><code class="name flex">
<span>def <span class="ident">guess_origin</span></span>(<span>self)</span>
</code></dt>
<dd>
<div class="desc"></div>
<details class="source">
<summary>
<span>Expand source code</span>
</summary>
<pre><code class="python">def guess_origin(self):
if (self.max_cart is None) or (self.max_bone is None) or (self.min_cart is None) or (self.min_bone is None):
self.get_min_max_bone_cart()
epiphysis_height = self.max_cart[self.long_axis] - self.min_cart[self.long_axis]
origin = np.mean(self.femur.point_coords, axis=0)
if self.proximal == 1:
origin[self.long_axis] = self.max_cart[self.long_axis] + epiphysis_height * self.percent_epiph_higher # add 5mm buffer?
if self.proximal == -1:
origin[self.long_axis] = self.min_cart[self.long_axis] - epiphysis_height * self.percent_epiph_higher # add 5mm buffer?
self.origin = origin</code></pre>
</details>
</dd>
</dl>
</dd>
</dl>
</section>
</article>
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<div class="toc">
<ul></ul>
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<ul id="index">
<li><h3>Super-module</h3>
<ul>
<li><code><a title="pymskt.mesh.anatomical" href="index.html">pymskt.mesh.anatomical</a></code></li>
</ul>
</li>
<li><h3><a href="#header-classes">Classes</a></h3>
<ul>
<li>
<h4><code><a title="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur" href="#pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur">FitLongAxisFemur</a></code></h4>
<ul class="">
<li><code><a title="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.bone_pts" href="#pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.bone_pts">bone_pts</a></code></li>
<li><code><a title="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.cart_pts" href="#pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.cart_pts">cart_pts</a></code></li>
<li><code><a title="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.diaph_points" href="#pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.diaph_points">diaph_points</a></code></li>
<li><code><a title="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.epiph_points" href="#pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.epiph_points">epiph_points</a></code></li>
<li><code><a title="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.fit" href="#pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.fit">fit</a></code></li>
<li><code><a title="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.get_bone_cart_points" href="#pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.get_bone_cart_points">get_bone_cart_points</a></code></li>
<li><code><a title="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.get_diaph_epiph_points" href="#pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.get_diaph_epiph_points">get_diaph_epiph_points</a></code></li>
<li><code><a title="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.get_diaph_vector" href="#pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.get_diaph_vector">get_diaph_vector</a></code></li>
<li><code><a title="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.get_long_axis_and_proximal_direction" href="#pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.get_long_axis_and_proximal_direction">get_long_axis_and_proximal_direction</a></code></li>
<li><code><a title="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.get_min_max_bone_cart" href="#pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.get_min_max_bone_cart">get_min_max_bone_cart</a></code></li>
<li><code><a title="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.guess_origin" href="#pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.guess_origin">guess_origin</a></code></li>
<li><code><a title="pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.vector" href="#pymskt.mesh.anatomical.femur_long_axis.FitLongAxisFemur.vector">vector</a></code></li>
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