scipion-em-xmipp 23.11.0.1__py3-none-any.whl → 24.6.0.0__py3-none-any.whl

{scipion_em_xmipp-23.11.0.1.dist-info → scipion_em_xmipp-24.6.0.0.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: scipion-em-xmipp
-Version: 23.11.0.1
+Version: 24.6.0.0
 Summary: Plugin to use Xmipp programs within the Scipion framework (see https://scipion-em.github.io/docs/).
 Home-page: https://github.com/i2pc/scipion-em-xmipp
 Author: I2PC

{scipion_em_xmipp-23.11.0.1.dist-info → scipion_em_xmipp-24.6.0.0.dist-info}/RECORD

@@ -1,21 +1,21 @@
-xmipp3/__init__.py,sha256=-1UIrNNFtL_HJ3NEzUxnjAKakPrYa_WVyXgGt-kO74U,13330
+xmipp3/__init__.py,sha256=Bc3CesJmNp5xxqL5CBfhPOWrkf14NyW7W0rm4htDsrQ,13303
 xmipp3/base.py,sha256=pFu7FZjm4WeqWbLZJwbmGH3-2YixAIpKyWMFvVrsBYc,21220
 xmipp3/bibtex.py,sha256=YZjuuB_9RC4QOOy5r86cRX3ze2EWz43iGzIDQvtu5HQ,28310
 xmipp3/constants.py,sha256=ND8PUJyUIP3IS3kbq0tZqk77Yq0c4WotRUj_r2gEDxo,3833
 xmipp3/programs.py,sha256=yrMD0EHEq5j_ODCeINbaCp4CEqSgkmioan1O1mAgPY0,11968
-xmipp3/protocols.conf,sha256=oyp24nsLnr5TqjLVgPIfJjEwD9QlQ1MCzwuUAj_mlJ0,12386
+xmipp3/protocols.conf,sha256=Dwg5S_PBQV9wy5n5CmEppB75P4Nmur2l1FsKLrMCde8,12631
 xmipp3/utils.py,sha256=JKuEdR40rn6pdm0puwsgzItbNnrFL4sa7pBymVtRzLM,9125
 xmipp3/wizards.py,sha256=kS2ctLuy46m-8XPWrd2705V9Gxbhf4UBa4vKJ8eqius,20343
 xmipp3/xmipp_logo.png,sha256=ggrFNUy5UEBjvKfNvu0T14Kzolnhc-ij9AQ734R27MY,84496
 xmipp3/convert/__init__.py,sha256=y231wRpfDySMgyjLi6xYuO3hTG1NZBNnMRT7dNnYqu8,1211
-xmipp3/convert/convert.py,sha256=89Kay47zY8dguxUrxfrSUkCb__9-qe96h_tQZdzctWc,62027
+xmipp3/convert/convert.py,sha256=ikxH7kMUvUUbmikalhPJ5tG8rWTCEGPhx73PoAFQXB0,62304
 xmipp3/convert/dataimport.py,sha256=ssmMLKU1qXDuqjStNJv-zfYNJAJ-0k7EzNyF4jf91IU,13292
 xmipp3/convert/io_coordinates.py,sha256=ZUKEbL7DjJ0jDVJzs2Nnc-sX7QYuAyGSponhP6WYMDI,1963
-xmipp3/protocols/__init__.py,sha256=0O75OJ2F3-ud9FUkMEFnO2M4B8D1F3TVFVO0fXbTwYQ,8554
+xmipp3/protocols/__init__.py,sha256=cE4L0pNHeQdeZsEbs9dHNa-6gPdM1V5G23-OMuWlCUE,8301
 xmipp3/protocols/protocol_align_volume.py,sha256=uxFtsb9cB0tz9QkyXvR3pK5457x9sq9F-qyeuOeA2go,19070
 xmipp3/protocols/protocol_align_volume_and_particles.py,sha256=g5dpZfq_iggeTFt2-3iGvc8zFQY_5EaiBg0gycEKPLw,10735
 xmipp3/protocols/protocol_analyze_local_ctf.py,sha256=O1_xWXuKDRGvhhd-BQ1DRMKti_KDqNN_kALzUhvN3DQ,7446
-xmipp3/protocols/protocol_angular_graph_consistency.py,sha256=CjRg1dkOUC8R9EaKKUyypjPSTmPetCkAUQE1Q184gS0,30302
+xmipp3/protocols/protocol_angular_graph_consistency.py,sha256=aK-59_JQ849_-drD_R5NjhW9lSwy0-4WtB0Ig5UyLgQ,30300
 xmipp3/protocols/protocol_angular_resolution_alignment.py,sha256=EsKm1PfGkkpnzoKuhZqM-e1_99_XVtIBOIGhlgg45qM,8521
 xmipp3/protocols/protocol_apply_alignment.py,sha256=TL89xGiYtPN5mlEhU4R-6yLEzjxIyx2TStiTyXdkvKw,5958
 xmipp3/protocols/protocol_apply_transformation_matrix.py,sha256=TJJ7IQK_FM_-3488iBCH6JQSnBLBhPg78mYXN2E2PAk,4891
@@ -23,90 +23,88 @@ xmipp3/protocols/protocol_apply_zernike3d.py,sha256=aHb-6oFCLIZV49OXlft_VQgmcO9v
 xmipp3/protocols/protocol_assignment_tilt_pair.py,sha256=4bjhPZbffm2jIZV4LLbrw-_fhNbzZVPf1UmzbqhpK_o,10332
 xmipp3/protocols/protocol_break_symmetry.py,sha256=OZvOOsyFMX-pdk69rYo546AxvRZtRFs0GmuT9Vkv6mc,6183
 xmipp3/protocols/protocol_center_particles.py,sha256=2ug42YlvD7PidOLC1EL6U4b-WFm9i6UF8ggn_ksC14E,11159
-xmipp3/protocols/protocol_cl2d.py,sha256=Ksik8xTx2m0DHKDiemOz2q_lhNFOrar6OXMxVrY6a08,27226
+xmipp3/protocols/protocol_cl2d.py,sha256=ovh25H8QbcdsmqV1J0M-1d3vzbQYnTT6WH2O2hkohEg,27500
 xmipp3/protocols/protocol_cl2d_align.py,sha256=RF_WVqNMnLGXALW5LyIQ43JmoysSyYcrV5vOsnef0oY,8279
 xmipp3/protocols/protocol_classes_2d_mapping.py,sha256=oq6me8X4v4qFJt-GtJ4S1y64qkPCmUVWHkfMgK8XCcA,18032
+xmipp3/protocols/protocol_classify_pca.py,sha256=PepVs7BOgJ-0mbZLjr-gJN58X3n51e3ujbN5AkxUPvU,20288
+xmipp3/protocols/protocol_classify_pca_streaming.py,sha256=Lpm33qPG4gR9xW9MYqdsHiFOV_jzEsqyw6vRx2sZRTw,22015
 xmipp3/protocols/protocol_compare_angles.py,sha256=NIoQjym4aH3BsMJ7RaMmyswEl9gHkxMnnkQQJdAQaCw,8034
-xmipp3/protocols/protocol_compare_reprojections.py,sha256=nRDA9tvF9wATuNZW7PoQ6H5N9CKDiKnwPeYyxgsG4ug,15333
+xmipp3/protocols/protocol_compare_reprojections.py,sha256=H4QN60KdXlspxv_SR4JF3YVT01tovgGv6dfDTf0OENc,31250
 xmipp3/protocols/protocol_consensus_classes.py,sha256=En9qEsEpkRqXE0BUOHvJI8b6VTrsZfpgd2x2GTj32eU,24604
 xmipp3/protocols/protocol_consensus_local_ctf.py,sha256=qJrZ1GVJgaNmX60_GvbUDg-qg3FqXnfoLXWhfoXiJss,9953
-xmipp3/protocols/protocol_convert_pdb.py,sha256=S75hJDC43FlODBlCJDzpFS6goKDXeD5Gsl0C7hhm5DM,15268
-xmipp3/protocols/protocol_core_analysis.py,sha256=OHswPqGCEdm8WwvV4tD4aUwa6MxKAGtx3w0CcTGX0ak,9964
+xmipp3/protocols/protocol_convert_pdb.py,sha256=tSDLzyL7xidVToD3bw-9yi80U9BCLOR6RWxr0bWaRj8,15488
+xmipp3/protocols/protocol_core_analysis.py,sha256=Bt2cgf4PGZB_HjmthRtdIQGT7ri-pV5vNRChm07oHB4,9919
 xmipp3/protocols/protocol_create_gallery.py,sha256=GwuJxJLkPlxZxUSt-J8oDgPN7wWmFBd4iPENcve_JIY,5970
 xmipp3/protocols/protocol_ctf_consensus.py,sha256=_ug1EQG9COSWK-VHIsMXXDthK4tbRPgt7QUqJyyYrFQ,42582
 xmipp3/protocols/protocol_ctf_correct_wiener2d.py,sha256=thDaon-jYBeXbGM_UiEwfLCeURPwD_7ycgzUzNc3T5g,5819
 xmipp3/protocols/protocol_ctf_defocus_group.py,sha256=c_it4w5tJAxC9HpMzcYp58cZLRXSNS4hjgeJ_L6iKkI,8304
-xmipp3/protocols/protocol_ctf_micrographs.py,sha256=urc8Fk8cA0z6r4FEkzuD2yvQYyGoBv7VZjTlmNBr-A0,28698
-xmipp3/protocols/protocol_deep_center_assignment.py,sha256=87rh6bdYfbOViEn0atEzahwD0ON5Yp4PPBSg-dyCbzk,12691
-xmipp3/protocols/protocol_deep_denoising.py,sha256=z7lkqP8AylC1NMbHkGORUKLAiS9DAffInaZUpbYAAVo,21324
+xmipp3/protocols/protocol_ctf_micrographs.py,sha256=R0ocHeLuAAiwkvhfoZF8votSXKfv1f2Vjny7mmdpf2g,28384
+xmipp3/protocols/protocol_deep_center.py,sha256=GGivftHKyg1wlLnfS0im9IS1NIKxXr8Fky3Yt2-3ieQ,6742
 xmipp3/protocols/protocol_deep_hand.py,sha256=KeKV6DHqpua1GoL3dWojYhwAHEiUxXy5Mdkr0at77ag,7185
 xmipp3/protocols/protocol_deep_micrograph_screen.py,sha256=AL9c6dqsdSOA1MCEOzYcWd5mtoCfyJyioIXALmJ4Scw,22068
-xmipp3/protocols/protocol_denoise_particles.py,sha256=h6q5xTWfC6UQZE89MqseqNCpf0ufrh3gQeG83gTlemM,7759
+xmipp3/protocols/protocol_denoise_particles.py,sha256=_FDzQ4JlNU5_RadEq0F9TfUA8H2jvDi-0pXHcTXDkOQ,7689
 xmipp3/protocols/protocol_eliminate_empty_images.py,sha256=Xil4A_zuprSZ_LjZc79CEKib2-MrUZzxyN5bDLaYaSo,22399
 xmipp3/protocols/protocol_enrich.py,sha256=pymPJpNAHUNtECe89-pdzcVmkdNbVN7kp1PGz9NgwYg,25080
 xmipp3/protocols/protocol_extract_asymmetric_unit.py,sha256=1XOA2waEA0EY8z7iB-2ivJXbiNDegzIyYmkOxTpXseM,8356
-xmipp3/protocols/protocol_extract_particles.py,sha256=g-xgiTqibAFozObncZ5ICFmWuivtVpFf-ipVCK7FKUo,26362
+xmipp3/protocols/protocol_extract_particles.py,sha256=Mt9gOGR2c6wQ0JC0seFNRFKv1teXyASpJxw9FpbYABg,26486
 xmipp3/protocols/protocol_extract_particles_movies.py,sha256=DYHNx0RRvcvnEXD6rnEYnp7gbv-hNjtjhKvK47MwpHw,23165
 xmipp3/protocols/protocol_extract_particles_pairs.py,sha256=Cg0I_hptAErRXSrtDZnSrUDMx_P2NFgrFV34pUcQFoM,29349
 xmipp3/protocols/protocol_flexalign.py,sha256=FCGlCLc0Rk1HomaFYj9l_DiYPrx1K-7f5DmlzSBhjzI,18498
-xmipp3/protocols/protocol_generate_reprojections.py,sha256=UMVB2e4UnwA44XdiXM9iXjaFIajsD-DHebLt2xfb8-4,9471
+xmipp3/protocols/protocol_generate_reprojections.py,sha256=iOTrZBWGwxLAytfY1WHDDf3UxNuOHTv_DjNja3Txoco,9788
 xmipp3/protocols/protocol_helical_parameters.py,sha256=aExrXYis9jmRx4GOagy1TRdTaUeK1nkX3akHSS41aoQ,9841
 xmipp3/protocols/protocol_kerdensom.py,sha256=dwJB8Gs1lynymNjBRVvDbGJpz9p2dRsoTgkT-1B08Fs,12393
 xmipp3/protocols/protocol_local_ctf.py,sha256=Kv9vKC6KCt_fgiF5a-4ivKeetFQGMq05jH3vHMTLLFw,8110
-xmipp3/protocols/protocol_metaprotocol_create_subset.py,sha256=Z1dg0H88x00b2W47Ta7qASbDND-zXyDKQnZ2dN2UPw4,3915
-xmipp3/protocols/protocol_metaprotocol_golden_highres.py,sha256=CY0Ny_rURd48Mysxaz4nh6lHNiCnpYFb-UBWk3VFmg4,32782
 xmipp3/protocols/protocol_ml2d.py,sha256=fOkDGOADXgMxT_GeDEf2b7F8W2GdNP8ZFCTM7DEKUxk,17214
-xmipp3/protocols/protocol_movie_dose_analysis.py,sha256=PU_I4yDliM-dPytjZ4BaJt1PF956hVvX7uYDpTv99Nc,17827
+xmipp3/protocols/protocol_movie_alignment_consensus.py,sha256=BcRB_LfPvJNkDK8BR4ejtwuRKEkqD5V5yTqUPyiihPA,25019
+xmipp3/protocols/protocol_movie_dose_analysis.py,sha256=EEhCwurO4EoNiAyV53ykneYVSPhAh4sls-0Ka4A7g_4,17040
 xmipp3/protocols/protocol_movie_gain.py,sha256=tc1GU3-VbV1fkxXzPY0nCGMMKO0lEdtt6HCWKR_azKs,24802
 xmipp3/protocols/protocol_movie_max_shift.py,sha256=zrzZAh-mBWNfVJ-2w12EmbaJ7IYBuQOsdqxRzJkebqE,17726
-xmipp3/protocols/protocol_movie_opticalflow.py,sha256=bxZ3Lh8S7_eqXffxZGPjwdRCIy0_4KSyWUazisu2L7o,18030
+xmipp3/protocols/protocol_movie_opticalflow.py,sha256=js8Tk6MR47T7wlCkQn2dUb9iQu79UWOnWfEwqNNsZrw,18059
 xmipp3/protocols/protocol_movie_split_frames.py,sha256=yx4DryyQDyyqLwp0ckyHjy-_aDBMjdvIIBCZ80Xe4OI,7175
 xmipp3/protocols/protocol_multiple_fscs.py,sha256=Q-F-gZIIk8V8jtMB1DW1R2RbDvXloS0USg6Cy1_Wf5c,6491
-xmipp3/protocols/protocol_multireference_alignability.py,sha256=vAcqz_TEpze65PZC8lu3BgQPiudlICwcLObutTD-3ks,27778
+xmipp3/protocols/protocol_multireference_alignability.py,sha256=ILbYwU2rHnibzf5PGSsDGI3hJsDUnn0IzC49pOoG14M,27660
 xmipp3/protocols/protocol_normalize_strain.py,sha256=FrhVITNa_9EkZ_BC53uEVjsOKWcpp0EkFlXvBZJSmgQ,3448
 xmipp3/protocols/protocol_particle_pick.py,sha256=Kk75_SEv12796oOaRL1u80hsNzV1nzFfiOcryAxaT3Y,9784
-xmipp3/protocols/protocol_particle_pick_automatic.py,sha256=aIPxwNQ_--uBR00xASG_aijGAY6rIxwLcIpEfFelAL0,11958
-xmipp3/protocols/protocol_particle_pick_consensus.py,sha256=IUf6ya9ixSIdsJl7_wn9RU9tdyUffZjDnvKT70vp55Y,16538
+xmipp3/protocols/protocol_particle_pick_automatic.py,sha256=d2WqBeyiL9ysOwz7sIj54IwV9sXJs-pusJhyZMlX1bE,11955
+xmipp3/protocols/protocol_particle_pick_consensus.py,sha256=gwPKnfewnZ9RId-iBuAB_CgCfkdsVi3C2UNcEput_hQ,16580
 xmipp3/protocols/protocol_particle_pick_pairs.py,sha256=uAYek--3U5tpFT2d2sTQqj763Zt4CMkt9tuzk3gTMbU,8426
-xmipp3/protocols/protocol_particle_pick_remove_duplicates.py,sha256=MIEnRIHSs_vtbYIouCtBMjsN6N1s1-lqoem18j06jQk,4938
+xmipp3/protocols/protocol_particle_pick_remove_duplicates.py,sha256=v7ts6UZkLUMiYQnrhy2sBEla9wHp6sKDcKppJjyNMoE,5371
 xmipp3/protocols/protocol_phantom_create.py,sha256=XkZYJODYa1OZFM8WjThMhSAkIm373RFhDc9BK86jHlM,3525
 xmipp3/protocols/protocol_pick_noise.py,sha256=hsZyE9jqdHa5i7VxHHcy04C_uPk29jr1sfI6amtAHXQ,7340
 xmipp3/protocols/protocol_postProcessing_deepPostProcessing.py,sha256=RqcwXuj22BUxJcTprkYqKd7bdyyZUEQUw1J36KslgXA,15158
 xmipp3/protocols/protocol_preprocess_micrographs.py,sha256=eKu-Hdtd8lsxuT1J7JW_N3AJSESkZxL2-HF-iU5E3SM,23961
 xmipp3/protocols/protocol_random_conical_tilt.py,sha256=R5PrC9JGPWylpBrZ70_VPpN5zySPXI6YM6Mdlbpib3Y,17030
 xmipp3/protocols/protocol_ransac.py,sha256=-Ih7qjWcjzKgyUEphVk7bpd9S1fMFaO2AfYalzd2fGk,28957
-xmipp3/protocols/protocol_reconstruct_fourier.py,sha256=bpgjTKv6aphfNmh-VTigXOE49q-eTI_tOtgpw-ZR_dM,10469
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 xmipp3/protocols/protocol_reconstruct_highres.py,sha256=WGCuJvEhFEFtLg_jD8wDdpjz1KS4ckHYX7tNpfhhw8A,107816
 xmipp3/protocols/protocol_reconstruct_significant.py,sha256=VMHCDpc-XKe43jjyPuswFRdu9l3s-eXyUxIUjfvi4bc,26462
 xmipp3/protocols/protocol_reconstruct_swarm.py,sha256=z_g7HJ6Ix_Ov3zCzLnqkJuPb3vKq82UYCpB87Cles_E,30163
 xmipp3/protocols/protocol_resolution3d.py,sha256=L9e46RaZosxZlfFOi_GCuwNGqxY13LTxrqrwejWiPFE,10241
-xmipp3/protocols/protocol_resolution_bfactor.py,sha256=QKmJO34yfquyDGS5GL_itiwvfelq40eikMujdCaQEfM,7598
-xmipp3/protocols/protocol_resolution_deepres.py,sha256=-gbSyzyPRe9HuuVTOZmw5SE0QuqI3dEijnoom61Nn6s,16478
+xmipp3/protocols/protocol_resolution_bfactor.py,sha256=IZzSZ0hJmYynghUqgReJ-h5dxOIEBkUEeBWLPlCZSx8,8006
+xmipp3/protocols/protocol_resolution_deepres.py,sha256=VR7i8GDHp_FOUQwqGeCDwQmak6sZL08AqdiKUOoLALs,16534
 xmipp3/protocols/protocol_resolution_directional.py,sha256=WcCGzkoiAkwqsnE_538Zoc2mopdjQpFVtFGNy8nLzqU,12894
 xmipp3/protocols/protocol_resolution_fso.py,sha256=bGMw_Y5tFSfPipvV2UfnZOXFpQrfA6qR7CljTXp1XT0,8935
 xmipp3/protocols/protocol_resolution_monogenic_signal.py,sha256=xHOkSmyIKFwS6-PsvhcNpt7qB-P5jQz9iRw3wEkASps,17149
 xmipp3/protocols/protocol_rotate_volume.py,sha256=aL6LM-KByo86g0ByWAp2RqdBRyBBpKvW7mIGtJOSjYo,4337
 xmipp3/protocols/protocol_rotational_symmetry.py,sha256=hpBuxzj54aGa283Zr3J18mMGrM1cj-3Wu3ihyh1CsVU,8326
-xmipp3/protocols/protocol_screen_deepConsensus.py,sha256=WxE0KfQ87ns1r7V--ILnFzdtWieg_9-1M4lP_a4TMFE,88187
+xmipp3/protocols/protocol_screen_deepConsensus.py,sha256=1ym4vGxYGkff3Yu5DQM5ylNS_UQvXHWzawNVQV9hXJw,88187
 xmipp3/protocols/protocol_screen_deeplearning.py,sha256=nrhfzoTWPWULTrDDnUD1ELCC_cCrS5-3yaxTBSBsOAY,17530
-xmipp3/protocols/protocol_screen_particles.py,sha256=zg5njvG18d_NCzX3AjRJUXY8FdZmy9K8oqcvmkz2lMg,21002
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 xmipp3/protocols/protocol_shift_particles.py,sha256=S4U1W6E73YaneIIibAaD_-1-2tRbDgZgDJQYdpjklyw,8893
 xmipp3/protocols/protocol_shift_volume.py,sha256=iejnfsJkYEJhs9cADX5_r7Iniwnnc8X-nwF4RbU1ADU,5138
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-xmipp3/protocols/protocol_solid_angles.py,sha256=taET1k3d0v-mUi2fq4cUn8AvWygg7IqMfoGma67Dm5Y,29287
-xmipp3/protocols/protocol_split_volume.py,sha256=4yfrx8BKzMszgZijqJ3iEAHD66DWlVNm4rwWwwsvhTE,5928
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 xmipp3/protocols/protocol_structure_map.py,sha256=Nf6H_imnkgJTs64-I8FFFtD1CKFmaZ8Sb6ZTD_j33m8,8331
 xmipp3/protocols/protocol_structure_map_zernike3d.py,sha256=EY7rV6vSfyxYXH3ed0FTzNsYu87Ph9klYGqlwuc0eyU,22110
 xmipp3/protocols/protocol_subtract_projection.py,sha256=v1svDU_qGWBu58oGrTVSIB8cJj3INE3Dl97E2DoaXuU,12850
-xmipp3/protocols/protocol_tilt_analysis.py,sha256=q3jaJjflDIvsC13UfERAYQkMokC-eboxvjiTQOVjlT8,27300
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 xmipp3/protocols/protocol_trigger_data.py,sha256=8eJiHieg7wHX0Gd7ytyfLHnnyzYMpayVda1v6vFHWvs,15711
-xmipp3/protocols/protocol_validate_fscq.py,sha256=WeRpRgOvalLgRXpGO36Td3YvCJCAkqLGbE739BfIlHQ,23656
-xmipp3/protocols/protocol_validate_nontilt.py,sha256=1XIqu4Inco-Mv-TA6gwas21g1owwagngao05OZLnu54,16415
+xmipp3/protocols/protocol_validate_fscq.py,sha256=fY54lDWAWcdw2zPlnf5DNV98y0v-qgjkJiKWHqIS3nY,26475
+xmipp3/protocols/protocol_validate_nontilt.py,sha256=0HFI6bnvSzduzBNddaL-WMyM7M4n-K68g3hd1ZC4mc8,16316
 xmipp3/protocols/protocol_validate_overfitting.py,sha256=QYKu8Hi6QwbbEsY5V6Riu7K7PWUpj8oS__ZjobjFe80,25116
 xmipp3/protocols/protocol_volume_adjust_sub.py,sha256=HESmNsxutaxtiO0NO7Wgcj7yncGm_o97bgIB6fkblX8,17626
 xmipp3/protocols/protocol_volume_consensus.py,sha256=miaQo_ldhwAcFefBjIk32iKFpK0SBvaPaVPviD1eoL8,5626
 xmipp3/protocols/protocol_volume_deform_zernike3d.py,sha256=fpZlYE6TRkDkgD4Ozo4RWNCX-ba89bGvqBSn-6Ki8qA,10165
-xmipp3/protocols/protocol_volume_local_adjust.py,sha256=bhCJbMYiSXxDbfE2e-GBr19HUYHYnfKCuAej8ANoG64,5980
+xmipp3/protocols/protocol_volume_local_adjust.py,sha256=XupsyYS92ClxM34d1PYK8W2X9XNpAoJRREkMWth1CU4,6051
 xmipp3/protocols/protocol_volume_local_sharpening.py,sha256=iFjA4DKEIVKVE1ekNfbCrMWeTRBQwIjXJIQu7DwbP24,12479
 xmipp3/protocols/protocol_volume_strain.py,sha256=OQU0mLlHBK0add_gP9hWwDc19FxGAYY4XmjRkKfcB3M,6777
 xmipp3/protocols/protocol_write_testC.py,sha256=LfUhtQeT_lsZjw7yHDa0B-m33V-UmfJYMn_fFyruPnc,3288
@@ -122,21 +120,19 @@ xmipp3/protocols/protocol_preprocess/protocol_image_operate.py,sha256=xKizCA9cxa
 xmipp3/protocols/protocol_preprocess/protocol_mask.py,sha256=5O_wN4ifd1vY1on25J6H5Xj6L0eyV4fcr-u1rBqw4Ys,11716
 xmipp3/protocols/protocol_preprocess/protocol_movie_resize.py,sha256=WfaQljG1c9UZXd-gaWRdQXeZEplLYZGWxYiuGopaqto,10942
 xmipp3/protocols/protocol_preprocess/protocol_preprocess.py,sha256=ZJjSeR2Lei4_WUMN94vN7d4RmoXjhSSFLjSZMSG4euU,39938
-xmipp3/protocols/protocol_preprocess/protocol_process.py,sha256=NpwdL7FGamwqcfGG6UbG0OqvBhjruRx5Pd4L_bnJ3yc,8025
+xmipp3/protocols/protocol_preprocess/protocol_process.py,sha256=QOUTVOIbRH8Kzx6fZ99MNchiqKr-rQlM6QU9hZpiQ38,8229
 xmipp3/protocols/protocol_projmatch/__init__.py,sha256=fDxNicNXSbBa3WsuFouhk3INxsdQ7mlBhEYNaypFZXw,1278
 xmipp3/protocols/protocol_projmatch/projmatch_form.py,sha256=T6qmARWQoYUbKBiw-pCTOYnoHIOpuf-qyfXVHoBzx9o,36535
 xmipp3/protocols/protocol_projmatch/projmatch_initialize.py,sha256=poaVKWbyt2Bl38XHr9qOCCCRZANALnNzAhbazXgWWz4,10650
 xmipp3/protocols/protocol_projmatch/projmatch_steps.py,sha256=Gbqb4S217SzB2c16tcBBObSvwRut3upY2r4o8SRTinc,34600
-xmipp3/protocols/protocol_projmatch/protocol_projmatch.py,sha256=3SA4g4E9_O9LK-eQeIQhhgiN8tjSa68zAxT8FS5Htws,18096
+xmipp3/protocols/protocol_projmatch/protocol_projmatch.py,sha256=oQ5cTlvpLw5zcY2jdL4NMYBmmvdxaTKSuHv5tUM4adI,18100
 xmipp3/tests/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-xmipp3/tests/test_convert_xmipp.py,sha256=8VJnNT1En9B2Pj0Ehq8kBqGeUAmOpNiHVVexjt_drOg,44475
+xmipp3/tests/test_convert_xmipp.py,sha256=KKzIJgFytgwqGASdQTrPBsn5OTbP0e9WjVFO_mAbmmE,44578
 xmipp3/tests/test_protocol_angular_graph_consistency.py,sha256=SDlQUnXJXtFBke1C-si6SnbCXeA6Dr73hsHLKDyD694,4514
 xmipp3/tests/test_protocol_apply_transformation_matrix.py,sha256=oviulcS710BpL1_SNwj5U7OA9wVZVK5cPLHdN3swukk,4603
 xmipp3/tests/test_protocol_compare_angles.py,sha256=wBldiS1_LJVHfdg4g8LMDfWORR4l5adZsZkj661SgNg,5361
 xmipp3/tests/test_protocol_consensus_classes3D.py,sha256=HLz1X9LuZDRTwhjDI6gqk72qm4Yguxc76BZL_wnxgKw,11006
 xmipp3/tests/test_protocol_ctf_consensus.py,sha256=EtYxHmrHLY1illmjFMNPQJzVhGNgzcbcksr6-NaHA04,9120
-xmipp3/tests/test_protocol_deep_center_assignment.py,sha256=DxzLeyBejdzInV-TsyX2VCkRIVfF1u-80TnvITe3750,5607
-xmipp3/tests/test_protocol_deep_denoising.py,sha256=kgqmGy-kBhkskCkjk-FMFTPf0hCrzKDdS8JKKIiGlyE,2815
 xmipp3/tests/test_protocol_extract_asymmetric_unit.py,sha256=Ya8zy3wuKi10r-_LVwpavYgzVrGy-5M3Gy05MHNmr7M,23298
 xmipp3/tests/test_protocol_monodir.py,sha256=nt-5KEzbVAtsNeQ9OOifYSp1kN2N7tZwxtwS1ipbljY,3741
 xmipp3/tests/test_protocol_multiple_fsc.py,sha256=E7rhBJI9qJXAnbuxARK9auwnMxmYtIxS8PVi3TT2yj4,4012
@@ -155,20 +151,18 @@ xmipp3/tests/test_protocols_fso.py,sha256=CrVAVoBD9UbLVKT21TB0Q-tVnZ7qEsm4zcELzD
 xmipp3/tests/test_protocols_highres.py,sha256=cDvRxn6JUI1WQhXjT-83u32hOETBDxt-F5F_ZFx0wJI,4411
 xmipp3/tests/test_protocols_local_defocus.py,sha256=XGXZTas0pqhHkKfZEky7a8sqLC14rB8KqoOPD27pzZE,9067
 xmipp3/tests/test_protocols_localdeblur.py,sha256=iKf-CFwts-0yePzuztB8czbQLSYvpxHv2gT89I0RHXc,7300
-xmipp3/tests/test_protocols_metaprotocol_golden_highres.py,sha256=T5H6NuzvFIBFTj7y3Pq5OfkNMrrTmqK5KxSoHLyEJIY,4034
 xmipp3/tests/test_protocols_mixed_movies.py,sha256=kAAqNx33TMoOH0v6TaTyfUvdSAQ-vEtUalf6ecgepsM,6151
 xmipp3/tests/test_protocols_monores.py,sha256=FlLhcGUIGrErRh7KKCHo48dB-zrE0i9btLQxTOb-g3U,5023
 xmipp3/tests/test_protocols_realignment_classes.py,sha256=SrMOjTRr46iN69Prhpvyh9kU7VjnxhSCn3FAdBFni9U,6399
-xmipp3/tests/test_protocols_solid_angles.py,sha256=vJ5hrZqRYfPrp9bP9SYLDqzVO__kL6AjAOBJOeajJR0,6985
-xmipp3/tests/test_protocols_xmipp_2d.py,sha256=rl9QrVth3-VnXfxAYq-nYdYdgLcP_hy8Kmv5iLz_jcw,75260
-xmipp3/tests/test_protocols_xmipp_3d.py,sha256=dyKNJr0H9_6TSUwSpz699PLcvN6vZV5NHsENSFv6Qrw,169580
-xmipp3/tests/test_protocols_xmipp_mics.py,sha256=NV0ffSbX0W5f_6fL9ueOPUL1mVEA1caJYeB8KUKX-gQ,59879
+xmipp3/tests/test_protocols_xmipp_2d.py,sha256=wJJqrX3ALeeZ8xFNcCO7ThE2dJG4p3yM6ua-7m76UJg,82720
+xmipp3/tests/test_protocols_xmipp_3d.py,sha256=xj1AMmrKmSjyqj6Q8HOD3jWBypYQ48bXYtxca8f1QGw,171944
+xmipp3/tests/test_protocols_xmipp_mics.py,sha256=yXjq85Y4xrxKGT9LO5N4fXb4gbGYGDPBRrJKiDlLIRI,59915
 xmipp3/tests/test_protocols_xmipp_movie_resize.py,sha256=XR1gYYZeDhNOkDkZhimPDbqcYwss5z-zbhJ73ZM0a5g,6494
-xmipp3/tests/test_protocols_xmipp_movies.py,sha256=SFn8sZyFl3ROatSWCl4CmhKA1nAkygJDNQFgFe0r2sY,38274
+xmipp3/tests/test_protocols_xmipp_movies.py,sha256=iINRMOxegyXVjLrAx-KtkWtxArxRcpuK-9E_UYSBqcY,42089
 xmipp3/tests/test_protocols_zernike3d.py,sha256=bTXCK4wBKSJZK1KCZXec3j8y1mVLoBxE5bF3AGbOsNs,18132
-xmipp3/viewers/__init__.py,sha256=gHkUPN2FOp-vvoLRcZzoHjatMNdmBTWp6607pnjaQsI,3618
+xmipp3/viewers/__init__.py,sha256=q1G63LhmRxGiPwCa35-gatZXKSbftApQFvBXaL1vLjc,3542
 xmipp3/viewers/plotter.py,sha256=YHDqAs7_rbv8cXMmwmg42YeeBnesdX44awrppX3VJw0,3875
-xmipp3/viewers/viewer.py,sha256=D_elkqLkG5a0M82RfuoJj2Zn1TuDN9Uyaf0PcV64GY0,19688
+xmipp3/viewers/viewer.py,sha256=X68yRXVraMmzmoHaccntfuZBVXvnx49hfCsXyBLmlH4,19233
 xmipp3/viewers/viewer_analyze_local_ctf.py,sha256=-Oa7flu05KxP8M6AlZRaWKCRqZljRz23Z6Ncz1qDHhw,4866
 xmipp3/viewers/viewer_angular_resolution_alignment.py,sha256=9DCZ94TAedHltvlKf99BEFtgFuoMisKipMwubPn82lU,5155
 xmipp3/viewers/viewer_cl2d.py,sha256=7uBU6zYOkhYqjMNWFUPFbMOPsqWja9DaTssp_ju6AXw,8764
@@ -179,14 +173,13 @@ xmipp3/viewers/viewer_deep_consensus.py,sha256=ohwXSMb-C4EZh7fNw3JVfxYxTzCVzyDLE
 xmipp3/viewers/viewer_deep_micrograph_cleaner.py,sha256=gFHOPirTM6-i9bHxCs9Fbkh4GQ9fxc7FINDNib0jkdA,5694
 xmipp3/viewers/viewer_dose_analysis.py,sha256=9u5WNvJfa3sTOT1enigF5zZYtyzQM2j5uTG6Dn8ybEY,4949
 xmipp3/viewers/viewer_eliminate_empty_images.py,sha256=LMDYe4iql1kFOESBbwyClzNezizYKv9a8LHtvlPCboM,7278
-xmipp3/viewers/viewer_extract_asymmetric_unit.py,sha256=ljuDD9JcTSnfI9Ha9KJK8M62NqzwzPAm1RGnUuyhcdA,7163
+xmipp3/viewers/viewer_extract_asymmetric_unit.py,sha256=fGYqUfrsPLzFDj4UxuVQe8b2AN_I64cruaWBjhnLkU8,7092
 xmipp3/viewers/viewer_local_sharpening.py,sha256=_j_4RZISQjWzrBFmsI88DrNqxbT3Ng1AJRmo0MfdCCk,4408
-xmipp3/viewers/viewer_metaprotocol_golden_highres.py,sha256=PwfPMwTo4z_4Fzc-fBV7VLf4RswvMwoF9vlAqd1o9uI,5373
 xmipp3/viewers/viewer_ml2d.py,sha256=XL1NL8mg-W8TC0fHemD-eR9mHxgUMBnF2d9gwJagC7s,8451
-xmipp3/viewers/viewer_movie_alignment.py,sha256=TiCqybpFc1TOhuZeXzQ-YbS8pnOmXplm5XIwaDQG_nE,5368
+xmipp3/viewers/viewer_movie_alignment.py,sha256=mOrF2xxy3eA2q_xVnH46We4ECrhC9y5xR62Sk6rwG_c,7122
 xmipp3/viewers/viewer_normalize_strain.py,sha256=L54CZvxaU9ezu223jgvOSTBn4yYWs2x9q87_3vvHi9k,2804
 xmipp3/viewers/viewer_pdb_deform_zernike3d.py,sha256=g5-ntcOt7841rFFGPRb6NK-wQ2FfbBz2P1E980uENZo,4653
-xmipp3/viewers/viewer_projmatch.py,sha256=oSBQO8ffVPF8Mixaj4zvcIcadlrau6Z1DU6qFGyos-g,37634
+xmipp3/viewers/viewer_projmatch.py,sha256=j9_1S8hrTUjRL-YeIYdLvxvsTTBjrJR9TyRQN3gG3JY,37619
 xmipp3/viewers/viewer_ransac.py,sha256=hfjj3ySF2hlSIicw6WTezZhau9aaQJNGKYR6nP8VYrE,2445
 xmipp3/viewers/viewer_reconstruct_highres.py,sha256=bDcxUyGU4wlRFdBnfbhMiCLRB8b_C8LqaKkXgX0lg00,13184
 xmipp3/viewers/viewer_resolution3d.py,sha256=AfKbCxLzuJG3pJQLPxNgK86WRSWXrgRSEDNjzbM5Y6E,14152
@@ -195,21 +188,19 @@ xmipp3/viewers/viewer_resolution_deepres.py,sha256=M1X9wW7V4yU0BaMxezFNSHhfd4Rpj
 xmipp3/viewers/viewer_resolution_directional.py,sha256=SOnybW40HuMglekNnD-YGF2ZPMXLZuGf-AwmvRUNg98,20322
 xmipp3/viewers/viewer_resolution_fso.py,sha256=WIbsYmTKnuJ-wVLAgMoXHmrMMkrb6ukfboyz2NHDUtc,15874
 xmipp3/viewers/viewer_resolution_monogenic_signal.py,sha256=GCrWKLb9IFVcGY8zKzCNnXWy15T_jPPhM2uZjJ0un8c,11088
-xmipp3/viewers/viewer_solid_angles.py,sha256=S2QANz-8VdoK_8kKTYtkhI6SkPQyRuiPkMaz2bQJCIY,3970
-xmipp3/viewers/viewer_split_volume.py,sha256=4rmH0ixpNS1eR_FLgmD5lgo4IUmqTPNST7_-wLMHkj4,2146
-xmipp3/viewers/viewer_structure_map.py,sha256=qCD-kxulB7nR_Oiha9AkkHwOfHqcuPpkW4aqIjVHxLo,14534
+xmipp3/viewers/viewer_structure_map.py,sha256=7lqS1Qjo3jB45NgYpbOY-RiEQ0VU9gKo2JevuJeP3h0,14535
 xmipp3/viewers/viewer_subtract_projection.py,sha256=UPm_G_CwTUgtgzVMtNCF3NFgnfwxJSy3HmaKYW2WECE,2860
 xmipp3/viewers/viewer_swarm.py,sha256=liXSpVMNqO0YzcexF6hyl8n8V6j2t7yB8D42dHWIazk,2590
-xmipp3/viewers/viewer_validate_fscq.py,sha256=suGL5IqAv6Nsvs9oNscFcpD_zbienRMdQ7Mns2u3m58,18651
+xmipp3/viewers/viewer_validate_fscq.py,sha256=bqb_va-BjTn1LpuyOroCPX3QeL104Kh2TX9faOBTH-E,18209
 xmipp3/viewers/viewer_validate_nontilt.py,sha256=LLmMMXaKg7PbhhRCLAwHpd9wSPjBUSG602Agq_diHck,4078
 xmipp3/viewers/viewer_validate_overfitting.py,sha256=8G7E8Bqs3Rt6IjGMliqNaa5pdvZ8U0QETrvH6GVQpWk,5854
 xmipp3/viewers/viewer_volume_consensus.py,sha256=S7YViiZ9w5xAGhfyj1RnDypVWsQ7PKhHD8WIUAVqpJI,1914
 xmipp3/viewers/viewer_volume_deform_zernike3d.py,sha256=BOeI7go5w2RRwGjV9kPm2U76tVJRaHww1Pl0zUCXQRw,8903
 xmipp3/viewers/viewer_volume_strain.py,sha256=4LQUrceVMB6OaAfTpFXdn3vGv-sXQzUIPDEPELYfasY,2378
 xmipp3/viewers/viewer_volume_subtraction.py,sha256=3RbwJQIaCcdzldrFODLgWlFbCips1450RDVzngLRRoU,5121
-scipion_em_xmipp-23.11.0.1.dist-info/LICENSE,sha256=jOtLnuWt7d5Hsx6XXB2QxzrSe2sWWh3NgMfFRetluQM,35147
-scipion_em_xmipp-23.11.0.1.dist-info/METADATA,sha256=eUtC1LqOrQMCWGLkdSwnXRqY6Br0-aT65unAIq3V8dU,1622
-scipion_em_xmipp-23.11.0.1.dist-info/WHEEL,sha256=GJ7t_kWBFywbagK5eo9IoUwLW6oyOeTKmQ-9iHFVNxQ,92
-scipion_em_xmipp-23.11.0.1.dist-info/entry_points.txt,sha256=uAfbaIdLcZ7JWL0tWzQVwsVEyyOZb1WcBX4YZMqRrIk,37
-scipion_em_xmipp-23.11.0.1.dist-info/top_level.txt,sha256=qnLFoZzwKticb33xgeSAJv3P7nD2nHMTFKYzxAorOOQ,7
-scipion_em_xmipp-23.11.0.1.dist-info/RECORD,,
+scipion_em_xmipp-24.6.0.0.dist-info/LICENSE,sha256=jOtLnuWt7d5Hsx6XXB2QxzrSe2sWWh3NgMfFRetluQM,35147
+scipion_em_xmipp-24.6.0.0.dist-info/METADATA,sha256=e5mEXzj7v4bn5xf7M_k_edNq3EJtZMamwdbq220Yt4E,1621
+scipion_em_xmipp-24.6.0.0.dist-info/WHEEL,sha256=GJ7t_kWBFywbagK5eo9IoUwLW6oyOeTKmQ-9iHFVNxQ,92
+scipion_em_xmipp-24.6.0.0.dist-info/entry_points.txt,sha256=uAfbaIdLcZ7JWL0tWzQVwsVEyyOZb1WcBX4YZMqRrIk,37
+scipion_em_xmipp-24.6.0.0.dist-info/top_level.txt,sha256=qnLFoZzwKticb33xgeSAJv3P7nD2nHMTFKYzxAorOOQ,7
+scipion_em_xmipp-24.6.0.0.dist-info/RECORD,,

xmipp3/__init__.py

@@ -41,8 +41,8 @@ type_of_version = 'release' #'devel'
 _logo = "xmipp_logo" + ("" if type_of_version == 'release' else '_devel') + '.png'
 
 _references = ['delaRosaTrevin2013', 'Sorzano2013', 'Strelak2021']
-_currentBinVersion = '3.23.11.0'
-__version__ = _currentBinVersion[2:] + ".1"  # Set this to ".0" on each xmipp binary release, otherwise increase it --> ".1", ".2", ...
+_currentBinVersion = '3.24.06.0'
+__version__ = _currentBinVersion[2:] + ".0"  # Set this to ".0" on each xmipp binary release, otherwise increase it --> ".1", ".2", ...
 
 # Requirement version variables
 NVIDIA_DRIVERS_MINIMUM_VERSION = 450
@@ -230,7 +230,6 @@ def installDeepLearningToolkit(plugin, env):
             msg = ("Tensorflow installed without GPU. Just CPU computations "
                    "enabled (slow computations).")
             cudaMsgs.append(msg)
-            useGpu = False
 
     if nvidiaDriverVer is not None:
         preMsgs.append("CUDA support found. Driver version: %s" % nvidiaDriverVer)

xmipp3/convert/convert.py

@@ -830,30 +830,35 @@ def writeSetOfCoordinatesWithState(posDir, coordSet, state, scale=1):
 
     f = None
     lastMicId = None
-    c = 0
-
-    for coord in coordSet.iterItems(orderBy='_micId'):
-        micId = coord.getMicId()
-
-        if micId != lastMicId:
-            # we need to close previous opened file
-            if f:
-                f.close()
-                c = 0
-            f = openMd(posDict[micId], state)
-            lastMicId = micId
-        c += 1
-        if scale != 1:
-            x = coord.getX() * scale
-            y = coord.getY() * scale
-        else:
-            x = coord.getX()
-            y = coord.getY()
-        f.write(" %06d   1   %d  %d  %d   %06d\n"
-                % (coord.getObjId(), x, y, 1, micId))
 
-    if f:
-        f.close()
+    try:
+        for coord in coordSet.iterItems(orderBy='_micId'):
+            micId = coord.getMicId()
+
+            if micId != lastMicId:
+                # we need to close previous opened file
+                if f:
+                    f.close()
+                f = openMd(posDict[micId], state)
+                lastMicId = micId
+
+            if scale != 1:
+                x = coord.getX() * scale
+                y = coord.getY() * scale
+            else:
+                x = coord.getX()
+                y = coord.getY()
+
+            f.write(" %06d   1   %d  %d  %d   %06d\n"
+                    % (coord.getObjId(), x, y, 1, micId))
+
+    except (FileNotFoundError, PermissionError) as error:
+        print(f"Error occurred: {error}")
+    except Exception as e:
+        print(f"Unexpected error occurred: {e}")
+    finally:
+        if f:
+            f.close()
 
     # Write config.xmd metadata
     configFn = join(posDir, 'config.xmd')
@@ -1386,7 +1391,7 @@ def rowToAlignment(alignmentRow, alignType):
         else:
             psi = alignmentRow.getValue(emlib.MDL_ANGLE_PSI, 0.)
             rot = alignmentRow.getValue(emlib.MDL_ANGLE_ROT, 0.)
-            if rot != 0. and psi != 0:
+            if not np.isclose(rot, 0., atol=1e-6 ) and not np.isclose(psi, 0., atol=1e-6):
                 print("HORROR rot and psi are different from zero in 2D case")
             angles[0] = \
                 alignmentRow.getValue(emlib.MDL_ANGLE_PSI, 0.)\

xmipp3/protocols/__init__.py

@@ -39,6 +39,8 @@ from .protocol_apply_transformation_matrix import XmippProtApplyTransformationMa
 from .protocol_break_symmetry import XmippProtAngBreakSymmetry
 from .protocol_cl2d_align import XmippProtCL2DAlign
 from .protocol_cl2d import XmippProtCL2D
+from .protocol_classify_pca import XmippProtClassifyPca
+from .protocol_classify_pca_streaming import XmippProtClassifyPcaStreaming
 #from .protocol_classify_kmeans2d import XmippProtKmeansClassif2D
 from .protocol_ctf_defocus_group import XmippProtCTFDefocusGroup
 from .protocol_compare_reprojections import XmippProtCompareReprojections
@@ -51,7 +53,7 @@ from .protocol_ctf_micrographs import XmippProtCTFMicrographs
 from .protocol_ctf_correct_wiener2d import XmippProtCTFCorrectWiener2D
 from .protocol_consensus_classes import XmippProtConsensusClasses
 from .protocol_denoise_particles import XmippProtDenoiseParticles
-from .protocol_deep_micrograph_screen import  XmippProtDeepMicrographScreen
+from .protocol_deep_micrograph_screen import XmippProtDeepMicrographScreen
 from .protocol_eliminate_empty_images import (XmippProtEliminateEmptyParticles,
                                               XmippProtEliminateEmptyClasses)
 from .protocol_enrich import XmippProtEnrich
@@ -63,6 +65,7 @@ from .protocol_helical_parameters import XmippProtHelicalParameters
 from .protocol_kerdensom import XmippProtKerdensom
 from .protocol_ml2d import XmippProtML2D
 from .protocol_movie_gain import XmippProtMovieGain
+from .protocol_movie_alignment_consensus import XmippProtConsensusMovieAlignment
 from .protocol_flexalign import XmippProtFlexAlign
 from .protocol_movie_opticalflow import XmippProtOFAlignment, ProtMovieAlignment
 from .protocol_movie_max_shift import XmippProtMovieMaxShift
@@ -103,8 +106,6 @@ from .protocol_screen_deeplearning import XmippProtScreenDeepLearning
 from .protocol_shift_particles import XmippProtShiftParticles
 from .protocol_shift_volume import XmippProtShiftVolume
 from .protocol_simulate_ctf import XmippProtSimulateCTF
-from .protocol_solid_angles import XmippProtSolidAngles
-from .protocol_split_volume import XmippProtSplitvolume
 from .protocol_subtract_projection import XmippProtSubtractProjection
 from .protocol_subtract_projection import XmippProtBoostParticles
 from .protocol_tilt_analysis import XmippProtTiltAnalysis
@@ -117,8 +118,6 @@ from .protocol_volume_strain import XmippProtVolumeStrain
 from .protocol_write_testC import XmippProtWriteTestC
 from .protocol_write_testP import XmippProtWriteTestP
 from .protocol_generate_reprojections import XmippProtGenerateReprojections
-from .protocol_deep_denoising import XmippProtDeepDenoising  # deepDenoising has to be after XmippProtGenerateReprojections and XmippProtCompareReprojections
-from .protocol_metaprotocol_create_subset import XmippMetaProtCreateSubset
 from .protocol_volume_deform_zernike3d import XmippProtVolumeDeformZernike3D
 from .protocol_structure_map_zernike3d import XmippProtStructureMapZernike3D
 from .protocol_align_volume_and_particles import XmippProtAlignVolumeParticles
@@ -126,7 +125,6 @@ from .protocol_local_ctf import XmippProtLocalCTF
 from .protocol_analyze_local_ctf import XmippProtAnalyzeLocalCTF
 from .protocol_consensus_local_ctf import XmippProtConsensusLocalCTF
 from .protocol_particle_pick_remove_duplicates import XmippProtPickingRemoveDuplicates
-from .protocol_metaprotocol_golden_highres import XmippMetaProtGoldenHighRes
 # from .protocol_apply_deformation_zernike3d import XmippProtApplyZernike3D
 # from .protocol_kmeans_clustering import XmippProtKmeansSPH
 from .protocol_structure_map import XmippProtStructureMap
@@ -136,4 +134,4 @@ from .protocol_volume_consensus import XmippProtVolConsensus
 from .protocol_volume_local_adjust import XmippProtLocalVolAdj
 from .protocol_classes_2d_mapping import XmippProtCL2DMap
 from .protocol_deep_hand import XmippProtDeepHand
-from .protocol_deep_center_assignment import XmippProtDeepCenter, XmippProtDeepGlobalAssignment
+from .protocol_deep_center import XmippProtDeepCenter

xmipp3/protocols/protocol_angular_graph_consistency.py

@@ -521,7 +521,7 @@ class XmippProtAngularGraphConsistency(ProtAnalysis3D):
         if (not hasattr(self, 'outputParticles')):
             summary.append("Output not ready yet.")
         else:
-            if self.percentage == 100.0:
+            if self.percentage == 100:
                 text = 'After validation, all of the images are likely to be within the realiable assignment zone'
             else:
                 text = 'After validation, a %.2f' % self.percentage

xmipp3/protocols/protocol_cl2d.py

@@ -36,6 +36,7 @@ import pwem.emlib.metadata as md
 from pwem.protocols import ProtClassify2D
 from pwem.objects import SetOfClasses2D
 from pwem.constants import ALIGN_NONE, ALIGN_2D
+from pyworkflow import BETA, UPDATED, NEW, PROD
 
 
 from xmipp3.convert import (writeSetOfParticles, createItemMatrix,
@@ -52,6 +53,7 @@ CL_CLASSICAL = 0
 CL_ROBUST = 1
 
 # Classes keys
+OUTPUTCLASSES = 'outputClasses'
 CLASSES = ''
 CLASSES_CORE = '_core'
 CLASSES_STABLE_CORE = '_stable_core'
@@ -65,6 +67,11 @@ class XmippProtCL2D(ProtClassify2D):
     the original dataset into a given number of classes. """
     
     _label = 'cl2d'
+    _devStatus = UPDATED
+
+    _possibleOutputs = {OUTPUTCLASSES: SetOfClasses2D,
+                        OUTPUTCLASSES+CLASSES_CORE: SetOfClasses2D,
+                        OUTPUTCLASSES+CLASSES_STABLE_CORE: SetOfClasses2D}
     
     def __init__(self, **args):
         ProtClassify2D.__init__(self, **args)
@@ -195,7 +202,7 @@ class XmippProtCL2D(ProtClassify2D):
         else:
             initialClassesId = None
         
-        self._insertFunctionStep('convertInputStep',
+        self._insertFunctionStep(self.convertInputStep,
                                  self.inputParticles.get().getObjId(),
                                  initialClassesId)
 
@@ -229,7 +236,7 @@ class XmippProtCL2D(ProtClassify2D):
             args = self._defArgsCoreAnalisys()
             self._insertClassifySteps(program, args, subset=CLASSES_CORE)
             if self.analyzeRejected:
-                self._insertFunctionStep('analyzeOutOfCores', CLASSES_CORE)
+                self._insertFunctionStep(self.analyzeOutOfCores, CLASSES_CORE)
 
             if (self.numberOfClasses > (2 * self.numberOfInitialClasses.get())
                 and self.doStableCore): # Number of levels should be > 2
@@ -239,7 +246,7 @@ class XmippProtCL2D(ProtClassify2D):
                 self._insertClassifySteps(program, args,
                                           subset=CLASSES_STABLE_CORE)
                 if self.analyzeRejected:
-                    self._insertFunctionStep('analyzeOutOfCores',
+                    self._insertFunctionStep(self.analyzeOutOfCores,
                                              CLASSES_STABLE_CORE)
 
     def _insertClassifySteps(self, program, args, subset=CLASSES):
@@ -250,9 +257,9 @@ class XmippProtCL2D(ProtClassify2D):
         4. And create output
         """
         self._insertRunJobStep(program, args % self._params)
-        self._insertFunctionStep('evaluateClassesStep', subset)
-        self._insertFunctionStep('sortClassesStep', subset)
-        self._insertFunctionStep('createOutputStep', subset)
+        self._insertFunctionStep(self.evaluateClassesStep, subset)
+        self._insertFunctionStep(self.sortClassesStep, subset)
+        self._insertFunctionStep(self.createOutputStep, subset)
     
     #--------------------------- STEPS functions -------------------------------
     def convertInputStep(self, particlesId, classesId):
@@ -309,16 +316,15 @@ class XmippProtCL2D(ProtClassify2D):
         resulting from the protocol execution.
         """
        
-        inputParticles = self.inputParticles.get()
         level = self._lastLevel()
         
         subsetFn = self._getFileName("level_classes", level=level, sub=subset)
         
         if exists(subsetFn):
-            classes2DSet = self._createSetOfClasses2D(inputParticles, subset)
+            classes2DSet = self._createSetOfClasses2D(self.inputParticles, subset)
             self._fillClassesFromLevel(classes2DSet, "last", subset)
     
-            result = {'outputClasses' + subset: classes2DSet}
+            result = {OUTPUTCLASSES + subset: classes2DSet}
             self._defineOutputs(**result)
             self._defineSourceRelation(self.inputParticles, classes2DSet)