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 distortions by @rchristie in #104
• Update both lower and upper lobes in the left human. by @arti-sukasem in #105
• Set fitted human lung parameters by @rchristie in #107
• Global field derivative smoothing by @rchristie in #106
• Wedge by @mlin865 in #109
• Smooth derivative directions, add function options by @rchristie in #110
• Fix boundary derivative smoothing by @rchristie in #112
• Bladder updated by @zekh167 in #108
• Added left lung parameters. by @zekh167 in #114
• Right lung in a human by @arti-sukasem in #113
• Cylinder/rim by @elias-soltani in #111
• Sharpen anterior edges of left and right human lungs by @arti-sukasem in #115
• Cattle intestines by @mlin865 in #119
• Right and accessory lungs by @arti-sukasem in #118
• Bifurcation tree start by @rchristie in #121
• Bladder dorsal ventral by @zekh167 in #120
• Cylinder/circular core by @elias-soltani in #116
• Fix unused scale factor bugs by @rchristie in #126
• Fix annulus start/end mapping by @rchristie in #127
• Bodycoordinates by @elias-soltani in #123
• Left atria PV annulus changes by @rchristie in #133
• Stomach by @mlin865 in #132
• created lung fissure annotation by @arti-sukasem in #135
• Added four fiducial points. by @zekh167 in #125
• added marker points for both human and mouse, updated mouse parameter… by @arti-sukasem in #138
• Heart terms by @rchristie in #140
• Human bladder by @zekh167 in #137
• Added Rat lung mesh parameters by @arti-sukasem in #139
• Fix tests by @rchristie in #141
• Remove ZincPythonTools dependency by @rchristie in #142
• added laterodorsal tip of the middle lobe to rat and mouse mesh by @arti-sukasem in #143
• Updated mouse parameters and ILX for lung terms by @arti-sukasem in #144
• Brainstem by @s-fong in #128
• Created parameters for rat and human by @arti-sukasem in #146
• Embed organ landmarks by @elias-soltani in #145
• Increment version number by @rchristie in #147
• Bladder ilx by @zekh167 in #148
• Mouse brainstem by @arti-sukasem in #149
• Flat stomach by @mlin865 in #151
• Update bladder terms by @elias-soltani in #152
• Add parameter sets for mouse and pig bladder by @keeran97 in #153
• Colon coordinates by @mlin865 in #157
• Add ILX for inner surface of colonic mucosa by @mlin865 in #160
• Update inner surface of colonic mucosa with edits from SAWG by @mlin865 in #161
• opencmiss.maths fixes by @rchristie in #162
• Optimise imports and perform some PEP8 fixes. by @hsorby in #165

New Contributors

• @rchristie made their first contribution in #1
• @Jagirhussan made their first contribution in #19
• @fowlkes made their first contribution in #37
• @metatoaster made their first contribution in #13
• @alan-wu made their first contribution in #41
• @zekh167 made their first contribution in #62
• @s-fong made their first contribution in #89
• @arti-sukasem made their first contribution in #103
• @keeran97 made their first contribution in #153
• @hsorby made their first contribution in #165

Full Changelog: https://github.com/ABI-Software/scaffoldmaker/commits/v0.2.0