cg 83.19.0__py3-none-any.whl → 83.20.0__py3-none-any.whl

cg/__init__.py

@@ -1,2 +1,2 @@
 __title__ = "cg"
-__version__ = "83.19.0"
+__version__ = "83.20.0"

cg/constants/scout.py

@@ -120,7 +120,6 @@ RNAFUSION_CASE_TAGS: dict[str, set[str]] = dict(
 
 RAREDISEASE_SAMPLE_TAGS: dict[str, set[str]] = dict(
     alignment_file={AlignmentFileTag.CRAM},
-    d4_file={"d4"},
     vcf2cytosure={"vcf2cytosure"},
     mt_bam={"bam-mt"},
     eklipse_path={"eklipse-png"},

cg/meta/upload/scout/raredisease_config_builder.py

@@ -221,7 +221,4 @@ class RarediseaseConfigBuilder(ScoutConfigBuilder):
             sample_id=sample_id,
             hk_version=hk_version,
         )
-        config_sample.d4_file = self.get_sample_file(
-            hk_tags=self.sample_tags.d4_file, sample_id=sample_id, hk_version=hk_version
-        )
         self.include_reviewer_files(config_sample=config_sample, hk_version=hk_version)

cg/models/scout/scout_load_config.py

@@ -106,7 +106,6 @@ class ScoutRarediseaseIndividual(ScoutIndividual):
     vcf2cytosure: str | None = None
     mitodel_file: str | None = None
     reviewer: Reviewer = Reviewer()
-    d4_file: str | None = None
 
 
 class ScoutCancerIndividual(ScoutIndividual):

cg/store/models.py

@@ -1186,13 +1186,13 @@ class PacbioSequencingRun(Base):
 
     id: Mapped[PrimaryKeyInt]
     run_id: Mapped[Str64] = mapped_column(unique=True)
-    run_name: Mapped[Str64 | None]
+    run_name: Mapped[Str64]
     processed: Mapped[bool] = mapped_column(default=False)
     comment: Mapped[Text] = mapped_column(default="")
     instrument_name: Mapped[RevioNames] = mapped_column(
         types.Enum(*(revio_name.value for revio_name in RevioNames))
     )
-    unique_id: Mapped[Str64 | None] = mapped_column(unique=True)
+    unique_id: Mapped[Str64] = mapped_column(unique=True)
 
     smrt_cell_metrics: Mapped[list[PacbioSMRTCellMetrics]] = orm.relationship(
         back_populates="sequencing_run"

{cg-83.19.0.dist-info → cg-83.20.0.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: cg
-Version: 83.19.0
+Version: 83.20.0
 Summary: Clinical Genomics command center
 Requires-Python: >=3.11,<3.13
 Classifier: Programming Language :: Python

{cg-83.19.0.dist-info → cg-83.20.0.dist-info}/RECORD

@@ -1,4 +1,4 @@
-cg/__init__.py,sha256=4hMPPBeUot_KdOw9KDLt2qAqJgGSZIhsGn2wKZbA-JA,41
+cg/__init__.py,sha256=U84EL-vxvV632Z0nBmzc8wQ5kA2gkFRMbFq-OAJWA20,41
 cg/apps/__init__.py,sha256=pYf0vxo4iYQqURzFRYzqpOCdV8Cm9MWx0GHvJOz0EMg,315
 cg/apps/coverage/__init__.py,sha256=dJtsmNf8tODE2-VEomMIoYA7ugLYZAk_upsfOQCZeF8,27
 cg/apps/coverage/api.py,sha256=e_ozC3QeNKoEfpjjMaL-XjeBLtz-JySWccrtw0E9mLM,2940
@@ -219,7 +219,7 @@ cg/constants/priority.py,sha256=_Le1HDTR2KBNivXp1M9m8VMF2LUC72GkPmCSmkYZsIo,1109
 cg/constants/process.py,sha256=cjNZCCdZHz1EUVvpYPsLGZOdlYb8f8LXmWWRrheHs1Q,100
 cg/constants/report.py,sha256=thQQT55PlSLugp9Wxo_eYCjGnXlIL2XfcO_u3BuhnAc,7114
 cg/constants/sample_sources.py,sha256=_oaA3lM1Mdkf3E1_C8SG1Ll8u3GGbvMMPh-zMfP-dRA,1142
-cg/constants/scout.py,sha256=5aTrB0OxHoUiNA93sYgUnPWIesZYNLnyhNkaUYGRYyw,6234
+cg/constants/scout.py,sha256=6GJh4rcKZloJ_0MOx-qRyMmQrPN7yEuAsH_6-_znXKs,6214
 cg/constants/sequencing.py,sha256=NGWaHVcVTqnYmq3pknotFAFPADRpQi20f-p7Mf1nF1A,1985
 cg/constants/slurm.py,sha256=_Y_InISKpGKT-oVMnES7k7Csz2G1l52MNtJwBZm0prI,313
 cg/constants/subject.py,sha256=EE26Emu6T3_HWvsWeuI5GRGGIvB0BwCjN53KHrsr18U,577
@@ -341,7 +341,7 @@ cg/meta/upload/scout/balsamic_umi_config_builder.py,sha256=wQ5bNfkOWzhIYm7SYaxbw
 cg/meta/upload/scout/hk_tags.py,sha256=DLBmfsFWkCEOlnGgpmSrIqbcUzjWVLWfrFIHgEez-pU,4842
 cg/meta/upload/scout/mip_config_builder.py,sha256=-opmulV2AqA0CX15MzK_ZsqpluL1TexCN2yX8ZZksk0,7345
 cg/meta/upload/scout/nallo_config_builder.py,sha256=qw-71Q5eIXTvnA2-c2rxTX2qMZagGuK6hP_Znw7toFA,6317
-cg/meta/upload/scout/raredisease_config_builder.py,sha256=p6PhWB7ebgDEIOdMjOxLWzCnFLyjt7bpdMiN0QyK3pU,9783
+cg/meta/upload/scout/raredisease_config_builder.py,sha256=EvRu-DWzL_jSG4oavfL6PjVLDhXsKtBXce6C2j0gVn4,9630
 cg/meta/upload/scout/rnafusion_config_builder.py,sha256=Y75Fz7h-pmn0hg0kmD16-MPsJYpPvu71Ucv8XlsMzGQ,3537
 cg/meta/upload/scout/scout_config_builder.py,sha256=SeAb6didBkvk8ZHG_pDVNgX-sCJYxn6Etx2nKbKXYaM,12796
 cg/meta/upload/scout/uploadscoutapi.py,sha256=FJfr-rvTG7chU3y8Z-jmdQISUx_QQ3OsxFdRFM4TLuc,28420
@@ -449,7 +449,7 @@ cg/models/run_devices/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3h
 cg/models/run_devices/illumina_run_directory_data.py,sha256=JGFNQpoiTLGOI6EvOpvqGCDW4IQWnxNo3Vv7IxGY9ng,14287
 cg/models/run_devices/utils.py,sha256=U7-_B9a4_MmWSI2i7vZfsBbOj8VhmaZHBEsLcedp67g,317
 cg/models/scout/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-cg/models/scout/scout_load_config.py,sha256=4CCAAWXxbVb3QpV_TgrIOEdNi5ymUKZ5ERljwajwuqw,7560
+cg/models/scout/scout_load_config.py,sha256=bnKiSLxAy-qOq7-_nLg4m_aE7kcNJLB_NLlkLg7vyxc,7529
 cg/models/scout/validators.py,sha256=lRY5rOs0S4_dfEjaXkspV0XJhIrTA_YQzPM7zLXBlxc,116
 cg/models/slurm/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 cg/models/slurm/sbatch.py,sha256=mSzgvRD6dY6oIO-AkEh95sPu4GpFu4GAuDdvqOadvw8,606
@@ -903,7 +903,7 @@ cg/store/filters/status_panel_filters.py,sha256=qMYhIsrF9G3mjCvL9b9O2l_cmD3SfPWh
 cg/store/filters/status_pool_filters.py,sha256=XcYqe2z5k_q09xpp4cleDMQ4Q3o2y7UPCkB0QUkl1ck,4308
 cg/store/filters/status_sample_filters.py,sha256=mRpt_ik7niMjBo9K7pP8cmdfDMdr0B3I6Tt2MWXkLoc,9656
 cg/store/filters/status_user_filters.py,sha256=sMwKeWqgEtqv8gyhbN_Uf5huPUxbOt5qEqMWVu67Zys,1328
-cg/store/models.py,sha256=CzVK2iW16ygJFWjqIUvkia0j_XwvrYLB9EDy5C_4Xss,44415
+cg/store/models.py,sha256=YTz2rCR8myl_kA-sjOS4Xau2gmY1-ocG6g4W6T1BVT0,44401
 cg/store/store.py,sha256=mz1TfKPlanH2uQyhZdwe_8VKg0IdFolmromKLu668IY,630
 cg/utils/__init__.py,sha256=gGjdV2l_hfWFCTybU6dwDk_FcItM88EIHNPaX6g1qUk,30
 cg/utils/calculations.py,sha256=zLVJO6nNw6n7AW7fHZI56UnQ23lqJrShB4Hh2ow6-TQ,349
@@ -922,7 +922,7 @@ cg/utils/flask/enum.py,sha256=xwNVtFPkSzoloJctLHu7obRyxcng1GJrhkeYkqwf9tw,1052
 cg/utils/mapping.py,sha256=oZpZW2kgsbtAP2FZ7RtRPELiEE1zZk_nAGisHGtCOUo,491
 cg/utils/time.py,sha256=_VOglhrFEZ5cwHK1U1g36SdwzB7UvV-Nvlt4ymuZUho,1501
 cg/utils/utils.py,sha256=RciI_UhWcnG_pMZrmQZ1ZYb-O1N0DweTYMmhE0SIRgQ,1410
-cg-83.19.0.dist-info/METADATA,sha256=-BIIGc9nF6oBbjCJu03ksxN0cbg-f1bhsnABalnt1wg,4940
-cg-83.19.0.dist-info/WHEEL,sha256=kJCRJT_g0adfAJzTx2GUMmS80rTJIVHRCfG0DQgLq3o,88
-cg-83.19.0.dist-info/entry_points.txt,sha256=q5f47YQQGltzK_xnIq1mDopRXXEItr85Xe1BCtG-Wts,39
-cg-83.19.0.dist-info/RECORD,,
+cg-83.20.0.dist-info/METADATA,sha256=pyTGhg9xcSSz96tYt1RQZGZDd5jcWC6KZkBm1RJtK8Q,4940
+cg-83.20.0.dist-info/WHEEL,sha256=kJCRJT_g0adfAJzTx2GUMmS80rTJIVHRCfG0DQgLq3o,88
+cg-83.20.0.dist-info/entry_points.txt,sha256=q5f47YQQGltzK_xnIq1mDopRXXEItr85Xe1BCtG-Wts,39
+cg-83.20.0.dist-info/RECORD,,