Wheelodex » Projects » orthoflow

orthoflow

View on PyPI — Reverse Dependencies (0)

0.3.4 orthoflow-0.3.4-py3-none-any.whl

Wheel Details

Project: orthoflow
Version: 0.3.4
Filename: orthoflow-0.3.4-py3-none-any.whl
Download: [link]
Size: 212112
MD5: 34d4dd43e2fddab77975bea2d0f3b054
SHA256: a80596453e4680b0f9a04f60f964b80c3cf273b8dbb38751dc18666af9eb8b78
Uploaded: 2024-03-14 11:41:04 +0000

dist-info

METADATA · WHEEL · RECORD · entry_points.txt

METADATA

Metadata-Version: 2.1
Name: orthoflow
Version: 0.3.4
Summary: A phylogenomic workflow
Author: Robert Turnbull
Home-Page: https://github.com/rbturnbull/orthoflow
Project-Url: Documentation, https://rbturnbull.github.io/orthoflow/
Project-Url: Repository, https://github.com/rbturnbull/orthoflow
License: Apache-2.0
Keywords: phylogenomics
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: Apache Software License
Classifier: Programming Language :: Python :: 3
Classifier: Programming Language :: Python :: 3.8
Classifier: Programming Language :: Python :: 3.9
Classifier: Programming Language :: Python :: 3.10
Classifier: Programming Language :: Python :: 3.11
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Classifier: Topic :: Software Development :: Libraries :: Python Modules
Requires-Python: >=3.8,<3.12
Requires-Dist: Flask (>=2.1.2)
Requires-Dist: Jinja2 (>=3.1.2)
Requires-Dist: appdirs (>=1.4.4)
Requires-Dist: biopython (>=1.79)
Requires-Dist: joblib (>=1.2.0)
Requires-Dist: pandas (>=1.2.5)
Requires-Dist: phytest (>=1.4.1)
Requires-Dist: pulp (==2.7.0)
Requires-Dist: pydot (>=1.4.2)
Requires-Dist: rich (>=13.3.3)
Requires-Dist: snakemake (>=7.0.0)
Requires-Dist: toml (>=0.10.2)
Requires-Dist: typer (>=0.4.1)
Description-Content-Type: text/x-rst
[Description omitted; length: 8745 characters]

WHEEL

Wheel-Version: 1.0
Generator: poetry-core 1.9.0
Root-Is-Purelib: true
Tag: py3-none-any

RECORD

Path Digest Size
orthoflow/__init__.py sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU 0
orthoflow/config/config.yml sha256=KGhj9HuSeYE4sxU8JYqgaFteTXOFp8x1j8HnXV7xrug 3129
orthoflow/main.py sha256=XN6RMU0cUn47XSs1wWWX3Gb9ChE3mqYeI2RdaX64rDk 3679
orthoflow/profiles/local/config.yaml sha256=VWRGBlvLo8AkJSOoSu_bOeJqaZSsq7aeterSo3CVfdA 92
orthoflow/profiles/slurm/config.yaml sha256=LYPhQK_-ckIbMfoXvkRFOgHkaWG7FwS5p-9XyuR8ZQM 985
orthoflow/profiles/slurm/slurm-cancel sha256=dd2CQMFSj23kdLbZTgkxThgOkZSLTVz7l6fPAG8BT4Q 50
orthoflow/workflow/Snakefile sha256=WxdJRQrAe7WCo7FHz0bg4ehJWfqRXEW7Is0yY9FaYvU 4202
orthoflow/workflow/__init__.py sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU 0
orthoflow/workflow/bibs/TranslatorX.nbib sha256=Achz49unN6eFahKSszwvfbihSszCxCak1zEppXMhY7M 2868
orthoflow/workflow/bibs/astral-iii.ris sha256=Y17aii9VzXm_5PRvTsZRkGm8ao3oORjH1x4-azrhcFM 853
orthoflow/workflow/bibs/biokit.bib sha256=E4ycSQX3oyvhm2UeXi_4ojd49bX3N_ostf2g4bY9dvU 595
orthoflow/workflow/bibs/biopython.bib sha256=kHV-ahCyn6bCr4xgF8GZrMgEdSkFU_-a-euP-Z9p8VE 1560
orthoflow/workflow/bibs/clipkit.bib sha256=A_pKK7INCbwSNLwHjvHiyty_B6Ik4zp54QNURibzJJQ 1896
orthoflow/workflow/bibs/ete.ris sha256=1OcM9MD0S50CtwVcxThwB1HwGOhd6ZI6d-3-buyOOJ8 1019
orthoflow/workflow/bibs/gbseqextractor.bib sha256=p9bYLk28I3SazdvDeI_e37Kdb5JAPBXDZQX3YH_aZ6A 303
orthoflow/workflow/bibs/iqtree2.bib sha256=DqXy3Dno9P094Monn6tzOJKaLMh7SFpcEZk4WnyeoTA 1203
orthoflow/workflow/bibs/mafft7.bib sha256=T1FYq5NeGgkP9gXMcoTYjtuRDzKF862TM8TYJR0I-a4 1202
orthoflow/workflow/bibs/modelfinder.ris sha256=yYuzqAV1KJ_qsshxijrMF6dfEnSnYGpjPyemsbUDjP4 523
orthoflow/workflow/bibs/orthofinder.ris sha256=CUevRihyToMAH_5zD7uCBAufAzQH8-p37PeCz-Dm2vU 1115
orthoflow/workflow/bibs/orthofisher.nbib sha256=dvlps5IgK-iUjVRcqmhbp06_vmq16BE_HcNCI1eMI0U 3107
orthoflow/workflow/bibs/phykit.bib sha256=HfQLvUm4w_eR3QeC-uJ36P62TnOBxnUqlH5dQXbcwDo 2318
orthoflow/workflow/bibs/toytree.bib sha256=YH3dW9aeW0j3EC9dh6c6nfh_iMg7Rbbz0KRyHFC4WB0 291
orthoflow/workflow/bibs/ultrafast-bootstrap.bib sha256=1PnmNdj8BQm9kGomihiqXmWiLIHQSlMosMnn8NiLqXs 1510
orthoflow/workflow/envs/astral.yaml sha256=l2XcAIQYf_EQTsUp5xVkOziSTI1T0BmPlCWzU9DvWWA 74
orthoflow/workflow/envs/biokit.yaml sha256=ClxGsbU4__jVjxRhbD0L0tRLy0fJ7cXNLMYgOchiKU0 137
orthoflow/workflow/envs/biopython.yaml sha256=TAzdnBYZO3G4m0jF1zVIGJs-2zNTeMpBHYXqF9OtE60 64
orthoflow/workflow/envs/clipkit.yaml sha256=9fVxvr1NLOGy7QpEfQjMoE3ZB6HbEud2Ee8eOSACQI0 107
orthoflow/workflow/envs/ete.yaml sha256=ZoL_1P1m_lJgRlxuJUNJsceMl3KLAZo5Ce6em7qYx_8 85
orthoflow/workflow/envs/iqtree.yaml sha256=ctEJLRCKuLthpHSu7ty99aPSd49r1EA19IFYjbjG9p4 103
orthoflow/workflow/envs/jinja.yaml sha256=bPYDwyu9d_io7xoRN8IHtlcyWjzF4TDG90d9d-udqjU 87
orthoflow/workflow/envs/joblib.yaml sha256=WkF6gid1msOov7vJnF4GCK4Ni6WPQBR4_zEerE3AIa8 115
orthoflow/workflow/envs/mafft.yaml sha256=aU-3R0gZ6qIMfOp9Of8cn0wWdfYwNYnpL_FBBRzk6HE 81
orthoflow/workflow/envs/matplotlib.yaml sha256=yEUEByrKNY_8GMgOLcWs9tpdMVGypYNVYUM5kRR8UdE 54
orthoflow/workflow/envs/orthofinder.yaml sha256=5s9g98ofcnfv0TeEVKQhiPwmi3l_2mjCTfeiY-_yM2k 93
orthoflow/workflow/envs/orthofisher.yaml sha256=aQONJWX9A_bvNs5hJXdY0J_tvoJ3qeFWOJ6N2ECtGUY 157
orthoflow/workflow/envs/orthosnap.yaml sha256=2MdNCpEic2QXH68jEszebmHS8YM2w-1K1mn78JBysiw 263
orthoflow/workflow/envs/perl.yaml sha256=7l_YXRwlYeZ7y2MrhzwP7TY4E9OmQxhEUYi_E_1gfDk 49
orthoflow/workflow/envs/phykit.yaml sha256=U8XHDtwtY2pDY59YMmxU0DqYOYjZFfYPsTkFNVZf9ps 107
orthoflow/workflow/envs/samtools.yaml sha256=cZN5a0uevACNb3tlgN35TYE-1h_-ivS5T-VxJZZbnnk 85
orthoflow/workflow/envs/seaborn.yaml sha256=tBfMlwz76rhl1hMWIDf2oKKyV-2pFWjA5eTyxjx3cQI 51
orthoflow/workflow/envs/summary.yaml sha256=nZoJbXqLWqTO3QD49TZ19z1_lkSyxbDqXp2cFm5ZxV4 255
orthoflow/workflow/envs/toytree.yaml sha256=jVgqbnSEKwcm1OVK1KmQ-VpERJbDmc6YZQkyye_rf5w 146
orthoflow/workflow/envs/typer.yaml sha256=XFypJ1PKXeEcPvx69DZHxijJ9-5Y0V8dwhhuvjx516o 97
orthoflow/workflow/report/alignment.html sha256=ZrtYJB9vT3fRbYg-5JXCvpVpuAtNFekvOajDfBxgFdA 993
orthoflow/workflow/report/alignment_summary.rst sha256=Cs-wN6zHsYYmnjD4ZU3_s5cKNNifL8bXMfSg2Qzxwt8 35
orthoflow/workflow/report/assets/css/bootstrap.cosmo.min.css sha256=1QMn0orFWnN6ZvqKlZCpabeY9PAvvIFcVndIneDMNeU 186259
orthoflow/workflow/report/assets/img/orthoflow-favicon.png sha256=OkWQgbNFotTmQu-JVT3OOmUgbGkQs81sQOjZ2305hPM 1411
orthoflow/workflow/report/assets/img/orthoflow-logo-black.svg sha256=E19KTi1Qg5qkaY2N3SkoSQQlkk0uCCxz-1_jnk1byso 34920
orthoflow/workflow/report/assets/img/orthoflow-logo-blue.svg sha256=39JJ6h1mIFlKuf6I5P_CafE980npVf26yAX1knzrXqs 34941
orthoflow/workflow/report/assets/img/orthoflow-logo-white-on-blue.svg sha256=OZJQtpTdtnWm0_d5j9JVpx4WOE7En-q3ZkRGjheZxX8 35359
orthoflow/workflow/report/assets/img/orthoflow-logo.svg sha256=klTyEjKuUlBIVSIoWG_9f5ohpk4sxNdzeJhxGgDjog8 35282
orthoflow/workflow/report/assets/vendor/bootstrap-5.0.2.min.js sha256=fh8VA992XMpeCZiRuU4xii75UIG6KvHrbUF8yIS_2_4 78743
orthoflow/workflow/report/assets/vendor/feather-4.28.0.min.js sha256=XfzdiC-S1keia-s9l07y7ye5a874sBq67zK4u7LTjvk 75779
orthoflow/workflow/report/assets/vendor/prism-1.23.0.min.js sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU 0
orthoflow/workflow/report/assets/vendor/prism-coy-1.23.0.min.css sha256=gkHLZLptZZHaBY-jqrRkAVzOGfMa4HBhSCJteem8wy8 3061
orthoflow/workflow/report/assets/vendor/prismjs-bibtex-2.0.1.js sha256=C21978BGfyfGR6uCBoWoRGUBgraY7ukGCXhNcR6caxk 1412
orthoflow/workflow/report/bibliography-content.bib sha256=jdyHcXVBg1AP44dMhVwyPFnCkRA_gNJolSCLqQi-1fc 11819
orthoflow/workflow/report/bibliography-content.html sha256=9GMLYieloefT_zb-UCGhXfZ-Vaqil-m0Ih2hEuyeYXI 6088
orthoflow/workflow/report/bibliography.html sha256=UmoAGPLwbyENkH8oa3OIIn55jln4szKy41LOE7iul8A 831
orthoflow/workflow/report/genetree.html sha256=smMbrV2Km3A49ctxioxFWlfOb-GifWC2GlfpUJCX0XQ 4126
orthoflow/workflow/report/intake.html sha256=5JSNiOTAwrksrmA_dmH-6kwtJDduM2fyf75deg1tbbg 77
orthoflow/workflow/report/orthofinder.html sha256=j3Hf8vZC5nB1x6JpPLMS4eeXuh_b3ffRGeDmTS_5Z9Q 2316
orthoflow/workflow/report/orthofisher.html sha256=gvg-nwsBYwB7HVlPfRzDBYvkKONKh674jzKaUWb0VEU 21
orthoflow/workflow/report/overview.html sha256=hK1lMyp3M2HMd1yZawuINPWTPkLAflE0hjhZpw8q8_s 18
orthoflow/workflow/report/report-template.html sha256=tiPmYSf6nfkYkwX1ExlZGETcFmjKmCGl5bP2ZbpRaw4 12857
orthoflow/workflow/report/supermatrix.html sha256=enMqGK0SMIYk_ptnU8mWnl868VtRI708PLrIroPQbps 2486
orthoflow/workflow/report/supertree.html sha256=EIqlO1V0pc66-ErJMOVZuQga3XKTF5idA2wdhEMiprk 86
orthoflow/workflow/report/warnings.html sha256=Xm3uOcNHZakrpD-bmDJdgEKWdDoQvv5AwzrlP7m-Gjo 279
orthoflow/workflow/report/workflow.html sha256=-9OzbpbY40wsGzmY0Yd8A7o2qqNGsGVRqvADJbRPRXI 52
orthoflow/workflow/rules/__init__.py sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU 0
orthoflow/workflow/rules/alignment.smk sha256=aofNIk63qun2cskdnCLdNNvrZgTjw3233STxeqrq7L0 9911
orthoflow/workflow/rules/gene_tree.smk sha256=uOXFWjG7nlsgXLNo_jKF2rDcpAG-VdHPWZgctTOjQpw 2373
orthoflow/workflow/rules/intake.smk sha256=ltQ8vfgkFWw0CgzASuXaWEecc2wzf-pSWgbqFHiBUAw 2988
orthoflow/workflow/rules/intake_utils.py sha256=ljV0AJTNcbR1tjwPchq3HPSCV4Uhl_phZg2WGyXOzEM 17099
orthoflow/workflow/rules/orthofinder.smk sha256=d0WwhJbdoSu0QvJKKR6DBhb3c9-1oR4MExl5NvaLZ28 7768
orthoflow/workflow/rules/orthofisher.smk sha256=AttIFAzasNEmlOgYjpnugM3qr1LW7ubnnWxCMum6o3E 2888
orthoflow/workflow/rules/report.smk sha256=FNwEVD_2Ec7riKIVXg-IRm8TVquahyjb0uXPVOlMti8 5753
orthoflow/workflow/rules/summary.smk sha256=56gYjHpel5jC8cuTsh2IJ4BE90XIAgswQbH7s1XXNO4 1362
orthoflow/workflow/rules/supermatrix.smk sha256=t0TRguuY8PHHT6PrWAmZCoBB-6-8W02uJ-QSkblDa4s 4250
orthoflow/workflow/rules/supertree.smk sha256=IRkSpgCFPU6ikxtpM7FLcrkS9gCn0gugT6x8_tcSfwk 2591
orthoflow/workflow/scripts/add_taxon.py sha256=Rqodliq0TZa2z8hwJRxTp6zwpW0Pg38G0vVxRauC9Ic 1286
orthoflow/workflow/scripts/check_config.py sha256=GhDuHDDDZD8omr9vbGUzPfNXwRUZ-jAuAl4eN9H7DTY 3437
orthoflow/workflow/scripts/filter_SCOG.pl sha256=d2AWfya9pAAWetx8B_8mZ4j8dyWuCTSxTdWE-9wcUvE 538
orthoflow/workflow/scripts/filter_alignments.py sha256=xLF8pqYCPGMUrZEUJZzWwl3swIZypB9KoHzgZB77Egg 4495
orthoflow/workflow/scripts/filter_separate_ogs.pl sha256=JtbBvz8OAs9d8yqsWr4m3jykNDz5lhn0WEsHfpl2nb0 1203
orthoflow/workflow/scripts/generate_orthosnap_input.py sha256=sUP6aVKb8cf0C50saG7aiRv-oc6lxM4vIvWnruG11r4 1044
orthoflow/workflow/scripts/get_cds_seq.py sha256=hPIcpc3pco85xoz_HQFTOJyKzQmxNdj8VQPziIm4F1w 2596
orthoflow/workflow/scripts/matching_cds.py sha256=tFqLzrIJggVQateKsDvLXRFemfxKPPuYRxPWwSaQCT8 3157
orthoflow/workflow/scripts/orthofinder_report_components.py sha256=Wu5e-61hyazkhoI-7Q6dQyYYbOwvVp8c82PmBNqfJeU 2248
orthoflow/workflow/scripts/orthogroup_classification.py sha256=OoXKAyw6g1CMMIFEMh0W8FX2pKLAyhP56gcHSVa4TbE 2909
orthoflow/workflow/scripts/prepare_input.py sha256=xo8ZL4DNkmM9yMnYR6JOCGc6NsDYzYUBJUiyUnTWYWk 1159
orthoflow/workflow/scripts/rename_sequences.py sha256=UFB0BPYBCU-9qy2upAjmCiurg6Rz0I5htUIQ_vJP5BU 3294
orthoflow/workflow/scripts/render_tree.py sha256=SinNAp79aeC7_57g1BniUpke-QLO0_VVSlg2gstrRlQ 1251
orthoflow/workflow/scripts/report.py sha256=b8bzf2Tn5EJ5vfiVP1uIHMVfhP95ktEDQ7ss_Aoj42o 1082
orthoflow/workflow/scripts/summarize_information_content.py sha256=rOa8-P4NjzPD5nG_rMLv3o52GVRdVdpl5WZW6z16eyA 6445
orthoflow/workflow/scripts/taxon_only.py sha256=EXcKCqx9L8-6UxnVnmpw1yF1K4m9jxf28rUaRrVd5pI 1131
orthoflow-0.3.4.dist-info/LICENSE sha256=4CI1yMpZgWXkKlVev0M2vgvkDRaGOyKd-_FsKAoe8T0 11334
orthoflow-0.3.4.dist-info/METADATA sha256=5vE5PXPv-iTOrHb32b0_ds77oQMfkgV0SB0LMdiXzlE 10069
orthoflow-0.3.4.dist-info/WHEEL sha256=sP946D7jFCHeNz5Iq4fL4Lu-PrWrFsgfLXbbkciIZwg 88
orthoflow-0.3.4.dist-info/entry_points.txt sha256=ncxzFWj7XTEpDhSxeUZ8_GtdZmYk3KwE94s5vjXomAE 48
orthoflow-0.3.4.dist-info/RECORD — —

entry_points.txt

[console_scripts]
orthoflow = orthoflow.main:app