linkml 1.8.1__py3-none-any.whl → 1.8.3__py3-none-any.whl

{linkml-1.8.1.dist-info → linkml-1.8.3.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: linkml
-Version: 1.8.1
+Version: 1.8.3
 Summary: Linked Open Data Modeling Language
 Home-page: https://linkml.io/linkml/
 Keywords: schema,linked data,data modeling,rdf,owl,biolink
@@ -36,7 +36,7 @@ Requires-Dist: jinja2 (>=3.1.0)
 Requires-Dist: jsonasobj2 (>=1.0.3,<2.0.0)
 Requires-Dist: jsonschema[format] (>=4.0.0)
 Requires-Dist: linkml-dataops
-Requires-Dist: linkml-runtime (==1.8.0)
+Requires-Dist: linkml-runtime (>=1.8.1,<2.0.0)
 Requires-Dist: openpyxl
 Requires-Dist: parse
 Requires-Dist: prefixcommons (>=0.1.7)

{linkml-1.8.1.dist-info → linkml-1.8.3.dist-info}/RECORD

@@ -1,11 +1,18 @@
 linkml/__init__.py,sha256=0REu65rXiOk3F1CYLzq60HiSZ2DfFySfGS6QFljZ01s,3663
 linkml/_version.py,sha256=udxv6OEqcE89DTVMYPtetXYg8IA8Sgc6yW26-6f8C3M,310
+linkml/cli/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
+linkml/cli/__main__.py,sha256=oPa7Fl2DQP40UivpIWNRr1CgwT2SQM0rhE478155zBY,80
+linkml/cli/main.py,sha256=83lyx36tcy95StDRtN7BmwNFCPt4As1wb0wbC3YwHKg,5386
 linkml/generators/PythonGenNotes.md,sha256=wb9BPLLhF6378OKLbwSBAwmniLpwrcT5_bbfCHfLme8,51006
 linkml/generators/README.md,sha256=RMzT8EblC_GEdPy5WyfXHDBXlFI6k6mz3Cx2sdpcyWI,4438
 linkml/generators/__init__.py,sha256=dQ2EUKy_MctEVEzbC3XzEJL5YmYwjYfsa44mG2zKn7g,1517
 linkml/generators/common/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
+linkml/generators/common/build.py,sha256=hXf2gf1ox2hiR-D6N-qXt5w5QkISLlo1A-_GurY3yHo,2897
+linkml/generators/common/ifabsent_processor.py,sha256=D8vKZLa15mc_SUyvFsE3NZfWi-c4kawYW6WdGozJLRQ,11275
+linkml/generators/common/lifecycle.py,sha256=UOJXlIyWQkvsn0Dao9_ZDzlamJtiINyVJQ6SRj66L9s,4910
+linkml/generators/common/template.py,sha256=bjcSNiC85MYl9oGhk0ZpqwZpRxxy_NqxG8XBV-TXXDY,3338
 linkml/generators/common/type_designators.py,sha256=lgVcIRJJ-yCvVGeP9U_gQZpm77UmJBQo9Bh3lGJITno,1956
-linkml/generators/csvgen.py,sha256=R8VQdWXj43LNf5isJElo3MStsiNBSSF4ywIRS1c3_v0,3243
+linkml/generators/csvgen.py,sha256=O20K3IuDxomGJAyNFJmm1_HbPyl6xUK0l-aKY0A3KcM,3253
 linkml/generators/docgen/class.md.jinja2,sha256=-JmjYHgYOaaBYd5r-Tr5dkk0CLM_lX0kHdocPQtRsjU,3504
 linkml/generators/docgen/class_diagram.md.jinja2,sha256=gzskx4hOpU_s6BqOXdYZ9DwKxuClnsEgDzPurm30PeY,3469
 linkml/generators/docgen/common_metadata.md.jinja2,sha256=gy9J8rghBfKDKimwtHj_XuHY4PJRRYHLXVlBHqWrUzU,1604
@@ -13,70 +20,72 @@ linkml/generators/docgen/enum.md.jinja2,sha256=mXnUrRkleY2bOTEyAZ5c4pcUnqhs6BNa8
 linkml/generators/docgen/index.md.jinja2,sha256=wXUYTmayPLFltC0vbGE_Mf6m3GkkWav7FOEjCvEpHp4,1466
 linkml/generators/docgen/index.tex.jinja2,sha256=Go_EA-_N4JUpbOYbk3OY11mz5yV70VF2l2sMtgIPWw4,501
 linkml/generators/docgen/schema.md.jinja2,sha256=xlENfnzNRYgPT_0tdqNFxgklVM4Qf5BuzhFVvSMDuxs,70
-linkml/generators/docgen/slot.md.jinja2,sha256=ZGa-kaNvi5LknvFRIjKQyRpSynr1SlkLrpEmWDNPwDA,3226
+linkml/generators/docgen/slot.md.jinja2,sha256=dJHugIv9OPTi3FIn8Iez7CzjQizdXrcn0hcmCmXSgV4,3339
 linkml/generators/docgen/subset.md.jinja2,sha256=EPln_fjlhlkmwEGEp2iPX-9Xm2vVodPZLlRBlYCB_sA,2705
 linkml/generators/docgen/type.md.jinja2,sha256=QmCMJZrFwP33eHkggBVtypbyrxTb-XZn9vHOYojVaYk,635
-linkml/generators/docgen.py,sha256=QECBmOAiVr-DsUYOLmqapESSB_CiNoiHt_3vjiZCrUs,36396
-linkml/generators/dotgen.py,sha256=kzp1EYtF8bBqOuycJokDmsvHVDVkkW-J-6-MiUhwJH0,5013
-linkml/generators/erdiagramgen.py,sha256=7W010ngoHrk-BjhCEmpHyySPImLXIOTEBGO70hOUOH8,11341
-linkml/generators/excelgen.py,sha256=3ILAeIHeYngNpPf3Ad7CXoHOLQ9KSiYcX5HdwHhQeQE,7696
-linkml/generators/golanggen.py,sha256=rDiDFyZBZ6_JygCEdpbKrohQCScvBlWi17AcoR6Qi3g,5790
-linkml/generators/golrgen.py,sha256=OUBYRWicP7G7lrPu1VrxumbVpx3CBJal-o2imyeP05M,3437
-linkml/generators/graphqlgen.py,sha256=ClJdD6fVjBI8rsIJ3DIuwdQScAJG0gYYKwS8SrFqVZk,2149
+linkml/generators/docgen.py,sha256=BbYIL1Bep0La4izwHaYZuTsnbVAv8_zjx3U3r1eHFEQ,36406
+linkml/generators/dotgen.py,sha256=vjHveFtKBItHRkowi1I4FHffcn4u4wLpBydYgVxB-vE,5028
+linkml/generators/erdiagramgen.py,sha256=5_VEPvRL0I819wCjk7T5hWffdBPc_qw3XpQdOYpO7uE,11357
+linkml/generators/excelgen.py,sha256=MQRRm1wDbg7auUQH9tGb5aRyrp-e4gjXsY10aoLb9LI,7708
+linkml/generators/golanggen.py,sha256=w3iTcOK69cwCrhE1pZn-PpV59arFZB8uU3ErLFo9i8Y,5803
+linkml/generators/golrgen.py,sha256=JB92VDhTuwyaOyxHxB4goIsjZbq4NMf36ESprC3GeBs,3454
+linkml/generators/graphqlgen.py,sha256=-BS-UHPyHqauUgtgcFCO4xSxxogk7BPAQFSXHIrKJT0,2163
 linkml/generators/javagen/example_template.java.jinja2,sha256=ec4CVTv_0zS7V5Y-1E6H4lRraya10gfX7BEMBlu38X4,444
 linkml/generators/javagen/java_record_template.jinja2,sha256=OQZffLSy_xR3FIhQMltvrYyVeut7l2Q-tzK7AOiVmWs,1729
-linkml/generators/javagen.py,sha256=KxwupMztyCRHcSsbtTnOovuj1WamsAny0mxbYWvTiDs,5324
-linkml/generators/jsonldcontextgen.py,sha256=y_AE1JF0QS75VDfOAquToClrWGAWb_ltsGN5r-Q20F8,8638
-linkml/generators/jsonldgen.py,sha256=FamA0pbbc9U3kEslsjvgJoJXjQ80VzoPbHmClVGPvKE,7757
-linkml/generators/jsonschemagen.py,sha256=sQXlaT_UOiJfbRoxH-hFY4nM0ELdjRlCFnS8HqVzqb8,28263
+linkml/generators/javagen.py,sha256=BTAXgvOOvRa3AOfaaiVFyuyaqg4XFR_JbO6_7tT_AnQ,5335
+linkml/generators/jsonldcontextgen.py,sha256=J-9QF7doco3-hYReiik67PjiaF_UudrFEiVsbnJFCJg,8666
+linkml/generators/jsonldgen.py,sha256=9ru1rb4_u7t_Rp8ILQSmDIsk_evrDL_OeilnQUsu338,7770
+linkml/generators/jsonschemagen.py,sha256=XoA0HJ1XlItogmhr3F8XNnAi1UG6fXeBAKkjme48n7o,30388
 linkml/generators/legacy/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-linkml/generators/linkmlgen.py,sha256=1_Kt_7rD42WvCTjq0yaq1Of7jEDZR_uusyzAT-qWMHk,3471
-linkml/generators/markdowngen.py,sha256=mwydWkrF-WzsTiKwJqqe9NUya5VaTj7ywKqodP85A44,34449
-linkml/generators/namespacegen.py,sha256=vVcIyM0zlKd7XRvtdzwTwHjG4Pg49801gy4FUmjJlqQ,6450
-linkml/generators/oocodegen.py,sha256=r73QI08ajbTZTobc9OIG6BMWZft3zdu76vKVR33pyYg,7774
-linkml/generators/owlgen.py,sha256=NHIcL1d79WoeqfiZRj6kRk5aTXcQ6JDNXV_VAtH6Vt0,57554
-linkml/generators/plantumlgen.py,sha256=JgAox2o_HQgXR4ZxdHwdRUzcHSbpsAdv15Qsq1vnEZs,15463
-linkml/generators/prefixmapgen.py,sha256=w8gMCFOI0DmZsNvo9IkbhOqVWqqWYEN6SXnAP3BgFSk,4240
-linkml/generators/projectgen.py,sha256=OuT_AneoZFNMCn50GllfZafadUHt50u61JcftM2eed4,9750
-linkml/generators/protogen.py,sha256=i4sEhNdAiFFP12fwfRdype1MX8yU-E5fF7XzkcpBCd0,2512
-linkml/generators/pydanticgen/__init__.py,sha256=-972x-uV0atgveW_n5qvG1WelKANvsk9ZseZOIH_tNI,663
-linkml/generators/pydanticgen/array.py,sha256=EYqAkT2_wE82kZ-niUWAC5U3V8EvjjyfSH7tz5GYKWo,19461
+linkml/generators/linkmlgen.py,sha256=g1D8B6MBxcG6b9aYCUESp7nDZPmjedCs8rmGm_0GLnE,3484
+linkml/generators/markdowngen.py,sha256=0gjMPJ0Ycm9se4Y4cyqjbTntGYqRRZu4RL-9Qf5n4lk,34464
+linkml/generators/namespacegen.py,sha256=C4p9LSwsnDqf6sv-wG5l0VQniWFJ1HA1hRXJBDOg3pM,6467
+linkml/generators/oocodegen.py,sha256=aBJgy-S-8FL5cW9p4hf986iSTxXwvkM7ZajKlari4us,7820
+linkml/generators/owlgen.py,sha256=XgEuwvlznnsk8Z-mqZlCC0eK2DinPT9YLga3CkRyBRE,57564
+linkml/generators/plantumlgen.py,sha256=ScTpXZe2Vjs2O6DeRJo-nr-p13lWSAtMZl6gu9jQYTk,15478
+linkml/generators/prefixmapgen.py,sha256=oISFtSt_s5OWx65tYasWk0bUJIDIU1MjnsWqfBE7ZQA,4257
+linkml/generators/projectgen.py,sha256=XSndKhTJ8uik30wWtabKNhERybPeeyVrekf7oEDVF2Q,9764
+linkml/generators/protogen.py,sha256=a4KUyKj525tuE2YenEJQ_IkbNKnnhVH_N-qTEmMBVY4,2524
+linkml/generators/pydanticgen/__init__.py,sha256=5SUFNcrh-6MLfMqptR6wPsR2v1Gyrl3wii-yu6kdnQM,700
+linkml/generators/pydanticgen/array.py,sha256=mF_vhmlPfd9yVlVyANvT9GgLP6iQLSheqaowT5Jp6Jo,16120
 linkml/generators/pydanticgen/black.py,sha256=BaJ7b-kMUbIN_cKRT3yCaMEbFwxzj1_U7w4fKQnkL44,723
-linkml/generators/pydanticgen/build.py,sha256=Ia8qy4C16b-KqO_fw4tGQW_Eo4grCVyX7RsuJ3uRTtk,2681
-linkml/generators/pydanticgen/includes.py,sha256=0CZi8vs6Z2eVvMOWhbTphCYoI3X8E9-8LgSaCBeiuCY,1174
-linkml/generators/pydanticgen/pydanticgen.py,sha256=kaUBENnVEGpFs3gGK8kQbR2ZoZ1eg9Jiz0yNtXajbEw,34900
-linkml/generators/pydanticgen/template.py,sha256=gffWyzJNmjw2Kf1UszRp97qGrnkAGd4UnLimU2nEsEA,21154
-linkml/generators/pydanticgen/templates/attribute.py.jinja,sha256=S_T-M7n_eeM3LW5gQUuTPH1-Oc1CEtL7Bve7qAFouYQ,688
-linkml/generators/pydanticgen/templates/base_model.py.jinja,sha256=48y64MnC9rjNSV-nKLMeDuHN4gm15UsInhnKxh65zoM,834
-linkml/generators/pydanticgen/templates/class.py.jinja,sha256=V_lyvFcZ9QhlKZi2bL5iff8RjHir2SQTTypOzQMOfmk,744
+linkml/generators/pydanticgen/build.py,sha256=_NQzXK_wWJ-EAHBi1nqZCEWSTYy7KWkc5w-mRsEXycI,3936
+linkml/generators/pydanticgen/includes.py,sha256=kDAwonKbhTFzrFa2TrmTYuOSHXuzDy5WHgBaI5nVY6c,504
+linkml/generators/pydanticgen/pydanticgen.py,sha256=GpGROIR1CX876NIvVoW9dlGe1r_vQSnojC7qnM9RNrM,49239
+linkml/generators/pydanticgen/template.py,sha256=alt5yXyf2zdh93rLhyuIu9Ctb9C3O1oM62Upr4JH6Cw,21000
+linkml/generators/pydanticgen/templates/attribute.py.jinja,sha256=uMyVKpO5uQkAFlIvIBwA6FFZl_BSIotfwCorrSwMA3Q,873
+linkml/generators/pydanticgen/templates/base_model.py.jinja,sha256=6KRQ1ZVHh1uwZnYL3qxBnyit8_DNE7D-4l2-1wsRsG0,406
+linkml/generators/pydanticgen/templates/class.py.jinja,sha256=GqR2t5y0vLmvUpT2vyP5VX42PO9AkAnGE-U2RZPa9AI,690
 linkml/generators/pydanticgen/templates/conditional_import.py.jinja,sha256=YheknDrxvepiJUzeItSL5aSbAkCdR1k0a6m6aTA4qNM,240
 linkml/generators/pydanticgen/templates/enum.py.jinja,sha256=572XFQyEMZfL-G_Cj68T-NI_mUnDoFOAVJOGIKu2Hb8,338
-linkml/generators/pydanticgen/templates/footer.py.jinja,sha256=WuWGJjkWDQcEPL2bGk5fdGuhO0gQRUJzpo4CQHHxQNQ,385
+linkml/generators/pydanticgen/templates/footer.py.jinja,sha256=t_24p1xmqdbfxGqz_XCXSTvkkWt26_2w_RcQjGIAWlY,155
 linkml/generators/pydanticgen/templates/imports.py.jinja,sha256=d1XFna2eOpkH8cgJML3vXwqGcocczvOcrbg6jjd4kP0,945
-linkml/generators/pydanticgen/templates/module.py.jinja,sha256=gYauXrq8ML3ieaN_DFGB9yj9VfZV2yHG5LRQUzWy4VA,622
-linkml/generators/pydanticgen/templates/validator.py.jinja,sha256=Yo4dubQal-HwEoJKztQkLYM5qCz1I8na2oaDlXuEpwU,532
-linkml/generators/pythongen.py,sha256=CiLmc964siGeJWZC_bOffsqrSnJ5qzn7Eu961C47xgo,52850
-linkml/generators/rdfgen.py,sha256=eQi3XXjWk6xliTLncQ4G0VYzGCJwCU_FFG-O7tA8DSA,2959
-linkml/generators/shacl/__init__.py,sha256=O-M-wndKw8rMW-U8X3QCNHal-ErXP6uXZqxiQSa77l4,108
-linkml/generators/shacl/ifabsent_processor.py,sha256=kV9BGA2ZPXLRfaFuW0o4jpkATvGggvrqpAo9c1UqWNE,2193
-linkml/generators/shacl/shacl_data_type.py,sha256=BT3C9tdFyBQnuucPN7YQiFAKEa9yuzy-Q26X6dmOXgo,1827
-linkml/generators/shaclgen.py,sha256=kgJ3VaVM0_7XBr5cvqgob6wjEarNINZzpC4FK61sC9M,13157
-linkml/generators/shexgen.py,sha256=MhB1HidCREMCJcDGBqutFQ0gWKKz7aSVw-0s-IHUMm4,9930
-linkml/generators/sparqlgen.py,sha256=c7x8GFChKWprBx4rToSnu9qN8OleWTCenVUdZ8XSTWM,6138
+linkml/generators/pydanticgen/templates/module.py.jinja,sha256=NLCYn4wgwVBCs8trV2hNq0_BkZgfIIS6zQTmjzFDJCQ,568
+linkml/generators/pydanticgen/templates/validator.py.jinja,sha256=BhXRGrT7HIweVHEE3Z7ZUtFFV8kP1dmRKJfu53jZBBQ,441
+linkml/generators/python/__init__.py,sha256=NS9fPEuAo0punDplD91F9mcViXMJJv04Q5NkFcKPNvY,40
+linkml/generators/python/python_ifabsent_processor.py,sha256=a98JCbMsR_Fsdaw8s299-0jFhE0V6F4zLl326ITA7lQ,3848
+linkml/generators/pythongen.py,sha256=3XOWUMEUlknkdpzGMbJrNGWPWxnhwxLHPr5anOk_m2M,52612
+linkml/generators/rdfgen.py,sha256=OT8oS8MPUVf5UK3OKvRWgAh9iQiWwdyWJSA69PncOw4,2969
+linkml/generators/shacl/__init__.py,sha256=KgMOyESGTdKk2Vhx9uuUYgEJPuJQ-iT1vDQVIMoiXCM,58
+linkml/generators/shacl/shacl_data_type.py,sha256=gX3Y2KyTVPwMyef0cJMTEpU9h0oH-H0ThVDORdNW170,1828
+linkml/generators/shacl/shacl_ifabsent_processor.py,sha256=hbgt5UtVHo_z_JOLkg6ltGRdVuiv65b2PA3x1Oy4ssQ,4269
+linkml/generators/shaclgen.py,sha256=JGk4X-PQadF_D-ciWKBVHuKU4QdfKewC395ujR5EsBk,13392
+linkml/generators/shexgen.py,sha256=-GFdapDEAUXAjsXdTI7ZlS39YfuvaxfzPkdqUNM19qI,9941
+linkml/generators/sparqlgen.py,sha256=ULvWokNGPADq1qDENoFeRYg3FmjdTh4-Vq-eYjsAEK4,6151
 linkml/generators/sqlalchemy/__init__.py,sha256=mb9AC1rIFkSiNZhhG0TAk45ol9PjS1XvsrvCjgfVUpQ,249
 linkml/generators/sqlalchemy/sqlalchemy_declarative_template.py,sha256=X_Ws1NUBikMI5HuNgEhl_PIeWM-B-c2B0W9KUBH4QTg,2542
 linkml/generators/sqlalchemy/sqlalchemy_imperative_template.py,sha256=u4ZpponG1h6XROrOHGOf_0H2e6xL1_s8twAOA-gx94A,1622
-linkml/generators/sqlalchemygen.py,sha256=boXn_tlkbZ_a5TJYoXvdlKzABNwD-Jn5ld9IAbtzWm4,9286
-linkml/generators/sqltablegen.py,sha256=87057FJi9EUVPXOjRfHuSqY0lKmepXRNQsose2fGts4,12343
-linkml/generators/sssomgen.py,sha256=yur3q7so9uwIELWZaZRzkJwNbz_ppBL7IQki9XLIM3k,6879
+linkml/generators/sqlalchemygen.py,sha256=qTyT0s1FhQnCvcgjEsC4OaTWhkgHBAGxcHnxEoF9DmI,9297
+linkml/generators/sqltablegen.py,sha256=nKjUMhd05JaWaME_DjP7AV2DDUulsKpcu7IidhD3PLo,12359
+linkml/generators/sssomgen.py,sha256=zrZy0WL9fF5bk-XAcB-MZYZkhHhqVRHt2rGBUtfqnLY,6891
 linkml/generators/string_template.md,sha256=kRcfic6entgIaJdpSg6GF3jcjC9wbKsCVM6wVT2qipc,1788
-linkml/generators/summarygen.py,sha256=HUO13GmfFzhAzKtL3nFypR-_I_IFIHqQoE6WMW05mpo,3069
-linkml/generators/terminusdbgen.py,sha256=_q5R0OPCkLCHNTQ9AMtCL2hYaO-wReDjzITvj2doaU0,4626
-linkml/generators/typescriptgen.py,sha256=80Ph4RfzDoA1TRCkKaLWlh0NsCNvhakJ2RrNfMqcMmY,8577
-linkml/generators/yamlgen.py,sha256=PKssrY5VHpdbOU54PVwLVLbsRqHwoOgOImlMb6DVcXM,1614
-linkml/generators/yumlgen.py,sha256=xmMCHPDg-x1vhqc4M-_YmU49-yFan_mjZkve4vCVBaU,12197
+linkml/generators/summarygen.py,sha256=C9r34928QtVMaXTbdch-mRPB5L0jDTGmTnVmtrKrR-0,3083
+linkml/generators/terminusdbgen.py,sha256=ItJ-HTMkkX22Ex1-UjJZmtEtE2fn6UdjAxDtn20RXV8,4713
+linkml/generators/typescriptgen.py,sha256=y8l1A1hAyuiRmXw0CyPXfamBKWpi7ag_lspfr8bnIds,8594
+linkml/generators/yamlgen.py,sha256=38zdh5T4tObFhCHgbUbKbc0UuFh1TmmsWBkWM9gcvsI,1625
+linkml/generators/yumlgen.py,sha256=Bg1MGlhCCQoswB19mFKh8xB0UcL9MQGHlUrAVGZSWkc,12208
 linkml/linter/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-linkml/linter/cli.py,sha256=BpQiETcRfQlZsI1-JALyU9wXPgPOm_KE_n11p0iJaC8,4494
+linkml/linter/cli.py,sha256=tXJ3vwjohCnj4EApEJXvXUSI3NLJ3fI3u6tJVxbgLQg,4505
 linkml/linter/config/datamodel/.linkmllint.yaml,sha256=40rNhcL35FXQSjlVBMWnyPgplwEUqFT_sJmeZqUzxMw,292
 linkml/linter/config/datamodel/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 linkml/linter/config/datamodel/config.py,sha256=WyIBA1damYcW0JI6zLxbFwcHOtSdw0prSADlJdz3zG0,17202
@@ -94,32 +103,31 @@ linkml/linter/rules.py,sha256=Eg_-lIX1KPsCp3PHdPcBiHmSS5qAVZkHbw5LURfkfXk,11481
 linkml/reporting/__init__.py,sha256=Jo0V_nyEcnWhMukMW-bqW9dlbgCfaRlWm3CO-XzgU84,92
 linkml/reporting/model.py,sha256=-10yNfk8wuRC48ZI-akrWvtlJ9a6RYWET2TzlZV3XXo,8622
 linkml/transformers/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-linkml/transformers/logical_model_transformer.py,sha256=z-1nyD0d8LYJeAPWRn29p-S4Hgmvjocfcj0VrHTAs2c,26703
+linkml/transformers/logical_model_transformer.py,sha256=rPeBYzQdLtcEKPe1kwkOWce4N7HZvFaULDrEGKbB-qI,29838
 linkml/transformers/model_transformer.py,sha256=tK_MpRDI-q2qfe8KHT6qJHP8ZruKjYx1FcM-Fnjse-E,678
 linkml/transformers/relmodel_transformer.py,sha256=aiSI2xaqRz4f0Z_0WFaBP5bknzX0pTnvxsR5mESFysg,18857
 linkml/transformers/schema_renamer.py,sha256=DYRbgL9j41M9FdbHYLY3u4YIdDM98laD3cv_lHcgWHQ,5275
 linkml/utils/__init__.py,sha256=Pkyv-Gfb8QoJdInRdJuuUz1Igfe0sT9t8Gv3V_fyTXc,92
 linkml/utils/cli_utils.py,sha256=MdVbox1qr6kDUHUCWAmFhV-D6ebs_nn8vVwB8KDQfew,742
-linkml/utils/converter.py,sha256=snAF-pgZBSi4ANiaKXxqtZk5w3qonJjTfI4X5OVLmUE,6283
+linkml/utils/converter.py,sha256=vMpJLNFDxZR3yUGMiBCassDC-vvTb2oTq_3NYSLgErk,6297
 linkml/utils/datautils.py,sha256=QlbzwXykh5Fphfe5KxPo6_ekXfniLbHiEGJtLWjUrvY,3742
 linkml/utils/datavalidator.py,sha256=kBdWaVi8IZT1bOwEJgJYx-wZAb_PTBObB9nHpYORfKA,472
 linkml/utils/deprecation.py,sha256=onhB82qjIkKzyUOTO9WDqN6QF3I2cJoyBrbm66vHmgM,8088
-linkml/utils/execute_tutorial.py,sha256=T4kHTSyz3ItJGEUZxVjR-3yLVKnOr5Ix4NMGE47-IuE,6912
+linkml/utils/execute_tutorial.py,sha256=KGmSnaz6joIAShnrD24n8kD6URe6CBoSUYsDOTg7qCg,7039
 linkml/utils/generator.py,sha256=nAZTBFDKAZ2Asi6f54-GSOZoP03jQKgbYCW82KA34Z4,39100
 linkml/utils/helpers.py,sha256=yR8n4zFA5wPcYC7xzRuNF3wO16vG80v6j7DM3qTNmIc,447
-linkml/utils/ifabsent_functions.py,sha256=IkcBcmRYu8sllx7_mTCqu4aHfTxX2AnQoccZ1KOODds,5843
-linkml/utils/logictools.py,sha256=GSmBiobC49TcQjE08RtXEE3JwJEOV7eEREio25uJiFs,21184
+linkml/utils/logictools.py,sha256=BGtcoqr_Rsu08Ywa6lNiL881uZzQmNWk1p4FEIVKYe0,23641
 linkml/utils/mergeutils.py,sha256=QVm2iQB4v_L2rSvPBsPe9C865R03BgV3TzlPoTTTwWQ,9044
 linkml/utils/rawloader.py,sha256=nUB8Gfn8yEVwyo6bx0TtB2mBGkilC-fybi0xvQ73Gks,4417
-linkml/utils/schema_builder.py,sha256=4qhrur8O0xRZnPm7H1h2BZmTkut5R4q-IE_1KKiHy_c,9937
-linkml/utils/schema_fixer.py,sha256=Uz8M3AOQ_BputJr1f6lbfk1iyvmANUNG80-0B3BQKJ8,16761
+linkml/utils/schema_builder.py,sha256=LwaLeo65IQBHcmRD1kIxnjI1idFZyZsgfPACPow1_JY,9983
+linkml/utils/schema_fixer.py,sha256=dzAkID_hO8VNrSpO9Jbz_GLJQAoRju13cZ3fnY03ZX8,16771
 linkml/utils/schemaloader.py,sha256=dWZO044p_UcUWnrd8HZ-NsbLXQ9cA6c8HKfNI9-qH2A,47388
 linkml/utils/schemasynopsis.py,sha256=j7sNt6j-E3rmf-1qEo351Kth2kltt6crQV-dxJAGCUE,18414
-linkml/utils/sqlutils.py,sha256=Cwoaz44MLcvAGUEBshT4jtn0Z3w7jVOp85zGkd6FTHY,17071
+linkml/utils/sqlutils.py,sha256=Ddm6nsUd3oqLEWwZj7yakpyhRCO92Vvfl2MobiFaaXo,17083
 linkml/utils/typereferences.py,sha256=8Yfuz9-HAwOPoJLbIcO_sY9zf32hvPRzGeSOzECfMWA,2232
 linkml/utils/validation.py,sha256=eLw1-d8x3N1V14bSc6H_mJJXo59ryKvvUIBcOJ1dVMw,1438
 linkml/validator/__init__.py,sha256=u0CeorIw50Qqwa60-lIFsJXg-sOdfo90hqvLpyvvwo4,4993
-linkml/validator/cli.py,sha256=uVe_tbBzsK-4BNboE5zRyohS_dEs5Nl1gbhklrzOEpw,7605
+linkml/validator/cli.py,sha256=-7_hU787d321z_4pJeUs9dQsM76xpXie9dS-552c7Xs,7683
 linkml/validator/loaders/__init__.py,sha256=FjUqEfBHeT5PEMBEZ9XwpclyQOysr4OCI1M0w_MYPVc,1165
 linkml/validator/loaders/delimited_file_loader.py,sha256=fdh61ZMPTfH29_DM93f5dY0jLP7KQPNh_QAHZppsdNw,2616
 linkml/validator/loaders/json_loader.py,sha256=Qy42naS2clb0fNXbUushckRu5AIX32b3UFUL6KMhxDE,809
@@ -136,15 +144,15 @@ linkml/validator/report.py,sha256=LwFpmJ74Cvsi2CuEDhm1a8nn9x1VI3Z98DbkUZVhKMA,89
 linkml/validator/validation_context.py,sha256=Pmccq-LQ9iEeLyZhamp3mKjjtwp4ji1hIe5TT05AUT4,2732
 linkml/validator/validator.py,sha256=BFgfKdu9Nad2dc9XTpmz9daQTj_FTcvo6mBq3e8fhJs,5649
 linkml/validators/__init__.py,sha256=43W3J5NPKhwa3ZFHLRYsJMocwQKWGYCF9Ki9r0ccGbc,202
-linkml/validators/jsonschemavalidator.py,sha256=_ku7MQGqA6KplbHMiyzDRqgRwwXGloobhLptuXqLCp4,7951
-linkml/validators/sparqlvalidator.py,sha256=JowuZ5KxmWkldgWIXAb8DJi7YCPm8x3it0QkgM4lSi0,4612
+linkml/validators/jsonschemavalidator.py,sha256=LVhBF3Fp4Ltjeaov36duoODxXVXwKqe07SrohH_uzhg,7968
+linkml/validators/sparqlvalidator.py,sha256=KU4Vj-B3i_0Fde0Sn89oqkOVxt1UGW3uI4F6YNoJMTQ,4625
 linkml/workspaces/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 linkml/workspaces/datamodel/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 linkml/workspaces/datamodel/workspaces.py,sha256=4HdkqweGNfMPqnB1_Onc9DcTfkhoagTRcqruh08nRoI,14905
 linkml/workspaces/datamodel/workspaces.yaml,sha256=EjVrwPpeRZqJRjuGyyDRxxFzuv55SiLIXPBRUG6HStU,4233
-linkml/workspaces/example_runner.py,sha256=hDk2RGxRE5-WYNriWknugtbm3Mhn8bFcAcXGMlkYxVk,11705
-linkml-1.8.1.dist-info/entry_points.txt,sha256=7haDkIbyC7ZLhm5z-e3BhrLJpY2xoW1yuD8Y7QPNtVg,2093
-linkml-1.8.1.dist-info/LICENSE,sha256=kORMoywK6j9_iy0UvLR-a80P1Rvc9AOM4gsKlUNZABg,535
-linkml-1.8.1.dist-info/WHEEL,sha256=vVCvjcmxuUltf8cYhJ0sJMRDLr1XsPuxEId8YDzbyCY,88
-linkml-1.8.1.dist-info/METADATA,sha256=-Nk6qRvku2ysnCvxuObK_ILTulyQzPAKyvbbUbzSSfk,3724
-linkml-1.8.1.dist-info/RECORD,,
+linkml/workspaces/example_runner.py,sha256=qrn3EALJsHpyzQXo2npg5oTmMNQTrCjaNIAuMV0P5c8,11720
+linkml-1.8.3.dist-info/entry_points.txt,sha256=jvnPJ8UTca4_L-Dh8OdUm5td8I3ZFlKRhMPjqRLtaSg,2084
+linkml-1.8.3.dist-info/WHEEL,sha256=vVCvjcmxuUltf8cYhJ0sJMRDLr1XsPuxEId8YDzbyCY,88
+linkml-1.8.3.dist-info/LICENSE,sha256=kORMoywK6j9_iy0UvLR-a80P1Rvc9AOM4gsKlUNZABg,535
+linkml-1.8.3.dist-info/METADATA,sha256=riRcN5vHtkNy2v364JshSNmukypRDIFaw0B7JbQuv_E,3731
+linkml-1.8.3.dist-info/RECORD,,

{linkml-1.8.1.dist-info → linkml-1.8.3.dist-info}/entry_points.txt

@@ -18,7 +18,6 @@ gen-owl=linkml.generators.owlgen:cli
 gen-plantuml=linkml.generators.plantumlgen:cli
 gen-prefix-map=linkml.generators.prefixmapgen:cli
 gen-project=linkml.generators.projectgen:cli
-gen-prolog=linkml.generators.lpgen:cli
 gen-proto=linkml.generators.protogen:cli
 gen-py-classes=linkml.generators.pythongen:cli
 gen-pydantic=linkml.generators.pydanticgen:cli
@@ -36,6 +35,7 @@ gen-terminusdb=linkml.generators.terminusdbgen:cli
 gen-typescript=linkml.generators.typescriptgen:cli
 gen-yaml=linkml.generators.yamlgen:cli
 gen-yuml=linkml.generators.yumlgen:cli
+linkml=linkml.cli.main:linkml
 linkml-convert=linkml.utils.converter:cli
 linkml-jsonschema-validate=linkml.validators.jsonschemavalidator:cli
 linkml-lint=linkml.linter.cli:main

linkml/generators/shacl/ifabsent_processor.py

@@ -1,59 +0,0 @@
-import re
-from typing import Any, Callable, Optional
-
-from linkml_runtime import SchemaView
-from linkml_runtime.linkml_model import SlotDefinition
-from rdflib import SH, Literal, URIRef
-from rdflib.term import Identifier
-
-from linkml.generators.shacl.shacl_data_type import ShaclDataType
-
-
-class IfAbsentProcessor:
-    """
-    Processes value of ifabsent slot.
-
-    See `<https://w3id.org/linkml/ifabsent>`_.
-
-    TODO: unify this with ifabsent_functions
-    """
-
-    ifabsent_regex = re.compile("""(?:(?P<type>\w+)\()?[\"\']?(?P<default_value>[^\(\)\"\')]*)[\"\']?\)?""")
-
-    def __init__(self, schema_view: SchemaView):
-        self.schema_view = schema_view
-
-    def process_slot(
-        self, add_prop: Callable[[URIRef, Identifier], None], slot: SlotDefinition, class_uri: Optional[URIRef] = None
-    ) -> None:
-        if slot.ifabsent:
-            ifabsent_match = self.ifabsent_regex.search(slot.ifabsent)
-            ifabsent_default_value = ifabsent_match.group("default_value")
-
-            self._map_to_default_value(slot, add_prop, ifabsent_default_value, class_uri)
-
-    def _map_to_default_value(
-        self,
-        slot: SlotDefinition,
-        add_prop: Callable[[URIRef, Identifier], None],
-        ifabsent_default_value: Any,
-        class_uri: Optional[URIRef] = None,
-    ) -> None:
-        for datatype in list(ShaclDataType):
-            if datatype.linkml_type == slot.range:
-                add_prop(SH.defaultValue, Literal(ifabsent_default_value, datatype=datatype.uri_ref))
-                return
-
-        for enum_name, enum in self.schema_view.all_enums().items():
-            if enum_name == slot.range:
-                for permissible_value_name, permissible_value in enum.permissible_values.items():
-                    if permissible_value_name == ifabsent_default_value:
-                        add_prop(SH.defaultValue, Literal(ifabsent_default_value))
-                        return
-
-        if ifabsent_default_value == "class_curie":
-            if class_uri:
-                add_prop(SH.defaultValue, class_uri)
-            return
-
-        raise ValueError(f"The ifabsent value `{slot.ifabsent}` of the `{slot.name}` slot could not be processed")

linkml/utils/ifabsent_functions.py

@@ -1,138 +0,0 @@
-import re
-from typing import Callable, List, Match, Optional, Text, Tuple, Union
-
-from linkml_runtime.linkml_model.meta import ClassDefinition, SlotDefinition
-from linkml_runtime.utils.formatutils import sfx
-
-from linkml.utils.schemaloader import SchemaLoader
-
-
-def strval(txt: str) -> str:
-    txt = str(txt).replace('"', '\\"')
-    return f'"{txt}"'
-
-
-def default_uri_for(loader: SchemaLoader) -> str:
-    dflt = loader.schema.default_prefix if loader.schema.default_prefix else sfx(loader.schema.id)
-    return sfx(loader.namespaces.uri_for(dflt))
-
-
-def default_curie_or_uri(loader: SchemaLoader) -> str:
-    dflt = loader.schema.default_prefix if loader.schema.default_prefix else sfx(loader.schema.id)
-    if ":/" in dflt:
-        prefix = loader.namespaces.prefix_for(loader.schema.default_prefix)
-        if prefix:
-            dflt = prefix
-    return dflt
-
-
-def curie_for(loader: SchemaLoader, is_class: bool) -> Optional[str]:
-    """Return the Curie for the schema in loader.  Return None if there is no curie form"""
-    prefix = default_curie_or_uri(loader)
-    suffix = "camelcase(self.name)" if is_class else "underscore(self.alias if self.alias else self.name)"
-    if ":/" not in prefix:
-        return '"' + prefix + ":" + '" + ' + suffix
-    else:
-        pn = loader.namespaces.curie_for(prefix, default_ok=False)
-        return ('"' + pn + '" + ' + suffix) if pn else None
-
-
-def uri_for(s: str, loader: SchemaLoader) -> str:
-    uri = str(loader.namespaces.uri_for(s))
-    return loader.namespaces.curie_for(uri, True, True) or strval(uri)
-
-
-def default_ns_for(loader: SchemaLoader, cls: ClassDefinition) -> str:
-    """Return code to produce the default namespace for the supplied class"""
-    # TODO: figure out how to mark a slot as a namespace
-    return "sfx(str(self.id))" if "id" in cls.slots else "None"
-    # cls_id = None
-    # for slotname in cls.slots:
-    #     slot = loader.schema.slots[slotname]
-    #     if slot.identifier:
-    #         cls_id = slotname
-    # return f"sfx(str(self.{cls_id}))" if cls_id else "None"
-
-
-# Library of named default values -- this is here to prevent code injection
-# Contents: Match text (as re),
-#           flag that indicates whether we're generating a default value expression or postinig code
-#           Function that takes the match string, SchemaLoader, ClassDefinition, and SlotDefinition and returns the
-#           appropriate string
-default_library: List[
-    Tuple[
-        Text,
-        bool,
-        Callable[[Match[str], SchemaLoader, ClassDefinition, SlotDefinition], str],
-    ]
-] = [
-    (r"[Tt]rue", False, lambda _, __, ___, ____: "True"),
-    (r"[Ff]alse", False, lambda _, __, ___, ____: "False"),
-    (r"int\(([-+]?[0-9]+)\)", False, lambda m, __, ___, ____: int(m[1])),
-    (
-        r"float\(([-+]?[0-9]*\.?[0-9]+([eE][-+]?[0-9]+)?)\)",
-        False,
-        lambda m, __, ___, ____: float(m[1]),
-    ),
-    (
-        r"date\((\d{4})-(\d{2})-(\d{2})\)",
-        False,
-        lambda m, __, ___, ____: f"date({int(m[1])}, {int(m[2])}, {int(m[3])})",
-    ),
-    (
-        r"datetime\((\d{4})-(\d{2})-(\d{2})T(\d{2}):(\d{2}):(\d{2})Z\)",
-        False,
-        lambda m, __, ___, ____: f"datetime({int(m[1])}, {int(m[2])}, {int(m[3])}, "
-        f"{int(m[4])}, {int(m[5])}, {int(m[6])})",
-    ),
-    # TODO: We have to make the real URI available before any of these can work
-    # ("class_uri", True,
-    #     lambda _, loader, ___, ____: f'"{default_uri_for(loader)}" + camelcase(self.name)'),
-    # ("slot_uri", True,
-    #     lambda _, loader, ___, ____: f'"{default_uri_for(loader)}" +
-    #     underscore(self.alias if self.alias else self.name)'),
-    # ("class_curie", True, lambda _, loader, ___, ____: curie_for(loader, True)),
-    # ("slot_curie", True, lambda _, loader, ___, ____: curie_for(loader, False)),
-    ("class_uri", True, lambda _, loader, ___, ____: "None"),
-    ("slot_uri", True, lambda _, loader, ___, ____: "None"),
-    ("class_curie", True, lambda _, loader, ___, ____: "None"),
-    ("slot_curie", True, lambda _, loader, ___, ____: "None"),
-    # See: https://github.com/linkml/linkml/issues/1333
-    # ("class_uri", False, lambda _, __, class_definition, ____: 'class_class_uri'),
-    # ("class_curie", False, lambda _, __, class_definition, ____: 'class_class_curie'),
-    # ("slot_uri", True, lambda _, loader, ___, slot_definition: f'slots.{slot_definition.name}.uri'),
-    # ("slot_curie", True, lambda _, loader, ___, slot_definition: f'slots.{slot_definition.name}.curie'),
-    # ("default_range", False, lambda _, loader, __, ____: f"{strval(loader.schema.default_range)}"),
-    ("default_range", False, lambda _, __, ___, ____: "None"),
-    ("bnode", False, lambda _, __, ___, ____: "bnode()"),
-    (r"string\((.*)\)", False, lambda m, __, ___, ____: strval(m[1])),
-    (r"uri\((.*)\)", False, lambda m, loader, _, __: uri_for(m[1], loader)),
-    ("default_ns", True, lambda _, loader, cls, ____: default_ns_for(loader, cls)),
-    # ("default_ns", False, lambda _, loader, __, ____: f"{strval(loader.schema.default_prefix)}"),
-]
-
-
-def isabsent_match(
-    txt: Text,
-) -> Union[
-    Tuple[Match[str], bool, Callable[[Match[str], SchemaLoader, ClassDefinition, SlotDefinition], str]],
-    Tuple[None, None, None],
-]:
-    txt = str(txt)
-    for pattern, postinit, f in default_library:
-        m = re.match(pattern + "$", txt)
-        if m:
-            return m, postinit, f
-    raise ValueError(f"Incompatible default value: {txt}")
-
-
-def ifabsent_value_declaration(txt: Text, loader, cls, slot) -> Optional[str]:
-    m, postinit, f = isabsent_match(txt)
-    if m and not postinit:
-        return f(m, loader, cls, slot)
-
-
-def ifabsent_postinit_declaration(txt: Text, loader, cls, slot) -> Optional[str]:
-    m, postinit, f = isabsent_match(txt)
-    if m and postinit:
-        return f(m, loader, cls, slot)