/dports/science/afni/afni-AFNI_21.3.16/src/pkundu/meica.libs/nibabel/tests/ |
H A D | test_nifti1.py | 363 aff = img.get_affine() 365 hdr.set_qform(aff, 2) 366 hdr.set_sform(aff, 2) 880 aff = np.diag([2, 3, 4, 1]) 881 simg = Nifti1Image(arr, aff) 882 pimg = Nifti1Pair(arr, aff) 927 aff = np.diag([2, 3, 4, 1]) 929 img = Nifti1Image(arr, aff) 968 aff = np.eye(4) 984 aff = np.eye(4) [all …]
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H A D | test_funcs.py | 78 aff = np.eye(4) 79 aff[0,1] = 0.1 81 img = Nifti1Image(arr, aff)
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H A D | test_analyze.py | 400 aff = np.diag((-4,5,6,1)) 401 aff[:3,3] = np.array([1,2,3]) * np.array([-4,5,6]) * -1 402 assert_array_equal(hdr.get_base_affine(), aff) 405 aff[0]*=-1 406 assert_array_equal(hdr.get_base_affine(), aff)
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H A D | test_affines.py | 29 aff = np.diag([2, 3, 4, 1]) 33 aff[:3,3] = [10, 11, 12] 36 aff[:3,:] = rng.normal(size=(3,4)) 38 exp_res = np.dot(aff, exp_res)[:3,:].T 41 assert_almost_equal(validated_apply_affine(aff, pts), apply_affine(aff, pts)) 47 exp_res = (np.dot(aff[:3,:3], pts.T) + aff[:3,3:4]).T 55 aff = np.eye(N) 59 res = apply_affine(aff, pts) 63 exp_pts = np.dot(aff, new_pts) 99 aff = np.array([[2,0,0], [all …]
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/dports/science/afni/afni-AFNI_21.3.16/src/pkundu/meica.libs/nibabel/nicom/ |
H A D | dicomreaders.py | 34 aff = np.dot(DPCS_TO_TAL, dcm_w.get_affine()) 35 return nib.Nifti1Image(data, aff)
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H A D | dicomwrappers.py | 291 aff = np.eye(4) 292 aff[:3,:3] = orient * np.array(vox) 293 aff[:3,3] = ipp 294 return aff
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/dports/science/afni/afni-AFNI_21.3.16/src/pkundu/meica.libs/nibabel/ |
H A D | volumeutils.py | 1347 aff = np.eye(4) 1348 aff[:3, :3] = np.diag(zooms) 1349 aff[:3, -1] = -origin * zooms 1350 return aff
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H A D | trackvis.py | 605 aff = trk_hdr['vox_to_ras'] 606 if aff[3,3] != 0: 607 return aff 614 aff = np.eye(4) 622 aff[:3,:3] = R * vox 623 aff[:3,3] = trk_hdr['origin'] 624 aff = np.dot(DPCS_TO_TAL, aff) 631 return aff 634 exp_order = ''.join(aff2axcodes(aff)) 637 aff[:,2] *= -1 [all …]
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H A D | spm99analyze.py | 161 aff = np.eye(4) 162 aff[:3, :3] = np.diag(zooms) 163 aff[:3, -1] = -origin * zooms 164 return aff
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H A D | parrec.py | 444 aff = np.eye(4) 445 aff[:3,:3] = scaled 447 aff[:3,3] = fov_center_offset 454 aff[:3,3] += iso_offset 455 return aff
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H A D | orientations.py | 278 def aff2axcodes(aff, labels=None, tol=None): argument 303 ornt = io_orientation(aff, tol)
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H A D | minc.py | 95 aff = np.eye(nspatial+1) 96 aff[:nspatial, :nspatial] = rot_mat * steps 97 aff[:nspatial, nspatial] = origin 98 return aff
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H A D | funcs.py | 182 aff = img.get_affine() 183 ornt = io_orientation(aff) 188 if enforce_diag and not _aff_is_diag(aff): 193 out_aff = np.dot(aff, t_aff) 195 if enforce_diag and not _aff_is_diag(aff): 203 def _aff_is_diag(aff): argument 205 rzs_aff = aff[:3, :3]
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H A D | ecat.py | 636 aff = np.diag(zooms) 637 aff[:3,-1] = -origin_offset * zooms[:-1] + np.array([x_off,y_off,z_off]) 638 return aff 914 aff = subheaders.get_frame_affine() 915 img = klass(data, aff, header, subheaders, mlist, extra=None, file_map = file_map)
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H A D | affines.py | 9 def apply_affine(aff, pts): argument 68 aff = np.asarray(aff) 73 rzs = aff[:-1,:-1] 74 trans = aff[:-1,-1] 172 def append_diag(aff, steps, starts=()): argument 207 aff = np.asarray(aff) 215 old_n_out, old_n_in = aff.shape[0]-1, aff.shape[1]-1 218 old_n_in + n_steps + 1), dtype=aff.dtype) 220 aff_plus[:old_n_out,:old_n_in] = aff[:old_n_out, :old_n_in] 221 aff_plus[:old_n_out,-1] = aff[:old_n_out,-1]
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/dports/science/afni/afni-AFNI_21.3.16/src/pkundu/meica.libs/ |
H A D | tedana.py | 110 niwrite(unmask(data,mask),aff,'__clin.nii.gz',header) 519 niwrite(cbetas[:,:,:,:],aff,'_'.join(['betas',suffix])+'.nii') 530 niwrite(zfac,aff,'zfac.nii') 555 niwrite(unmask(feats,mask),aff,'_'.join(['feats',suffix])+'.nii') 589 niwrite(ts,aff,'ts_OC.nii') 594 niwrite(ts_B[:,:,:,:],aff,'_'.join(['betas','OC'])+'.nii') 652 aff = catim.get_affine() variable 659 if options.fout: options.fout = aff 681 niwrite(s0,aff,'s0v.nii') 682 niwrite(t2s,aff,'t2sv.nii') [all …]
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H A D | t2smap.py | 250 aff = catim.get_affine() variable 286 niwrite(tsoc,aff,'ocv%s.nii' % suf) 287 niwrite(s0,aff,'s0v%s.nii' % suf) 288 niwrite(t2s,aff,'t2sv%s.nii' % suf ) 289 niwrite(t2sm,aff,'t2svm%s.nii' % suf )
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H A D | select_model.py | 69 if debugout: fout=aff 169 sel = spatclust(None,mask,csize,1.95,head,aff,infile=ccname,dindex=3,tindex=3) 175 …s_R2[:,i] = spatclust(rankvec(tsoc_Babs[:,i]),mask,csize,max(tsoc_Babs.shape)-countsigFR2,head,aff) 176 …s_S0[:,i] = spatclust(rankvec(tsoc_Babs[:,i]),mask,csize,max(tsoc_Babs.shape)-countsigFS0,head,aff)
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/dports/science/afni/afni-AFNI_21.3.16/src/python_scripts/scripts/ |
H A D | auto_warp.py | 761 def qwarp_applying(self, a, aff, wrp, prefix=None, dxyz=0.0, master=None): argument 770 if (aff != "ID"): 772 nwarp = '"%s %s"' % (wrp.input(), aff) # 7 Nov, 2014 [rickr] 803 def align_epi_anat(self, e, a, aff): argument 810 if (aff != "ID"): 811 waff = "-post_matrix %s" % aff 867 aw = ps.qwarp_applying(a=ps.input, aff=ps.affine_input_xmat, 877 …ps.affine_followers_xmat[k] = ps.align_epi_anat(e=fol, a = ps.anat_no_skull, aff=ps.affine_input_x… 878 … ps.qwarp_applying(a=fol, aff=ps.affine_followers_xmat[k], wrp=ps.warp_input_xform, dxyz=2.5)
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/dports/science/afni/afni-AFNI_21.3.16/src/scripts_install/ |
H A D | @animal_warper | 2984 aff = affine 2990 shft = 'full' shift (includes aff align) to base
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/dports/x11/pixman/ |
H A D | .PLIST.readelf | 4738 000000003aff 005100000002 R_X86_64_PC32 0000000000000020 .LC5 - 4
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/dports/math/gap/gap-4.11.0/lib/ |
H A D | clashom.gi | 1655 aff, # <N> as affine space 1723 aff := ExtendedVectors( field ^ r ); 1758 imgs{[radidx+1..Length(gens)]},cl[4],hom,gpsz,OnRight,aff); 2551 aff, # <N> as affine space 2638 aff := ExtendedVectors( field ^ r ); 2698 aff:orbitseed:=reps[p].vector);
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H A D | claspcgs.gi | 312 aff, # <N> as affine space 313 xset, # affine operation of <C> on <aff> 366 aff:=ExtendedVectors( field ^ r ); 410 xset:=ExternalSet(SubgroupByPcgs(H,Cgens),aff,gens,imgs,OnPoints); 465 #xset:=ExternalSet( C, aff, gens, imgs ); 472 dict:=NewDictionary(aff[1],true,aff:blistlimit:=Size(aff)); 475 blist:=BlistList([1..Length(aff)],[]); 483 S:=Pcs_OrbitStabilizer(gens,aff,aff[next],imgs,OnRight,dict); 486 S:=Pcs_OrbitStabilizer(gens,aff,aff[next],imgs,OnRight); 488 blist[PositionCanonical(aff,i)]:=true;
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/dports/math/gap/gap-4.11.0/pkg/polycyclic-2.15.1/gap/pcpgrp/ |
H A D | normcon.gi | 14 local aff, l, i, lin, trl, j; 15 aff := OperationOnH1( CR, cc ); 17 for i in [1..Length(aff)] do 18 if aff[i] = 1 then 19 aff[i] := IdentityMat( l+1 ); 28 if not IsBool(cc.fld) then aff := aff * One(cc.fld); fi; 29 return aff; 119 aff := AffineActionOnH1( CR, cc ); 142 aff := InducedByPcp( CR.super, act, aff ); 149 oper := function( pt, aff ) [all …]
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/dports/math/gap/gap-4.11.0/pkg/polycyclic-2.15.1/gap/action/ |
H A D | orbstab.gi | 109 OnAffMod := function( pt, aff ) 111 im := pt * aff[1] + aff[2]; 207 OnAffMod := function( pt, aff ) 209 im := pt * aff[1] + aff[2];
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