Porting initial versions of iso2mesh functions to Python

[fangq]

The following list of functions are copied from the INDEX file.

Use the checkmark to indicate of a function has been initially ported to Python, and use the "initial test" checkmark to indicate if the function has been tested and works for basic cases (does not need to be fully tested)

iso2mesh >> Iso2Mesh

Streamlined mesh generation - shortcuts

• v2m.m
  • initial test
• v2s.m
  • initial test
• s2m.m
  • initial test
• s2v.m
  • initial test
• m2v.m
  • initial test
• sms.m
  • initial test

Streamlined mesh generation

• vol2mesh.m
  • initial test
• vol2surf.m
  • initial test
• surf2mesh.m
  • initial test
• surf2vol.m
  • initial test
• mesh2vol.m
  • initial test

Iso2mesh main function backend

• binsurface.m
  • initial test
• cgalv2m.m
  • initial test
• cgals2m.m
  • initial test
• vol2restrictedtri.m
  • initial test
• surf2volz.m
  • initial test
• mesh2mask.m
  • initial test

Iso2mesh primitive meshing functions

• meshabox.m
  • initial test
• meshasphere.m
  • initial test
• meshanellip.m
  • initial test
• meshunitsphere.m
  • initial test
• meshacylinder.m
  • initial test
• meshgrid5.m
  • initial test
• meshgrid6.m
  • initial test
• latticegrid.m
  • initial test
• extrudecurve.m
  • initial test
• meshcylinders.m
  • initial test

Mesh decomposition and query

• finddisconnsurf.m
  • initial test
• surfedge.m
  • initial test
• volface.m
  • initial test
• extractloops.m
  • initial test
• meshconn.m
  • initial test
• meshcentroid.m
  • initial test
• nodevolume.m
  • initial test
• elemvolume.m
  • initial test
• neighborelem.m
  • initial test
• layersurf.m
  • initial test
• faceneighbors.m
  • initial test
• edgeneighbors.m
  • initial test
• maxsurf.m
  • initial test
• flatsegment.m
  • initial test
• orderloopedge.m
  • initial test
• mesheuler.m
  • initial test
• bbxflatsegment.m
  • initial test
• surfplane.m
  • initial test
• surfinterior.m
  • initial test
• surfpart.m
  • initial test
• surfseeds.m
  • initial test
• meshquality.m
  • initial test
• meshedge.m
  • initial test
• meshface.m
  • initial test
• surfacenorm.m
  • initial test
• nodesurfnorm.m
  • initial test
• uniqedges.m
  • initial test
• uniqfaces.m
  • initial test
• advancefront.m
  • initial test
• innersurf.m
  • initial test
• outersurf.m
  • initial test
• surfvolume.m
  • initial test
• insurface.m
  • initial test

Mesh processing and reparing

• meshcheckrepair.m
  • initial test
• meshreorient.m
  • initial test
• removedupelem.m
  • initial test
• removedupnodes.m
  • initial test
• removeisolatednode.m
  • initial test
• removeisolatedsurf.m
  • initial test
• surfaceclean.m
  • initial test
• getintersecttri.m
  • initial test
• delendelem.m
  • initial test
• surfreorient.m
  • initial test

Mesh registration - Metch Toolbox

• proj2mesh.m
  • initial test
• dist2surf.m
  • initial test
• regpt2surf.m
  • initial test
• affinemap.m
  • initial test

Polyline handling

• slicesurf.m
  • initial test
• slicesurf3.m
  • initial test
• polylinelen.m
  • initial test
• polylinesimplify.m
  • initial test
• polylineinterp.m
  • initial test
• closestnode.m
  • initial test

Mesh resampling and optimization

• meshresample.m
  • initial test
• remeshsurf.m
  • initial test
• smoothsurf.m
  • initial test
• sortmesh.m
  • initial test
• mergemesh.m
  • initial test
• meshrefine.m
  • initial test
• mergesurf.m
  • initial test
• surfboolean.m
  • initial test
• fillsurf.m
  • initial test
• highordertet.m
  • initial test
• elemfacecenter.m
  • initial test
• barydualmesh.m
  • initial test
• meshinterp.m
  • initial test
• meshremap.m
  • initial test
• extrudesurf.m
  • initial test

File I/O

• saveasc.m
  • initial test
• savedxf.m
  • initial test
• savestl.m
  • initial test
• savebinstl.m
  • initial test
• saveinr.m
  • initial test
• saveoff.m
  • initial test
• savesmf.m
  • initial test
• savesurfpoly.m
  • initial test
• savegts.m
  • initial test
• readgts.m
  • initial test
• savemsh.m
  • initial test
• savevrml.m
  • initial test
• readasc.m
  • initial test
• readinr.m
  • initial test
• readmedit.m
  • initial test
• readoff.m
  • initial test
• readsmf.m
  • initial test
• readtetgen.m
  • initial test
• deletemeshfile.m
  • initial test
• mcpath.m
  • initial test
• mwpath.m
  • initial test
• savemedit.m
  • initial test
• savejson.m
  • initial test
• loadjson.m
  • initial test
• saveubjson.m
  • initial test
• loadubjson.m
  • initial test
• loadmsgpack.m
  • initial test
• savemsgpack.m
  • initial test
• savebj.m
  • initial test
• loadbj.m
  • initial test
• savemphtxt.m
  • initial test
• savetetgenele.m
  • initial test
• savetetgennode.m
  • initial test
• saveabaqus.m
  • initial test
• savenirfast.m
  • initial test
• readnirfast.m
  • initial test
• readnifti.m
  • initial test
• readmptiff.m
  • initial test
• loadjsnirf.m
  • initial test
• savejsnirf.m
  • initial test
• loadsnirf.m
  • initial test
• savesnirf.m
  • initial test
• readobjmesh.m
  • initial test
• loadjmesh.m
  • initial test
• readobjmesh.m
  • initial test

Volumetric image pre-processing

• volgrow.m
  • initial test
• volshrink.m
  • initial test
• volopen.m
  • initial test
• volclose.m
  • initial test
• bwislands.m
  • initial test
• fillholes3d.m
  • initial test
• deislands2d.m
  • initial test
• deislands3d.m
  • initial test
• ndgaussian.m
  • initial test
• ndimfilter.m
  • initial test
• imedge3d.m
  • initial test
• internalpoint.m
  • initial test
• smoothbinvol.m
  • initial test
• thickenbinvol.m
  • initial test
• thinbinvol.m
  • initial test
• maskdist.m
  • initial test

Mesh plotting

• plotmesh.m
  • initial test
• plotsurf.m
  • initial test
• plottetra.m
  • initial test
• plotedges.m
  • initial test
• qmeshcut.m
  • initial test

Miscellaneous functions

• surfdiffuse.m
  • initial test
• volmap2mesh.m
  • initial test
• isoctavemesh.m
  • initial test
• getvarfrom.m
  • initial test
• raytrace.m
  • initial test
• linextriangle.m
  • initial test
• getplanefrom3pt.m
  • initial test
• getexeext.m
  • initial test
• fallbackexeext.m
  • initial test
• iso2meshver.m
  • initial test
• raysurf.m
  • initial test
• getoptkey.m
  • initial test
• rotatevec3d.m
  • initial test
• rotmat2vec.m
  • initial test
• varargin2struct.m
  • initial test
• jsonopt.m
  • initial test
• mergestruct.m
  • initial test
• orthdisk.m
  • initial test
• nestbracket2dim.m
  • initial test
• fast_match_bracket
  • initial test
• match_bracket
  • initial test
• memmapstream.m
  • initial test
• aos2soa.m
  • initial test
• soa2aos.m
  • initial test

Brain2mesh toolbox

• brain2mesh.m
  • initial test
• brain1020.m
  • initial test
• intriangulation.m
  • initial test
• label2tpm.m
  • initial test
• tpm2label.m
  • initial test

No need to port below functions -

JData functions -- covered by the jdata/bjdata python modules

• savejmesh.m
  • initial test
• loadjnifti.m
  • initial test
• savejnifti.m
  • initial test
• loadnifti.m
  • initial test
• savenifti.m
  • initial test
• jdatahash.m
  • initial test
• jdataencode.m
  • initial test
• jdatadecode.m
  • initial test
• jdict.m
  • initial test
• jload.m
  • initial test
• jsave.m
  • initial test
• decodevarname.m
  • initial test
• encodevarname.m
  • initial test
• jnifticreate.m
  • initial test
• nifticreate.m
  • initial test
• nii2jnii.m
  • initial test
• jnii2nii.m
  • initial test
• niicodemap.m
  • initial test
• niiformat.m
  • initial test
• savebnii.m
  • initial test
• savejnii.m
  • initial test
• jsonpath.m
  • initial test
• jsonset.m
  • initial test
• jsoncache.m
  • initial test
• json2couch.m
  • initial test
• filterjsonmmap.m
  • initial test

File I/O

• loadh5.m
  • initial test
• saveh5.m
  • initial test
• loadjd.m
  • initial test
• savejd.m
  • initial test

Data compression -- provided by jdata and python built-in modules

• zlibencode.m
  • initial test
• zlibdecode.m
  • initial test
• gzipencode.m
  • initial test
• gzipdecode.m
  • initial test
• lzmaencode.m
  • initial test
• lzmadecode.m
  • initial test
• lzipencode.m
  • initial test
• lzipdecode.m
  • initial test
• lz4encode.m
  • initial test
• lz4decode.m
  • initial test
• lz4hcencode.m
  • initial test
• lz4hcdecode.m
  • initial test
• base64decode.m
  • initial test
• base64encode.m
  • initial test
• blosc2encode.m
  • initial test
• blosc2decode.m
  • initial test
• zstdeecode.m
  • initial test
• zstddecode.m
  • initial test
• octavezmat.m
  • initial test

GUI

• i2m.m
  • initial test
• img2mesh.m
  • initial test
• metchgui.m
  • initial test
• metchgui_one
  • initial test

May need to extend jdata module to include these jsnirf/jnifty files

• snirfcheck.m
  • initial test
• snirfcreate.m
  • initial test
• snirfdecode.m
  • initial test
• jsnirfcreate.m
  • initial test
• niiheader2jnii.m
  • initial test