Wheelodex » Projects » pyhim

pyhim

View on PyPI — Reverse Dependencies (0)

0.9.1 pyhim-0.9.1-py3-none-any.whl
0.8.12 pyhim-0.8.12-py3-none-any.whl

Wheel Details

Project: pyhim
Version: 0.8.12
Filename: pyhim-0.8.12-py3-none-any.whl
Download: [link]
Size: 207711
MD5: eae91ef5e5270d47ca07d458cba48798
SHA256: 953d0835d8de57fc5b03b385f2aa54e5baef27a6149505997e8b7bcb0cf48b96
Uploaded: 2023-12-07 13:33:52 +0000

dist-info

METADATA · WHEEL · RECORD · top_level.txt · entry_points.txt

METADATA

Metadata-Version: 2.1
Name: pyhim
Version: 0.8.12
Summary: Pipeline and functions to analyse multiplexed DNA-FISH data
Author-Email: Marcelo Nollmann <marcelo.nollmann[at]cbs.cnrs.fr>
Project-Url: Homepage, https://github.com/marcnol/pyHiM
License: GNU LESSER GENERAL PUBLIC LICENSE Version 3, 29 June 2007 Copyright (C) 2007 Free Software Foundation, Inc. <https://fsf.org/> Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. This version of the GNU Lesser General Public License incorporates the terms and conditions of version 3 of the GNU General Public License, supplemented by the additional permissions listed below. 0. Additional Definitions. As used herein, "this License" refers to version 3 of the GNU Lesser General Public License, and the "GNU GPL" refers to version 3 of the GNU General Public License. "The Library" refers to a covered work governed by this License, other than an Application or a Combined Work as defined below. An "Application" is any work that makes use of an interface provided by the Library, but which is not otherwise based on the Library. Defining a subclass of a class defined by the Library is deemed a mode of using an interface provided by the Library. A "Combined Work" is a work produced by combining or linking an Application with the Library. The particular version of the Library with which the Combined Work was made is also called the "Linked Version". The "Minimal Corresponding Source" for a Combined Work means the Corresponding Source for the Combined Work, excluding any source code for portions of the Combined Work that, considered in isolation, are based on the Application, and not on the Linked Version. The "Corresponding Application Code" for a Combined Work means the object code and/or source code for the Application, including any data and utility programs needed for reproducing the Combined Work from the Application, but excluding the System Libraries of the Combined Work. 1. Exception to Section 3 of the GNU GPL. You may convey a covered work under sections 3 and 4 of this License without being bound by section 3 of the GNU GPL. 2. Conveying Modified Versions. If you modify a copy of the Library, and, in your modifications, a facility refers to a function or data to be supplied by an Application that uses the facility (other than as an argument passed when the facility is invoked), then you may convey a copy of the modified version: a) under this License, provided that you make a good faith effort to ensure that, in the event an Application does not supply the function or data, the facility still operates, and performs whatever part of its purpose remains meaningful, or b) under the GNU GPL, with none of the additional permissions of this License applicable to that copy. 3. Object Code Incorporating Material from Library Header Files. The object code form of an Application may incorporate material from a header file that is part of the Library. You may convey such object code under terms of your choice, provided that, if the incorporated material is not limited to numerical parameters, data structure layouts and accessors, or small macros, inline functions and templates (ten or fewer lines in length), you do both of the following: a) Give prominent notice with each copy of the object code that the Library is used in it and that the Library and its use are covered by this License. b) Accompany the object code with a copy of the GNU GPL and this license document. 4. Combined Works. You may convey a Combined Work under terms of your choice that, taken together, effectively do not restrict modification of the portions of the Library contained in the Combined Work and reverse engineering for debugging such modifications, if you also do each of the following: a) Give prominent notice with each copy of the Combined Work that the Library is used in it and that the Library and its use are covered by this License. b) Accompany the Combined Work with a copy of the GNU GPL and this license document. c) For a Combined Work that displays copyright notices during execution, include the copyright notice for the Library among these notices, as well as a reference directing the user to the copies of the GNU GPL and this license document. d) Do one of the following: 0) Convey the Minimal Corresponding Source under the terms of this License, and the Corresponding Application Code in a form suitable for, and under terms that permit, the user to recombine or relink the Application with a modified version of the Linked Version to produce a modified Combined Work, in the manner specified by section 6 of the GNU GPL for conveying Corresponding Source. 1) Use a suitable shared library mechanism for linking with the Library. A suitable mechanism is one that (a) uses at run time a copy of the Library already present on the user's computer system, and (b) will operate properly with a modified version of the Library that is interface-compatible with the Linked Version. e) Provide Installation Information, but only if you would otherwise be required to provide such information under section 6 of the GNU GPL, and only to the extent that such information is necessary to install and execute a modified version of the Combined Work produced by recombining or relinking the Application with a modified version of the Linked Version. (If you use option 4d0, the Installation Information must accompany the Minimal Corresponding Source and Corresponding Application Code. If you use option 4d1, you must provide the Installation Information in the manner specified by section 6 of the GNU GPL for conveying Corresponding Source.) 5. Combined Libraries. You may place library facilities that are a work based on the Library side by side in a single library together with other library facilities that are not Applications and are not covered by this License, and convey such a combined library under terms of your choice, if you do both of the following: a) Accompany the combined library with a copy of the same work based on the Library, uncombined with any other library facilities, conveyed under the terms of this License. b) Give prominent notice with the combined library that part of it is a work based on the Library, and explaining where to find the accompanying uncombined form of the same work. 6. Revised Versions of the GNU Lesser General Public License. The Free Software Foundation may publish revised and/or new versions of the GNU Lesser General Public License from time to time. Such new versions will be similar in spirit to the present version, but may differ in detail to address new problems or concerns. Each version is given a distinguishing version number. If the Library as you received it specifies that a certain numbered version of the GNU Lesser General Public License "or any later version" applies to it, you have the option of following the terms and conditions either of that published version or of any later version published by the Free Software Foundation. If the Library as you received it does not specify a version number of the GNU Lesser General Public License, you may choose any version of the GNU Lesser General Public License ever published by the Free Software Foundation. If the Library as you received it specifies that a proxy can decide whether future versions of the GNU Lesser General Public License shall apply, that proxy's public statement of acceptance of any version is permanent authorization for you to choose that version for the Library.
Keywords: astropy,csbdeep,dask,matplotlib,numpy,numba,photutils,roipoly,scikit-learn,scikit-image,stardist,pympler,tqdm,scipy,tifffile
Requires-Python: >=3.9
Requires-Dist: apifish (>=0.6.4.dev0)
Requires-Dist: dataclasses-json
Requires-Dist: astropy (>=4.3.1)
Requires-Dist: csbdeep (>=0.6.3)
Requires-Dist: dask[distributed] (>=2023.4.1)
Requires-Dist: matplotlib (==3.5.1)
Requires-Dist: numba (>=0.54.1)
Requires-Dist: numpy (>=1.19.5)
Requires-Dist: photutils (>=1.1.0)
Requires-Dist: pympler (>=1.0.1)
Requires-Dist: roipoly (>=0.5.3)
Requires-Dist: scikit-image (==0.19.2)
Requires-Dist: scikit-learn (>=1.1.1)
Requires-Dist: scipy (>=1.7.3)
Requires-Dist: stardist (>=0.7.3)
Requires-Dist: tifffile (>=2021.10.10)
Requires-Dist: tqdm (>=4.63.0)
Description-Content-Type: text/markdown
License-File: LICENSE
[Description omitted; length: 2147 characters]

WHEEL

Wheel-Version: 1.0
Generator: bdist_wheel (0.42.0)
Root-Is-Purelib: true
Tag: py3-none-any

RECORD

Path Digest Size
pyHiM.py sha256=1U29R9aG_wN16BLTPDNfXDWwEajxnfQHFkREoLTool8 7985
core/__init__.py sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU 0
core/dask_cluster.py sha256=ZF49haKWVp4AYuUev0Votwcmc5mlmdUWCp1Y8vuW300 2400
core/data_file.py sha256=FsbpcHOQ59WS5d9FKfH1-rkcA38izUmPOyt4nh_P_o0 12278
core/data_manager.py sha256=_U5JSakeAf7FSJPvl9cdgqTWzai9Akewv6yvc8ViyTk 18581
core/function_caller.py sha256=wR7UzlQBMKf3_vZAROMG5l-YV5vOihiPmMnZdbT-J9Y 20223
core/parameters.py sha256=ORan3WQJK5jSgxF6nIu4iQtxmWbVOOK8uFo-pe_X0uI 35119
core/pyhim_logging.py sha256=ihT8mUyLjmd5qk4N2DHRl6dnknZhSkyH_z2GqqF2CQA 4600
core/run_args.py sha256=FwtW_dpDjHt2ATGksZNgOxhzEL9UYiHN73MNuJIwnf0 6749
core/saving.py sha256=mzQx3hYlXDpuZBjT5JQorXmXBg2JD5dIfsNZSaN_jVw 14016
imageProcessing/__init__.py sha256=r1V7-CzLKxKgnVT7S-6gLhC2Cncpm8rxYX8BHLMut78 434
imageProcessing/alignImages.py sha256=Ip8tju8LZpvNc5G2pgvfDdnt-kTfTGhtF_fwDhbz-9c 24607
imageProcessing/alignImages3D.py sha256=AiJLBvBUqAezb53Oib_uq2gLzF6rd98dfRYx-Pj_BPo 16792
imageProcessing/imageProcessing.py sha256=AMXQ0KJ4wO5DQWcau0uN4McMVmd9RAZhSUtfadCNIqY 12102
imageProcessing/localization_table.py sha256=gKHL-1WVutvF91-wkE4Kq6E3iSu5yLrJy6xglBJcdY4 9415
imageProcessing/localize_2d.py sha256=KVYHrcCi_bKJTL4m2l7e9JOZ1KcelbZyLqgrlGAvsVk 400
imageProcessing/localize_3d.py sha256=upljqw_CRGUSNMNR0evpA1EVu_n6JAYR44ONbE-PXog 400
imageProcessing/makeProjections.py sha256=3XmmLooha61Srz9YjmN4MNwLHpdFrlRSHTENVQ0Jj54 10528
imageProcessing/mask_2d.py sha256=hXMsg3lvS8T9glZP1zz8EDdVgKuP3liqTMk6E7bgEXQ 365
imageProcessing/mask_3d.py sha256=CF2CmQuknMeSYp2Trx74iTO4mE_bkgeXgt_3kLclpTg 365
imageProcessing/register_local.py sha256=p2WAoLaoFLSQiTkdkZShx4EYy-iuvyisyjjNQ6AdGLk 387
imageProcessing/segmentMasks.py sha256=1StXiuCbekMZypzZgGbh9fu6q_roqhp4rVSnfkd_ujc 36538
imageProcessing/segmentMasks3D.py sha256=XmO_d0RvkbD9rG1y9AIF6V3526LqHCS4Yofv_1bWSII 11386
imageProcessing/segmentSources3D.py sha256=cWNiGqTS9JIVKtztIvTWoc2XluvGXAM4rrQHbEOu0go 23530
matrixOperations/HIMmatrixOperations.py sha256=Go8BgFyN0zWwKoaKw3zj_WiT-omMcBVBjTv3KT-ggQ0 74326
matrixOperations/__init__.py sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU 0
matrixOperations/build_matrix.py sha256=Qe600sRUtGrmB6fSHkpw-7q1OBn0zrmjczKv-5GGUhU 14603
matrixOperations/build_traces.py sha256=J54UMnBf-2lBHkJSZmvSIfTJMEbI3RWl4kEj4sQ5PFQ 29692
matrixOperations/chromatin_trace_table.py sha256=5ajY65nHhXXRWZ8Ib-JTt0-3T8rschfOhU6BY9_fYMk 25045
matrixOperations/filter_localizations.py sha256=eR7MMUlIg3d5CCVmoZFazIih8A_CtW3ql3xkcByxm9E 7395
matrixOperations/register_localizations.py sha256=Ky17Vc8QluJNJjiZiOSb0vnjgKmjjFceIn8PJnVKn50 16646
plots/figure3wayInteractions.py sha256=Lu7gQXELjiuiyahGX691NUwPk52eBTy7WjUV_Ag6W_k 9437
plots/figure4Mmatrix.py sha256=g9lTMssq_foWQ7s6J-z8kTCnUSi-GaFPNu-3LNJ6vx8 8208
plots/figureCompare2Matrices.py sha256=FSNRhcDErM8azDrb9dRss9QwP1EUr13b1a05A8WP3ts 11309
plots/figureHiMmatrix.py sha256=cZimjTF_pkPM_JdMoG2JGydKXtpLrAmuCQXLoaxi19k 7041
plots/figureN_HiMmatrices.py sha256=0Cb_K6oUoEcgQpERwdVCd6wfV5DaysA7V7vBy4i5wtE 22806
plots/figureSingleCell.py sha256=AOPrspq-ONABDA_zr_w8Kfk4kOAZPNe4Na1vm2TykFA 20755
plots/plot_bootstrapping.py sha256=TY3sgkGdPx6M-qyjXYnm8ox8J6jHTyv6wdeb3WiWFY8 7639
plots/plotting_functions.py sha256=GVc3sz15MIyu79SL9euLcdNEEeiB11n6Uf3FCvwleGE 12757
postProcessing/analyze_localizations.py sha256=F_6tEaz4zahtnQ2DgxVCMzjYV7ULmtZAgB0ykJd2Ke4 7679
postProcessing/compare_PWD_matrices.py sha256=1KUOe-aVal7XSCck1jIw-ZeSiwApYHhinPbfJVk1KkY 9368
postProcessing/mask_cellpose.py sha256=17a5vacfp-eGUdAlVBOzseSrj_2ecroakALDRyU5Lco 11133
postProcessing/mask_manual.py sha256=YmHJ9w-SkPOtxR7j81DGgSuc7La6wZ22WJoaA6nZFzI 5877
postProcessing/npy_to_tiff.py sha256=D8QAuKVzCOX1h3_ukPujl1R_xhMtQQ-zVzho4gDFcPQ 1588
postProcessing/processHiMmatrix.py sha256=fr4SeKpAqeyE54vffp0Kz-mVPhGxAWptRhaiSW-5Vac 12365
postProcessing/pwd_matrix_2_pdb.py sha256=GiPLDvv513f7S9EOR4PtK97SWlxGQ_SmOuvCf_1ugS8 7545
postProcessing/trace_analyzer.py sha256=RhVjYApEf_VDP5Z_2HgEYAM90pJPVhSdlWIJcL5JBkg 7842
postProcessing/trace_assign_mask.py sha256=WqO2-a43T45_cwJnllYTqjPTTewFoVAb3wPBq_Yjnds 5139
postProcessing/trace_combinator.py sha256=zIascoXod2c_C2p7mQQ1D7bwwJFJoe-NbDnEZzoRKhs 7869
postProcessing/trace_filter.py sha256=vL4URz6ur6JysmCOwseT_XfdSqJP-MZ2mh6q1hy4rbk 8425
postProcessing/trace_filter_advanced.py sha256=st91Jw5gxRfncd_IG4Ekz1XLiM2eoJAsATzHlTqdbt8 37647
postProcessing/trace_merge.py sha256=nKXx95NV03ZvCCDSKkPRoK-8iZYAhLcpbPHkDhSg9CY 3567
postProcessing/trace_plot.py sha256=6Uyw2S1I1UKVACFWP1BqCyCkBO3Bwm60pavDiYi9zyg 7478
postProcessing/trace_to_matrix.py sha256=Nw8OdaFe3k_MmkI-Aa6dJxf8ZbTI-TcTKWKKUH-yZUo 3761
toolbox/imagePreProcessing.py sha256=vK6TC2A1NoTbibaHLb4N2hpnzqSC_TBAr7ecf2BYcIg 7352
toolbox/imageSegmentSpots.py sha256=-wZkmWnxEDaGeNz3_AZxA9oOhYvb5YaUmIBIYBL5vpg 6442
toolbox/runHiM_cluster.py sha256=w0wydK8GILgBm4W0fXCiTGsB6mKfu_sj6c0D6mBwLdo 9903
toolbox/file_handling/cleanHiM_run.py sha256=uaubVSo4087WZu1MgAzQtEK8dq02QFiizviFQLR-YPA 3273
toolbox/file_handling/lndir.py sha256=caYPEpMW3Q0oP3C-Gi2_olMOgwM1EHfCNRqN0pweKgg 1502
toolbox/file_handling/unzipHiM_run.py sha256=O37VB6Xri5MW8duvw2pRVxpeaq3CIqrv3rQ2E75DTAE 2527
toolbox/file_handling/zipHiM_run.py sha256=k6MDslNMj0ctU5sRUQKhFxwT_E2g5pFuu4Lk4UOPb2M 3729
toolbox/parameter_file/__init__.py sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU 0
toolbox/parameter_file/function_parameters.py sha256=-wXf6O9lXOeElelaGwsJLHyaWIi4jwI-ymuZUTUj_YI 12552
toolbox/parameter_file/info_parameters.py sha256=O2XYpxq43eNZNqV7K6VhsbTuVvnNhnXKaGfMQh71DCk 3841
toolbox/parameter_file/pyhim_parameters.py sha256=TNzIxWpoeVL0PEO0pfTMkpaBX-RZqMJsO1Cb65XjeLc 32035
pyhim-0.8.12.dist-info/LICENSE sha256=46mU2C5kSwOnkqkw9XQAJlhBL2JAf1_uCD8lVcXyMRg 7652
pyhim-0.8.12.dist-info/METADATA sha256=Kyv4JVRP_CV5W9DOIzCE3DN91kmPr0ZFahNlMBfDjsg 12131
pyhim-0.8.12.dist-info/WHEEL sha256=oiQVh_5PnQM0E3gPdiz09WCNmwiHDMaGer_elqB3coM 92
pyhim-0.8.12.dist-info/entry_points.txt sha256=Go35YFCFhYWh1TMp65qtTybYDbdLCxCASIsPnwSbTG8 1346
pyhim-0.8.12.dist-info/top_level.txt sha256=BUyPeeqF6c8VVgS0UX-0Wfv85yCFqaUAIYg-kdEv5Gs 73
pyhim-0.8.12.dist-info/RECORD — —

top_level.txt

core
imageProcessing
matrixOperations
plots
postProcessing
pyHiM
toolbox

entry_points.txt

[console_scripts]
clean_him_run = toolbox.file_handling.cleanHiM_run:main
figure_3_way_interactions = plots.figure3wayInteractions:main
figure_4_m_matrix = plots.figure4Mmatrix:main
figure_compare_2_matrices = plots.figureCompare2Matrices:main
figure_him_matrix = plots.figureHiMmatrix:main
figure_n_him_matrices = plots.figureN_HiMmatrices:main
figure_single_cell = plots.figureSingleCell:main
image_preprocessing = toolbox.imagePreProcessing:main
image_segment_spots = toolbox.imageSegmentSpots:main
lndir = toolbox.file_handling.lndir:main
mask_manual = postProcessing.mask_manual:main
process_him_matrix = postProcessing.processHiMmatrix:main
process_snd_channel = postProcessing.processSNDchannel:main
pyhim = pyHiM:main
pyhim_parameters = parameter_file.pyhim_parameters:main
run_him_cluster = toolbox.runHiM_cluster:main
trace_analyzer = postProcessing.trace_analyzer:main
trace_assign_mask = postProcessing.trace_assign_mask:main
trace_combinator = postProcessing.trace_combinator:main
trace_filter = postProcessing.trace_filter:main
trace_merge = postProcessing.trace_merge:main
trace_plot = postProcessing.trace_plot:main
trace_selector = postProcessing.trace_selector:main
trace_to_matrix = postProcessing.trace_to_matrix:main
unzip_him_run = toolbox.file_handling.unzipHiM_run:main
zip_him_run = toolbox.file_handling.zipHiM_run:main