v0.15.0

What's Changed

• Add solid core to tubenetwork mesh by @oneway1225 in #262
• Improve tube mesh core sampling by @rchristie in #263
• New annotated, poseable body scaffold by @rchristie in #265
• Add discontinuity on thorax, abdomen core boundaries by @rchristie in #266
• Improve body shape for fitting by @rchristie in #267

Full Changelog: v0.14.0...v0.15.0

v0.14.0

What's Changed

• Add utility to determine Hermite element field template by @rchristie in #257
• Tube network mesh refactor by @rchristie in #259
• Add solid cylinder network scaffold by @oneway1225 in #258
• Switch over to using cmlibs.maths 0.6.0 for math functions. by @hsorby in #260
• Remove matrix utility file use cmlibs.maths 0.6.2 instead. by @hsorby in #261

New Contributors

• @oneway1225 made their first contribution in #258

Full Changelog: v0.13.0...v0.14.0

v0.13.0

What's Changed

• Human uterus by @mlin865 in #244
• Add GitHub Actions testing of package by @hsorby in #251
• Avoid testing equality of Field and None by @rchristie in #252

Full Changelog: v0.12.0...v0.13.0

v0.12.0

Changelog

v0.12.0 (2024-04-05)

Full Changelog

Merged pull requests:

• Limit bifurcation trim surface intersections to half curve #247 (rchristie)
• Box network #246 (rchristie)
• Implement straight-through bifurcation case #242 (rchristie)
• Smooth side derivatives and inner coordinates #241 (rchristie)
• Network tube #240 (rchristie)
• initial commit of bone scaffold #239 (vickieshim)
• Cecum new #234 (mlin865)

v0.11.0 (2023-09-22)

Full Changelog

Closed issues:

• Bladder 1 issues #228

Merged pull requests:

• Test uterus network #238 (zekh167)
• Handle d1 scaling when using inward and update unit test for bladder #237 (mlin865)
• Stomach #236 (mlin865)
• Bladder coordinates #235 (zekh167)
• Biunit bladder #233 (rchristie)
• Modified bladder #231 (zekh167)

v0.10.0 (2023-07-19)

Full Changelog

Fixed bugs:

• Derivative smoothing incorrect for single element branches using versions #224

Merged pull requests:

• Zohreh new bladder #229 (rchristie)
• Apply zinc group changes #226 (rchristie)
• Intestines #225 (mlin865)
• Network mesh #223 (rchristie)
• Decode JSON containing sub-scaffoldPackages #222 (Kayvv)

v0.9.0 (2023-04-17)

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Merged pull requests:

• Rename to CMLibs #221 (hsorby)
• Fix group field utility to work with region tree #220 (rchristie)

v0.8.0 (2022-11-21)

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Implemented enhancements:

• Marker points need separate material coordinates field #217
• Marker node annotations should not make zinc groups #215

Merged pull requests:

• Update docs to list where data for scaffold came from #218 (mlin865)
• Marker point annotations do not have their own group #216 (rchristie)
• Nerves/material coordinates #214 (elias-soltani)
• Unit stomach #213 (mlin865)
• Adjust range of elements according to updated number of elements. #179 (elias-soltani)

v0.7.1 (2022-09-03)

Full Changelog

Fixed bugs:

• Deleting any elements deletes any new style marker points without material coordinates #211

Closed issues:

• Documentation on generating new scaffolds #182

Merged pull requests:

• Fix logic for removing marker nodes when elements deleted #212 (rchristie)
• Bladder documentation #210 (zekh167)
• Scaffold documentation for stomach and colon #204 (mlin865)

v0.7.0 (2022-08-25)

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Merged pull requests:

• Marker points #208 (mlin865)

v0.6.0 (2022-08-08)

Full Changelog

Merged pull requests:

• Move stomach changes to new branch #203 (mlin865)
• Improve brainstem and lung scaffold documentation #202 (rchristie)
• Add docs for brainstem and lung #199 (arti-sukasem)
• Flat bladder #186 (zekh167)

v0.5.0 (2022-07-26)

Full Changelog

Merged pull requests:

• Lung 2 scaffold #200 (rchristie)
• Update heart terms, improve epicardium, add docs #195 (rchristie)
• Add basis for documentation #190 (hsorby)
• Add epicardial fat layer to atrium #187 (rchristie)
• Add fusiform muscle #180 (elias-soltani)

v0.4.4 (2022-04-22)

Full Changelog

Merged pull requests:

• Add user marker point annotation groups #184 (rchristie)

v0.4.3 (2022-03-22)

Full Changelog

v0.4.2 (2022-03-21)

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Merged pull requests:

• Update esophagus terms after term addition to sciCrunch #183 (mlin865)

v0.4.1 (2022-03-15)

Full Changelog

Closed issues:

• Basic info on starting with scaffoldmaker #181

v0.4.0 (2022-03-10)

Full Changelog

Merged pull requests:

• Add meshtype, terms and unit test for esophagus #178 (mlin865)
• Pig stomach #177 (mlin865)
• Update the brainstem branch due to previous mapclient update #176 (arti-sukasem)
• Update the pig lung branch due to previous mapclient update #175 ([arti-sukasem](https://githu...

v0.4.1

Release version 0.4.1 of scaffold maker.

v0.4.0

Release version 0.4.0 of scaffold maker.

What's Changed

• Update terms following discussion with SAWG by @mlin865 in #172
• Update the pig lung branch due to previous mapclient update by @arti-sukasem in #175
• Update the brainstem branch due to previous mapclient update by @arti-sukasem in #176
• Pig stomach by @mlin865 in #177
• Add meshtype, terms and unit test for esophagus by @mlin865 in #178
• Add shell layers by @elias-soltani in #173

Full Changelog: v0.3.0...v0.4.0

v0.3.0

Releasing version 0.3.0 of scaffold maker.

What's Changed

• Shield/sphere by @elias-soltani in #156
• Stomach layers by @mlin865 in #168

Full Changelog: v0.2.0...v0.3.0

v0.2.0

Releasing version 0.2.0 of scaffold maker.

What's Changed

• Improve and complete heart base elements by @rchristie in #1
• Improve default options for ventricles and base by @rchristie in #2
• Comment out debug print statements by @rchristie in #3
• Add Scaffoldmaker class, atria mesh by @rchristie in #4
• Close atria, add outlets by @rchristie in #5
• Add refinement to trilinear elements by @rchristie in #7
• Add new ventricles2 scaffold by @rchristie in #8
• Started ventricles base 2 by @rchristie in #9
• Close ventriclesbase2 by @rchristie in #10
• Reduce distortion at septum by right atria by @rchristie in #11
• Add annotation groups for ventricles 2 by @rchristie in #12
• Add atria 2 scaffold by @rchristie in #15
• Add full heart merging ventricles, base and atria by @rchristie in #16
• Add solid sphere scaffold by @mlin865 in #17
• Fix defaults and limits for number of elements around and up by @mlin865 in #18
• Add new atria1 by @rchristie in #20
• Lens by @mlin865 in #21
• Rename Scaffoldmaker class for Python 2 import by @rchristie in #22
• Linear basis through wall for sphere shell by @mlin865 in #23
• Add new heartventricles1 scaffold by @rchristie in #24
• Separate variable interpolation from cubic sampling by @rchristie in #25
• Add choice of arithmetic or harmonic mean derivatives by @rchristie in #26
• Central line tube mesh by @mlin865 in #28
• Add new heart1 scaffold by @rchristie in #29
• Add heart fiducial marker annotation points by @rchristie in #30
• Add unit scale parameter by @rchristie in #31
• Partial arterial root by @rchristie in #32
• Add cusps to heart arterial root by @rchristie in #33
• Human stomach by @rchristie in #34
• 3D Human stomach by @Jagirhussan in #19
• Function for exporting scaffolds to vtk by @rchristie in #35
• Allow 1 or 2 left and right pulmonary veins by @rchristie in #36
• Improved compatibility with python 2.7 by @fowlkes in #37
• Support multiple parameter sets, add scaffold base class by @rchristie in #38
• Improve convergence when finding xi from arc distance by @rchristie in #40
• Correctly simplify the installation process. by @metatoaster in #13
• Add scipy and numpy to required packages and change ZincPythonTools a… by @alan-wu in #41
• Remove files that are no longer needed and update instruction. by @alan-wu in #42
• Revisions based on comments from Colon Pull request #43 by @mlin865 in #44
• Add rat, mouse heart parameters by @rchristie in #45
• Texture coordinates by @mlin865 in #46
• Add sub-scaffolds by @rchristie in #47
• Tenia coli by @mlin865 in #48
• Scale d2 along mesh with curvature of central line by @mlin865 in #49
• Implement cross-axis by @mlin865 in #50
• Add single/double ostium scaffold by @rchristie in #51
• Parameters for human 1 and 2 by @mlin865 in #52
• Mouse colon by @mlin865 in #54
• Pig colon by @mlin865 in #55
• Replace heart atria, improve parameters for all species by @rchristie in #56
• Rename data fields to fiducial by @rchristie in #57
• Serialise bytes string to JSON by @rchristie in #58
• Vary inner radius and tenia coli width along colon length by @mlin865 in #59
• Put source under src folder, add test by @rchristie in #60
• Tests for colon and colon segment meshtypes by @mlin865 in #61
• Small intestine scaffold by @mlin865 in #63
• Move most zinc_utils to opencmiss.utils by @rchristie in #64
• Bladder scaffold by @zekh167 in #62
• removed indentation for lines of unittest by @zekh167 in #65
• Improve annotation groups by @rchristie in #66
• projection has been done by @zekh167 in #67
• Implement phase by @mlin865 in #68
• Improve annotations, refinement and VTK export by @rchristie in #70
• Transformations in ScaffoldPackage by @rchristie in #71
• Remove auricles from atria groups by @rchristie in #73
• Bladder annotation by @zekh167 in #72
• Improve rat heart by @rchristie in #74
• Improve rat heart after scale fix by @rchristie in #75
• Fix heart test, opencmiss.utils version by @rchristie in #77
• Cecum by @mlin865 in #76
• Bifurcation tree and tube fork by @rchristie in #78
• Pig colon by @mlin865 in #79
• Multiple annotation groups by @mlin865 in #80
• Heart ventricles 3 and arterial valves by @rchristie in #81
• Fix 2D VTK export by @rchristie in #82
• Add user-defined annotation groups by @rchristie in #83
• Annotation fix by @rchristie in #87
• Add functions to update user annotation groups by @rchristie in #88
• Generalised cylinder by @elias-soltani in #86
• Stellate by @s-fong in #89
• Add subelements to user annotation groups by @rchristie in #90
• Add scaffold interactive functions by @rchristie in #91
• Annotation by @s-fong in #92
• Path1/sidederivatives by @elias-soltani in #93
• Bladder urethra by @zekh167 in #85
• Fix ScaffoldPackage deepcopy and meshedits by @rchristie in #96
• Add path smooth cross derivatives function by @rchristie in #97
• Fix 1 element smoothing by @rchristie in #98
• Cylinder/central path by @elias-soltani in #94
• Rescale derivatives for annulus mesh by @mlin865 in #100
• Parameter sets by @s-fong in #99
• Lungs by @zekh167 in #101
• Add mesh refinement to lung by @rchristie in #102
• Add human lung lower lobe by @arti-sukasem in #103
• Fix atria shape distortio...