nmdc-runtime 1.9.0__py3-none-any.whl → 1.10.0__py3-none-any.whl

nmdc_runtime/site/ops.py

@@ -1043,6 +1043,10 @@ def materialize_alldocs(context) -> int:
 
     # Re-idx for `alldocs` collection
     mdb.alldocs.create_index("id", unique=True)
+    # The indexes were added to improve the performance of the
+    # /data_objects/study/{study_id} endpoint
+    mdb.alldocs.create_index("has_input")
+    mdb.alldocs.create_index("has_output")
     context.log.info(
         f"refreshed {mdb.alldocs} collection with {mdb.alldocs.estimated_document_count()} docs."
     )

nmdc_runtime/site/translation/neon_benthic_translator.py

@@ -185,9 +185,7 @@ class NeonBenthicDataTranslator(Translator):
             input_mass=_create_quantity_value(
                 _get_value_or_none(extraction_row, "sampleMass"), "g"
             ),
-            quality_control_report=nmdc.QualityControlReport(
-                status=_get_value_or_none(extraction_row, "qaqcStatus")
-            ),
+            qc_status=_get_value_or_none(extraction_row, "qaqcStatus"),
             processing_institution=processing_institution,
         )
 

nmdc_runtime/site/translation/neon_soil_translator.py

@@ -280,9 +280,7 @@ class NeonSoilDataTranslator(Translator):
             input_mass=_create_quantity_value(
                 _get_value_or_none(extraction_row, "sampleMass"), "g"
             ),
-            quality_control_report=nmdc.QualityControlReport(
-                status=_get_value_or_none(extraction_row, "qaqcStatus")
-            ),
+            qc_status=_get_value_or_none(extraction_row, "qaqcStatus"),
             processing_institution=processing_institution,
         )
 

{nmdc_runtime-1.9.0.dist-info → nmdc_runtime-1.10.0.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: nmdc_runtime
-Version: 1.9.0
+Version: 1.10.0
 Summary: A runtime system for NMDC data management and orchestration
 Home-page: https://github.com/microbiomedata/nmdc-runtime
 Author: Donny Winston

{nmdc_runtime-1.9.0.dist-info → nmdc_runtime-1.10.0.dist-info}/RECORD

@@ -37,7 +37,7 @@ nmdc_runtime/minter/entrypoints/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm
 nmdc_runtime/minter/entrypoints/fastapi_app.py,sha256=JC4thvzfFwRc1mhWQ-kHy3yvs0SYxF6ktE7LXNCwqlI,4031
 nmdc_runtime/site/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 nmdc_runtime/site/graphs.py,sha256=jqfwhrCVUBszt9168au_DVvZBtgIfpUf1OXFiyPHI6U,12304
-nmdc_runtime/site/ops.py,sha256=DchVsC0v7J3noZMhVXUZgSGrm_sC78Y9_z_Nfhuq21E,39632
+nmdc_runtime/site/ops.py,sha256=Rey3H7q7hITI4xsXZ-rWNSGWgtt-65WAVCo4GLqLn3U,39826
 nmdc_runtime/site/repository.py,sha256=ge3LW_5izCgL6x1Ios8z2Hrt--aY6LXqhGjnAjcIJkI,37422
 nmdc_runtime/site/resources.py,sha256=ZSH1yvA-li0R7Abc22_v0XLbjBYf5igETr2G01J3hnc,17557
 nmdc_runtime/site/util.py,sha256=zAY0oIY7GRf63ecqWelmS27N7PVrAXVwEhtnpescBSw,1415
@@ -61,8 +61,8 @@ nmdc_runtime/site/translation/emsl.py,sha256=-aCTJTSCNaK-Koh8BE_4fTf5nyxP1KkquR6
 nmdc_runtime/site/translation/gold.py,sha256=R3W99sdQb7Pgu_esN7ruIC-tyREQD_idJ4xCzkqWuGw,1622
 nmdc_runtime/site/translation/gold_translator.py,sha256=8i5FxrgAG4rLbM0mcCSBaZEzyReht6xwmpm4xeX4HwI,26451
 nmdc_runtime/site/translation/jgi.py,sha256=qk878KhIw674TkrVfbl2x1QJrKi3zlvE0vesIpe9slM,876
-nmdc_runtime/site/translation/neon_benthic_translator.py,sha256=e_7tXFrP0PpdhqUCxXmOaFViSuG36IIMDqyj3FHLcgQ,23069
-nmdc_runtime/site/translation/neon_soil_translator.py,sha256=cJJ_QPva5G5SIT_7DjCSsqbDvgbiKGqUYrxK3nx7_Lw,37634
+nmdc_runtime/site/translation/neon_benthic_translator.py,sha256=p91B5o0MkSGaDDZw2jGQoYfJBqVc6pW7k7l7_0aQIaA,22992
+nmdc_runtime/site/translation/neon_soil_translator.py,sha256=Rc2KptRHORY-MZuNYMNtTTmHKD0c0sUMfMxYylLTJn4,37557
 nmdc_runtime/site/translation/neon_surface_water_translator.py,sha256=6LaFwBnVx6TN9v1D-G6LFrDxY0TK05AvMklx0E1tTeQ,26590
 nmdc_runtime/site/translation/neon_utils.py,sha256=mdxJVPb3zbD4DiKW3Fwgk22kjczKMwkcozvy7fwteTE,5203
 nmdc_runtime/site/translation/submission_portal_translator.py,sha256=aNGIXTiJEXGC_29qWeol2C426bAt5VlY3In_YhplPU0,28169
@@ -73,9 +73,9 @@ nmdc_runtime/site/validation/emsl.py,sha256=OG20mv_3E2rkQqTQtYO0_SVRqFb-Z_zKCiAV
 nmdc_runtime/site/validation/gold.py,sha256=Z5ZzYdjERbrJ2Tu06d0TDTBSfwaFdL1Z23Rl-YkZ2Ow,803
 nmdc_runtime/site/validation/jgi.py,sha256=LdJfhqBVHWCDp0Kzyk8eJZMwEI5NQ-zuTda31BcGwOA,1299
 nmdc_runtime/site/validation/util.py,sha256=GGbMDSwR090sr_E_fHffCN418gpYESaiot6XghS7OYk,3349
-nmdc_runtime-1.9.0.dist-info/LICENSE,sha256=VWiv65r7gHGjgtr3jMJYVmQny5GRpQ6H-W9sScb1x70,2408
-nmdc_runtime-1.9.0.dist-info/METADATA,sha256=6PtNVNbnAQR1l8MWaC6jtXv9YcJzoaoumZkDpvAQ7jE,7302
-nmdc_runtime-1.9.0.dist-info/WHEEL,sha256=Mdi9PDNwEZptOjTlUcAth7XJDFtKrHYaQMPulZeBCiQ,91
-nmdc_runtime-1.9.0.dist-info/entry_points.txt,sha256=JxdvOnvxHK_8046cwlvE30s_fV0-k-eTpQtkKYA69nQ,224
-nmdc_runtime-1.9.0.dist-info/top_level.txt,sha256=b0K1s09L_iHH49ueBKaLrB5-lh6cyrSv9vL6x4Qvyz8,13
-nmdc_runtime-1.9.0.dist-info/RECORD,,
+nmdc_runtime-1.10.0.dist-info/LICENSE,sha256=VWiv65r7gHGjgtr3jMJYVmQny5GRpQ6H-W9sScb1x70,2408
+nmdc_runtime-1.10.0.dist-info/METADATA,sha256=17FQCxBZadSi9xVhFWBaBhRkCEOSsKMQQmM6A_Av1DQ,7303
+nmdc_runtime-1.10.0.dist-info/WHEEL,sha256=GV9aMThwP_4oNCtvEC2ec3qUYutgWeAzklro_0m4WJQ,91
+nmdc_runtime-1.10.0.dist-info/entry_points.txt,sha256=JxdvOnvxHK_8046cwlvE30s_fV0-k-eTpQtkKYA69nQ,224
+nmdc_runtime-1.10.0.dist-info/top_level.txt,sha256=b0K1s09L_iHH49ueBKaLrB5-lh6cyrSv9vL6x4Qvyz8,13
+nmdc_runtime-1.10.0.dist-info/RECORD,,

{nmdc_runtime-1.9.0.dist-info → nmdc_runtime-1.10.0.dist-info}/WHEEL

@@ -1,5 +1,5 @@
 Wheel-Version: 1.0
-Generator: setuptools (73.0.1)
+Generator: setuptools (75.1.0)
 Root-Is-Purelib: true
 Tag: py3-none-any