cg 83.16.0__py3-none-any.whl → 83.16.2__py3-none-any.whl

cg/__init__.py

@@ -1,2 +1,2 @@
 __title__ = "cg"
-__version__ = "83.16.0"
+__version__ = "83.16.2"

cg/services/analysis_starter/factories/starter_factory.py

@@ -3,7 +3,9 @@ import logging
 from cg.apps.housekeeper.hk import HousekeeperAPI
 from cg.constants import Workflow
 from cg.meta.archive.archive import SpringArchiveAPI
+from cg.meta.backup.backup import SpringBackupAPI
 from cg.meta.compress import CompressAPI
+from cg.meta.encryption.encryption import SpringEncryptionAPI
 from cg.models.cg_config import CGConfig
 from cg.services.analysis_starter.analysis_starter import AnalysisStarter
 from cg.services.analysis_starter.configurator.configurator import Configurator
@@ -25,6 +27,7 @@ from cg.services.analysis_starter.tracker.implementations.microsalt import Micro
 from cg.services.analysis_starter.tracker.implementations.mip_dna import MIPDNATracker
 from cg.services.analysis_starter.tracker.implementations.nextflow_tracker import NextflowTracker
 from cg.services.analysis_starter.tracker.tracker import Tracker
+from cg.services.pdc_service.pdc_service import PdcService
 from cg.store.store import Store
 
 LOG = logging.getLogger(__name__)
@@ -65,6 +68,13 @@ class AnalysisStarterFactory:
                 data_flow_config=self.cg_config.data_flow,
             )
             compress_api = CompressAPI(
+                backup_api=SpringBackupAPI(
+                    encryption_api=SpringEncryptionAPI(
+                        binary_path=self.cg_config.encryption.binary_path
+                    ),
+                    hk_api=self.cg_config.housekeeper_api,
+                    pdc_service=PdcService(self.cg_config.pdc.binary_path),
+                ),
                 hk_api=self.housekeeper_api,
                 crunchy_api=self.cg_config.crunchy_api,
                 demux_root=self.cg_config.run_instruments.illumina.demultiplexed_runs_dir,

cg/services/run_devices/pacbio/post_processing_service.py

@@ -67,7 +67,7 @@ class PacBioPostProcessingService(PostProcessingService):
         return processing_complete_file.exists()
 
     def can_post_processing_start(self, run_name: str) -> bool:
-        LOG.info(f"Checking if Pacbio post-processing can start for run: {run_name}")
+        LOG.debug(f"Checking if Pacbio post-processing can start for run: {run_name}")
         parent_directory: Path = Path(self.sequencing_dir, run_name).parent
         all_smrt_cells_are_ready: bool = all(
             self.is_smrt_cell_ready_for_post_processing(f"{parent_directory.name}/{smrt_cell.name}")
@@ -76,7 +76,7 @@ class PacBioPostProcessingService(PostProcessingService):
         return all_smrt_cells_are_ready
 
     def is_smrt_cell_ready_for_post_processing(self, run_name: str) -> bool:
-        LOG.info(f"Checking if Pacbio SMRT-cell {run_name} is ready for postprocessing")
+        LOG.debug(f"Checking if Pacbio SMRT-cell {run_name} is ready for postprocessing")
         try:
             run_data: PacBioRunData = self.run_data_generator.get_run_data(
                 run_name=run_name, sequencing_dir=self.sequencing_dir

{cg-83.16.0.dist-info → cg-83.16.2.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: cg
-Version: 83.16.0
+Version: 83.16.2
 Summary: Clinical Genomics command center
 Requires-Python: >=3.11,<3.13
 Classifier: Programming Language :: Python

{cg-83.16.0.dist-info → cg-83.16.2.dist-info}/RECORD

@@ -1,4 +1,4 @@
-cg/__init__.py,sha256=VGXZH8PBR91D3KpgHWvDCflZAEo93QE2i1onU6Ey7cY,41
+cg/__init__.py,sha256=cwaalPaK8wOIsf67PDYF8-DG6vrfh9SlTWBYNVi9TuE,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
@@ -554,7 +554,7 @@ cg/services/analysis_starter/configurator/models/mip_dna.py,sha256=-9wiSIPeqp7Mc
 cg/services/analysis_starter/configurator/models/nextflow.py,sha256=Ug-Kj179TW5hnaCBPJFu9rigbBnmFYSfv02kkItmn2o,610
 cg/services/analysis_starter/constants.py,sha256=69R7TyZWXQlDMowpV87faHcY7zpH5KTTjHLViYadeo8,268
 cg/services/analysis_starter/factories/configurator_factory.py,sha256=CB9iyjaH43cEMQb9_Q9JdHGbLvodEwhhXKZatZhkcEI,12295
-cg/services/analysis_starter/factories/starter_factory.py,sha256=hhM-5pRgklJiQ-vZYEyD0bwZ_v1IcybMfVCeKC_ySR8,6138
+cg/services/analysis_starter/factories/starter_factory.py,sha256=bbU8wWsw_CewuyYLVRG2qxiT-m6PonIMDxHUniwLu7s,6660
 cg/services/analysis_starter/input_fetcher/implementations/bam_fetcher.py,sha256=ttpexbRji6VjlxYi_ayevfjNAtgkV25OQbAV7fagKYA,2530
 cg/services/analysis_starter/input_fetcher/implementations/fastq_fetcher.py,sha256=P2NVYgjLNwnmRsebuVVMUA4_ks-1wx2ALfHBxoucmUg,9676
 cg/services/analysis_starter/input_fetcher/input_fetcher.py,sha256=J0LRB-cvkBUi93k2f8gCYNYwGvmUbJlqosM0bLIkYOc,149
@@ -837,7 +837,7 @@ cg/services/run_devices/pacbio/metrics_parser/__init__.py,sha256=47DEQpj8HBSa-_T
 cg/services/run_devices/pacbio/metrics_parser/metrics_parser.py,sha256=26aAxw4xmBwtkVrSD4bmjThTTLsB6hmJgZEUXrITRW8,3279
 cg/services/run_devices/pacbio/metrics_parser/models.py,sha256=4BTxMv5d5eg2NSoBoZ8EwVqJyGuLTqHacgiSQ3AFL0E,7331
 cg/services/run_devices/pacbio/metrics_parser/utils.py,sha256=Y_Jsj-mnsuVF-iKZ7W1sJAuWqw25ayVonj9ktLHCNfA,3467
-cg/services/run_devices/pacbio/post_processing_service.py,sha256=0NOmLAzF3I2UHbyKDAcEFJL5XykPMBLxs2Dz40J-UTc,3962
+cg/services/run_devices/pacbio/post_processing_service.py,sha256=LYy3IRR48R2V-0azDSK_11kqxkAcla--7uN3uqkVyX8,3964
 cg/services/run_devices/pacbio/run_data_generator/pacbio_run_data_generator.py,sha256=rvNepeIjt2BeZk-CvOpD449jmxceME0npEYAlqIebWg,1902
 cg/services/run_devices/pacbio/run_data_generator/run_data.py,sha256=si-F7CCwmIFoLpb6YaJmxI_SWVxOi2ivmjnxQl3P0nk,268
 cg/services/run_devices/pacbio/run_file_manager/models.py,sha256=C6kycBPx6YKNq2oFJOIhdrcPloi3QIBOrlbaAgeYzgs,192
@@ -923,7 +923,7 @@ 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-83.16.0.dist-info/METADATA,sha256=HzX6a5Bovk5Z1Qn2joM4a-pO_C_CFO6sIJx9jdv9uCs,4940
-cg-83.16.0.dist-info/WHEEL,sha256=3ny-bZhpXrU6vSQ1UPG34FoxZBp3lVcvK0LkgUz6VLk,88
-cg-83.16.0.dist-info/entry_points.txt,sha256=q5f47YQQGltzK_xnIq1mDopRXXEItr85Xe1BCtG-Wts,39
-cg-83.16.0.dist-info/RECORD,,
+cg-83.16.2.dist-info/METADATA,sha256=_QCdGEcZtR-yUxHQqEz8ecQ8KbpJIxe7kYBpXJEDnAs,4940
+cg-83.16.2.dist-info/WHEEL,sha256=3ny-bZhpXrU6vSQ1UPG34FoxZBp3lVcvK0LkgUz6VLk,88
+cg-83.16.2.dist-info/entry_points.txt,sha256=q5f47YQQGltzK_xnIq1mDopRXXEItr85Xe1BCtG-Wts,39
+cg-83.16.2.dist-info/RECORD,,