v0.12.0
Changelog
v0.12.0 (2024-04-05)
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)
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)
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)
Merged pull requests:
v0.8.0 (2022-11-21)
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)
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)
Merged pull requests:
v0.6.0 (2022-08-08)
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)
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)
Merged pull requests:
v0.4.3 (2022-03-22)
v0.4.2 (2022-03-21)
Merged pull requests:
v0.4.1 (2022-03-15)
Closed issues:
- Basic info on starting with scaffoldmaker #181
v0.4.0 (2022-03-10)
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)
- Add shell layers #173 (elias-soltani)
- Update terms following discussion with SAWG #172 (mlin865)
v0.3.0 (2021-11-23)
Merged pull requests:
- Stomach layers #168 (mlin865)
- Shield/sphere #156 (elias-soltani)
v0.2.0 (2021-11-04)
Implemented enhancements:
- Add refinement to low order elements #6
Fixed bugs:
- Scaffoldmaker import error Python 2 #14
Closed issues:
- AttributeError: 'ScaffoldPackage' object has no attribute 'deepcopy' #95
- Edit 'data_coordinates' field for fiducial points #53
- Add helper methods to scale scaffold #27
Merged pull requests:
- Optimise imports and perform some PEP8 fixes. #165 (hsorby)
- opencmiss.maths fixes #162 (rchristie)
- Update inner surface of colonic mucosa with edits from SAWG #161 (mlin865)
- Add ILX for inner surface of colonic mucosa #160 (mlin865)
- Colon coordinates #157 (mlin865)
- Add parameter sets for mouse and pig bladder #153 (keeran97)
- Update bladder terms #152 (elias-soltani)
- Flat stomach #151 (mlin865)
- Mouse brainstem #149 (arti-sukasem)
- Bladder ilx #148 (zekh167)
- Increment version number #147 (rchristie)
- Created parameters for rat and human #146 (arti-sukasem)
- Embed organ landmarks #145 (elias-soltani)
- Updated mouse parameters and ILX for lung terms #144 (arti-sukasem)
- added laterodorsal tip of the middle lobe to rat and mouse mesh #143 (arti-sukasem)
- Remove ZincPythonTools dependency #142 (rchristie)
- Fix tests #141 (rchristie)
- Heart terms #140 (rchristie)
- Added Rat lung mesh parameters #139 (arti-sukasem)
- added marker points for both human and mouse, updated mouse parameter… #138 (arti-sukasem)
- Human bladder #137 (zekh167)
- created lung fissure annotation #135 (arti-sukasem)
- Left atria PV annulus changes #133 (rchristie)
- Stomach #132 (mlin865)
- Brainstem #128 (s-fong)
- Fix annulus start/end mapping #127 (rchristie)
- Fix unused scale factor bugs #126 (rchristie)
- Added four fiducial points. #125 (zekh167)
- Bodycoordinates #123 (elias-soltani)
- Bifurcation tree start #121 (rchristie)
- Bladder dorsal ventral #120 (zekh167)
- Cattle intestines #119 (mlin865)
- Right and accessory lungs #118 (arti-sukasem)
- Cylinder/circular core #116 (elias-soltani)
- Sharpen anterior edges of left and right human lungs #115 (arti-sukasem)
- Added left lung parameters. #114 (zekh167)
- Right lung in a human #113 (arti-sukasem)
- Fix boundary derivative smoothing #112 (rchristie)
- Cylinder/rim #111 (elias-soltani)
- Smooth derivative directions, add function options #110 (rchristie)
- Wedge #109 (mlin865)
- Bladder updated #108 (zekh167)
- Set fitted human lung parameters #107 (rchristie)
- Global field derivative smoothing #106 (rchristie)
- Update both lower and upper lobes in the left human. #105 (arti-sukasem)
- Fix atria shape distortions #104 (rchristie)
- Add human lung lower lobe #103 (arti-sukasem)
- Add mesh refinement to lung #102 (rchristie)
- Lungs #101 (zekh167)
- Rescale derivatives for annulus mesh #100 (mlin865)
- Parameter sets #99 (s-fong)
- Fix 1 element smoothing #98 (rchristie)
- Add path smooth cross derivatives function #97 (rchristie)
- Fix ScaffoldPackage deepcopy and meshedits #96 (rchristie)
- Cylinder/central path #94 (elias-soltani)
- Path1/sidederivatives #93 (elias-soltani)
- Annotation #92 (s-fong)
- Add scaffold interactive functions #91 (rchristie)
- Add subelements to user annotation groups #90 (rchristie)
- Stellate #89 (s-fong)
- Add functions to update user annotation groups #88 (rchristie)
- Annotation fix #87 (rchristie)
- Generalised cylinder #86 (elias-soltani)
- Bladder urethra #85 (zekh167)
- Add user-defined annotation groups #83 (rchristie)
- Fix 2D VTK export #82 (rchristie)
- Heart ventricles 3 and arterial valves #81 (rchristie)
- Multiple annotation groups #80 (mlin865)
- Pig colon #79 (mlin865)
- Bifurcation tree and tube fork #78 (rchristie)
- Fix heart test, opencmiss.utils version #77 (rchristie)
- Cecum #76 (mlin865)
- Improve rat heart after scale fix #75 (rchristie)
- Improve rat heart #74 (rchristie)
- Remove auricles from atria groups #73 (rchristie)
- Bladder annotation #72 (zekh167)
- Transformations in ScaffoldPackage #71 (rchristie)
- Improve annotations, refinement and VTK export #70 (rchristie)
- Implement phase #68 (mlin865)
- projection has been done #67 (zekh167)
- Improve annotation groups #66 (rchristie)
- removed indentation for lines of unittest #65 (zekh167)
- Move most zinc_utils to opencmiss.utils #64 (rchristie)
- Small intestine scaffold #63 (mlin865)
- Bladder scaffold #62 (zekh167)
- Tests for colon and colon segment meshtypes #61 (mlin865)
- Put source under src folder, add test #60 (rchristie)
- Vary inner radius and tenia coli width along colon length #59 (mlin865)
- Serialise bytes string to JSON #58 (rchristie)
- Rename data fields to fiducial #57 (rchristie)
- Replace heart atria, improve parameters for all species #56 (rchristie)
- Pig colon #55 (mlin865)
- Mouse colon #54 (mlin865)
- Parameters for human 1 and 2 #52 (mlin865)
- Add single/double ostium scaffold #51 (rchristie)
- Implement cross-axis #50 (mlin865)
- Scale d2 along mesh with curvature of central line #49 (mlin865)
- Tenia coli #48 (mlin865)
- Add sub-scaffolds #47 (rchristie)
- Texture coordinates #46 (mlin865)
- Add rat, mouse heart parameters #45 (rchristie)
- Revisions based on comments from Colon Pull request #43 #44 (mlin865)
- Remove files that are no longer needed and update instruction. #42 (alan-wu)
- Add scipy and numpy to required packages and change ZincPythonTools a… #41 (alan-wu)
- Improve convergence when finding xi from arc distance #40 (rchristie)
- Support multiple parameter sets, add scaffold base class #38 (rchristie)
- Improved compatibility with python 2.7 #37 (fowlkes)
- Allow 1 or 2 left and right pulmonary veins #36 (rchristie)
- Function for exporting scaffolds to vtk #35 (rchristie)
- Human stomach #34 (rchristie)
- Add cusps to heart arterial root #33 (rchristie)
- Partial arterial root #32 (rchristie)
- Add unit scale parameter #31 (rchristie)
- Add heart fiducial marker annotation points #30 (rchristie)
- Add new heart1 scaffold #29 (rchristie)
- Central line tube mesh #28 (mlin865)
- Add choice of arithmetic or harmonic mean derivatives #26 (rchristie)
- Separate variable interpolation from cubic sampling #25 (rchristie)
- Add new heartventricles1 scaffold #24 (rchristie)
- Linear basis through wall for sphere shell #23 (mlin865)
- Rename Scaffoldmaker class for Python 2 import #22 (rchristie)
- Lens #21 (mlin865)
- Add new atria1 #20 (rchristie)
- 3D Human stomach #19 (Jagirhussan)
- Fix defaults and limits for number of elements around and up #18 (mlin865)
- Add solid sphere scaffold #17 (mlin865)
- Add full heart merging ventricles, base and atria #16 (rchristie)
- Add atria 2 scaffold #15 (rchristie)
- Correctly simplify the installation process. #13 (metatoaster)
- Add annotation groups for ventricles 2 #12 (rchristie)
- Reduce distortion at septum by right atria #11 (rchristie)
- Close ventriclesbase2 #10 (rchristie)
- Started ventricles base 2 #9 (rchristie)
- Add new ventricles2 scaffold #8 (rchristie)
- Add refinement to trilinear elements #7 (rchristie)
- Close atria, add outlets #5 (rchristie)
- Add Scaffoldmaker class, atria mesh #4 (rchristie)
- Comment out debug print statements #3 (rchristie)
- Improve default options for ventricles and base #2 (rchristie)
- Improve and complete heart base elements #1 (rchristie)
* This Changelog was automatically generated by github_changelog_generator