cg 80.1.0__py3-none-any.whl → 83.14.0__py3-none-any.whl

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (91) hide show
  1. cg/__init__.py +1 -1
  2. cg/apps/housekeeper/hk.py +1 -1
  3. cg/apps/tb/api.py +1 -1
  4. cg/cli/upload/mutacc.py +16 -3
  5. cg/cli/upload/scout.py +2 -2
  6. cg/cli/upload/utils.py +10 -1
  7. cg/cli/workflow/balsamic/base.py +29 -4
  8. cg/cli/workflow/microsalt/base.py +3 -1
  9. cg/cli/workflow/nallo/base.py +18 -38
  10. cg/cli/workflow/nf_analysis.py +2 -203
  11. cg/cli/workflow/raredisease/base.py +33 -51
  12. cg/cli/workflow/rnafusion/base.py +28 -3
  13. cg/cli/workflow/taxprofiler/base.py +21 -13
  14. cg/cli/workflow/tomte/base.py +17 -19
  15. cg/constants/constants.py +3 -3
  16. cg/constants/devices.py +6 -1
  17. cg/constants/gene_panel.py +3 -1
  18. cg/constants/lims.py +4 -0
  19. cg/constants/orderforms.py +1 -1
  20. cg/constants/pacbio.py +1 -0
  21. cg/constants/scout.py +6 -4
  22. cg/exc.py +12 -4
  23. cg/meta/compress/compress.py +7 -2
  24. cg/meta/delivery_report/nallo.py +1 -1
  25. cg/meta/delivery_report/templates/macros/ticket_system.html +1 -1
  26. cg/meta/observations/balsamic_observations_api.py +1 -1
  27. cg/meta/observations/mip_dna_observations_api.py +1 -1
  28. cg/meta/observations/nallo_observations_api.py +1 -1
  29. cg/meta/observations/observations_api.py +1 -1
  30. cg/meta/observations/raredisease_observations_api.py +1 -1
  31. cg/meta/tar/tar.py +5 -2
  32. cg/meta/upload/coverage.py +5 -5
  33. cg/meta/upload/raredisease/raredisease.py +3 -0
  34. cg/meta/upload/scout/nallo_config_builder.py +14 -0
  35. cg/meta/workflow/nallo.py +22 -95
  36. cg/meta/workflow/nf_analysis.py +11 -262
  37. cg/meta/workflow/raredisease.py +3 -112
  38. cg/meta/workflow/rnafusion.py +2 -34
  39. cg/meta/workflow/taxprofiler.py +2 -38
  40. cg/meta/workflow/tomte.py +2 -42
  41. cg/models/deliverables/metric_deliverables.py +1 -1
  42. cg/models/nallo/nallo.py +14 -64
  43. cg/models/nf_analysis.py +1 -41
  44. cg/models/raredisease/raredisease.py +0 -62
  45. cg/models/rnafusion/rnafusion.py +0 -26
  46. cg/models/scout/scout_load_config.py +1 -0
  47. cg/models/taxprofiler/taxprofiler.py +0 -42
  48. cg/models/tomte/tomte.py +0 -69
  49. cg/resources/nallo_bundle_filenames.yaml +282 -22
  50. cg/resources/raredisease_bundle_filenames.yaml +11 -1
  51. cg/resources/taxprofiler_bundle_filenames.yaml +20 -0
  52. cg/server/admin.py +51 -24
  53. cg/server/app.py +15 -4
  54. cg/server/endpoints/sequencing_run/dtos.py +21 -3
  55. cg/server/endpoints/sequencing_run/pacbio_sequencing_run.py +29 -10
  56. cg/server/endpoints/sequencing_run/pacbio_smrt_cell_metrics.py +20 -0
  57. cg/services/analysis_starter/configurator/configurator.py +1 -1
  58. cg/services/analysis_starter/configurator/file_creators/nextflow/params_file/models.py +40 -1
  59. cg/services/analysis_starter/configurator/file_creators/nextflow/params_file/nallo.py +3 -1
  60. cg/services/analysis_starter/configurator/file_creators/nextflow/params_file/tomte_params_file_creator.py +3 -1
  61. cg/services/analysis_starter/factories/configurator_factory.py +4 -4
  62. cg/services/analysis_starter/tracker/implementations/balsamic.py +4 -1
  63. cg/services/analysis_starter/tracker/implementations/microsalt.py +4 -4
  64. cg/services/analysis_starter/tracker/implementations/mip_dna.py +4 -1
  65. cg/services/analysis_starter/tracker/implementations/nextflow_tracker.py +6 -4
  66. cg/services/analysis_starter/tracker/tracker.py +10 -6
  67. cg/services/illumina/backup/backup_service.py +29 -7
  68. cg/services/orders/validation/constants.py +3 -0
  69. cg/services/orders/validation/index_sequences.py +558 -0
  70. cg/services/run_devices/pacbio/data_storage_service/pacbio_store_service.py +39 -18
  71. cg/services/run_devices/pacbio/data_transfer_service/data_transfer_service.py +8 -2
  72. cg/services/run_devices/pacbio/data_transfer_service/dto.py +9 -3
  73. cg/services/run_devices/pacbio/data_transfer_service/utils.py +14 -7
  74. cg/services/run_devices/pacbio/metrics_parser/models.py +1 -0
  75. cg/services/run_devices/pacbio/sequencing_runs_service.py +35 -7
  76. cg/services/sequencing_qc_service/quality_checks/checks.py +18 -16
  77. cg/services/sequencing_qc_service/quality_checks/utils.py +82 -18
  78. cg/services/sequencing_qc_service/sequencing_qc_service.py +12 -10
  79. cg/store/crud/create.py +73 -42
  80. cg/store/crud/read.py +50 -2
  81. cg/store/crud/update.py +14 -3
  82. cg/store/models.py +88 -31
  83. cg/store/store.py +8 -1
  84. {cg-80.1.0.dist-info → cg-83.14.0.dist-info}/METADATA +1 -1
  85. {cg-80.1.0.dist-info → cg-83.14.0.dist-info}/RECORD +91 -90
  86. /cg/services/analysis_starter/configurator/file_creators/nextflow/sample_sheet/{nallo.py → nallo_sample_sheet_creator.py} +0 -0
  87. /cg/services/analysis_starter/configurator/file_creators/nextflow/sample_sheet/{raredisease.py → raredisease_sample_sheet_creator.py} +0 -0
  88. /cg/services/analysis_starter/configurator/file_creators/nextflow/sample_sheet/{rnafusion.py → rnafusion_sample_sheet_creator.py} +0 -0
  89. /cg/services/analysis_starter/configurator/file_creators/nextflow/sample_sheet/{taxprofiler.py → taxprofiler_sample_sheet_creator.py} +0 -0
  90. {cg-80.1.0.dist-info → cg-83.14.0.dist-info}/WHEEL +0 -0
  91. {cg-80.1.0.dist-info → cg-83.14.0.dist-info}/entry_points.txt +0 -0
@@ -1,4 +1,4 @@
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- cg/__init__.py,sha256=YobSqiQ4Vdn_h9OWmLHEtEKCVgYWEmH3hB3a13nkMKw,40
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+ cg/__init__.py,sha256=RgHAoKbllDMi7ckyAB45aoTMtNGv5zZDVucQHnz9MkM,41
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  cg/apps/__init__.py,sha256=pYf0vxo4iYQqURzFRYzqpOCdV8Cm9MWx0GHvJOz0EMg,315
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  cg/apps/coverage/__init__.py,sha256=dJtsmNf8tODE2-VEomMIoYA7ugLYZAk_upsfOQCZeF8,27
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  cg/apps/coverage/api.py,sha256=e_ozC3QeNKoEfpjjMaL-XjeBLtz-JySWccrtw0E9mLM,2940
@@ -31,7 +31,7 @@ cg/apps/hermes/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  cg/apps/hermes/hermes_api.py,sha256=CEes3Iq10siYMddcpXGy7kRONWkzQAJUFTcz-FxCL_E,3059
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  cg/apps/hermes/models.py,sha256=sbutAX_bNCbh-hLwnpjqV01rq3AdbJel-NcGOBiCJAw,1298
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  cg/apps/housekeeper/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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- cg/apps/housekeeper/hk.py,sha256=jiSPL5RZ8h992DWnNVoK5rMBAcmQMZV-2yGP9v4QnqQ,28635
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+ cg/apps/housekeeper/hk.py,sha256=J8ZERed6J5mzbNHikCqo2hH6gnc4MYCdJHjUJZJQlEs,28642
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  cg/apps/housekeeper/models.py,sha256=rmR_8QHESsWkn5hbqnRtAtVje_M7YK33YkdG781KIY0,326
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  cg/apps/invoice/__init__.py,sha256=1YWal0E1HPO5sdLOj9_JUwL_17Z2DSj7iJV5kEd8Q-4,32
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  cg/apps/invoice/render.py,sha256=2U93Sdak_8v0j56qZLdcvBeofWO0ppiUqKNAaaCLCsU,4970
@@ -63,7 +63,7 @@ cg/apps/slurm/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  cg/apps/slurm/sbatch.py,sha256=nTvXFGR2hkgMUkc_dvfvOV_p2QqBHOyQzXXG5cOzZyg,1312
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  cg/apps/slurm/slurm_api.py,sha256=WB-z8h5ueDnXn2H9atx6qPrVt_mDTKNDzIhxTHgFWDU,4011
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  cg/apps/tb/__init__.py,sha256=qHZbz8gBX_o2KU3DLHccCN2CuedR6_IJlELAnv9oEBs,32
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- cg/apps/tb/api.py,sha256=fjQsFep3pj1L75E2ABu-4wxEROtocjeV-MGt9vpptgQ,9742
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+ cg/apps/tb/api.py,sha256=FvkQn0Gg90LgKiKk83_w8JesG0crqyOvGL4IjKIsUuQ,9749
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  cg/apps/tb/dto/create_job_request.py,sha256=ZTL491KYxBQu_nXxcl6hpuSsbM9mufjmWtE62_0RAL8,152
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  cg/apps/tb/dto/summary_response.py,sha256=jwE1Pz0WAuKrytYdKX_VNLA_THEuKLr_JLb3CDwJA0g,929
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  cg/apps/tb/models.py,sha256=I88cKRuBns3dD2eFmPccRrk1eSQysbi9u3UYTWLjnOw,1305
@@ -121,7 +121,7 @@ cg/cli/upload/fohm.py,sha256=vGsSgKS_5jUoCTO8nD8aW4pEP5hExXdno5xFmz4avBs,3871
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  cg/cli/upload/genotype.py,sha256=Eu3IVrYSlM8rmwEXHiDD5Ai6fBjGQliBeg4vSFt5AFk,1488
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  cg/cli/upload/gens.py,sha256=gUki1iCS3swqTaZChRNLKoFNw2dIeCnMxfBXiAQS6Ow,1929
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  cg/cli/upload/gisaid.py,sha256=AS-dsBYH8ECPiop77MXUqosVqtUD1LpnFAr0BnybChM,598
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- cg/cli/upload/mutacc.py,sha256=0zIxEPcBSXD92AzMT87YxyafAuzEBC15NeieYzTcak4,2709
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+ cg/cli/upload/mutacc.py,sha256=46f0NSEPIfXChnxqSuPeuYrcKuapEY5o-1IMS4Q9KCk,2963
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  cg/cli/upload/nipt/__init__.py,sha256=r1bbsGXlNU2acSs7A-g6cyLtYkVS_NqT-Q_Lx52EbqA,23
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  cg/cli/upload/nipt/base.py,sha256=U_3tS2T1Lm7_9Ff0tTBA4GlcoCsZxWUb7qjIZe50gDo,2907
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  cg/cli/upload/nipt/ftp.py,sha256=M5ukDNEr4wMNX8Lga6ogsH8kuVsPqBb6ARNKoAeXkZk,2284
@@ -129,13 +129,13 @@ cg/cli/upload/nipt/statina.py,sha256=k2NaQZdi36IIPNmI5wVdejfnWRYQAS1yLrm2C-evU6o
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  cg/cli/upload/observations/__init__.py,sha256=MVG3J0JFrq9aUmssbQccuN4laZsM89Lq7w1Lri1M6jU,112
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- cg/cli/upload/scout.py,sha256=ig8uwDoGTjXRf2ugrgCy4KRbe4e2VkACdF3MFCRWFiM,12882
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- cg/cli/upload/utils.py,sha256=NhTv9Wj7BfZLvY78PqCBaar9T4gstc_fOzM5s4s_09k,991
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+ cg/cli/upload/scout.py,sha256=JwohPrXn_IqiEg2fRPhSy_cj5TlkiEmXR25AbmAfdIw,12898
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+ cg/cli/upload/utils.py,sha256=TFy3AuzYyGgc5aLDgRcSZaBlwSI_9QVzezTxdDqNAoI,1361
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  cg/cli/workflow/__init__.py,sha256=4xTXHLYwUADGjWrKlEy6-DacN5tWiD0yG-XunG9R324,18
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  cg/cli/workflow/balsamic/__init__.py,sha256=tAp9BLY37Gsg-jvTdgUEoP8lnaHW4I61tXfHsBFkLpk,22
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- cg/cli/workflow/balsamic/base.py,sha256=l6UqVKnOO6PWQffGVzc-N89yfu6YUR42XyN0mcpQl4I,7123
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+ cg/cli/workflow/balsamic/base.py,sha256=Eku6FROfv8XUAAMnt3F594BRuhhnU-GXVxeLMKzkf1I,7546
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@@ -146,7 +146,7 @@ cg/cli/workflow/fluffy/base.py,sha256=XXX36oAswkfHYObttjut9snc6Z4cHZVVk-K5vWf0oN
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  cg/cli/workflow/jasen/__init__.py,sha256=tAp9BLY37Gsg-jvTdgUEoP8lnaHW4I61tXfHsBFkLpk,22
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  cg/cli/workflow/microsalt/__init__.py,sha256=tAp9BLY37Gsg-jvTdgUEoP8lnaHW4I61tXfHsBFkLpk,22
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- cg/cli/workflow/microsalt/base.py,sha256=8HeH8B_PZwefMGDQXRNpN0T-ZDi5-zxY8XVOQOIoycM,3975
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+ cg/cli/workflow/microsalt/base.py,sha256=90SkQ_WVb6-lyO0zYy0dYE9OPO6eMYDKn6Vam2hBF-Y,4000
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@@ -157,18 +157,18 @@ cg/cli/workflow/mip_rna/base.py,sha256=G6O77Y4DB5eV3Oc5Ktd9vkwH_aMeehnmGT-EDQUX4
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- cg/cli/workflow/nallo/base.py,sha256=wDkLCcTR7x93HsTvadAdVTC4GY20YfE4uhZWYY4M2Jw,4523
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- cg/cli/workflow/nf_analysis.py,sha256=m_ZG4wrZG_ty6R-KQy6wXM7D3_N2WRuxB7e2mdtwI-k,10040
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+ cg/cli/workflow/nallo/base.py,sha256=lvk_w7rlntVSPSZPldQbzRC9USTLsn2jM2EUfa8E8II,3721
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+ cg/cli/workflow/nf_analysis.py,sha256=G1RoCScNazZX0ZrUNEdBQlYLxy0v27p_u65rZUTUYns,4437
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+ cg/cli/workflow/raredisease/base.py,sha256=JMqm3nui3nDLpHunIEv58w8qYfxhvUlDl5CuYqeILmo,3896
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- cg/cli/workflow/tomte/base.py,sha256=Z_epmznlbRanjTUQLQLxzCHebN8YDxj2csX9fivbnlQ,4048
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+ cg/cli/workflow/taxprofiler/base.py,sha256=VPxsm2E6OSmZd040yVeQL5XYulN2IK8CWlwBJ_CCUIs,3952
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@@ -194,24 +194,24 @@ cg/constants/archiving.py,sha256=_M4-9mu_d5PpZLdnvYTxGDKR-YwQNl6GxP05AM9XIPs,253
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- cg/constants/constants.py,sha256=nht2wlivbJ9uXgLsvkjIliNtTM2wQYA_G0BBArjmrFQ,6830
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+ cg/constants/constants.py,sha256=REhV4-snyfivwtVp53eYsxJ2Rz7PlAxUUEHb5LSmMe0,6815
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+ cg/constants/orderforms.py,sha256=pLD_ufw11aE-Fn4x87el3F_KRITi2lbrgpBYU7eJgpM,2362
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+ cg/constants/pacbio.py,sha256=tn8bOlv2qbN2Vvcx0cQW_5lO9jifxcBGKEIPdpc1H3w,4816
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@@ -219,13 +219,13 @@ cg/constants/priority.py,sha256=_Le1HDTR2KBNivXp1M9m8VMF2LUC72GkPmCSmkYZsIo,1109
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+ cg/exc.py,sha256=IYYRa6saq17OT8pA_PBdiorf2XyXTaxNV20JBkdx8QE,8418
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@@ -252,7 +252,7 @@ cg/meta/clean/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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@@ -262,7 +262,7 @@ cg/meta/delivery_report/balsamic_umi.py,sha256=h4zOcwFdqnec6dQJZWwhJ2ak3VTy4Bd32
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+ cg/meta/delivery_report/nallo.py,sha256=A30SZhzjf8bOrbpyUFf0u1pMpkLtr3YUWhiLYuUaLaA,5356
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@@ -279,7 +279,7 @@ cg/meta/delivery_report/templates/macros/data_analysis/qc_metrics/tomte_qc_metri
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- cg/meta/delivery_report/templates/macros/ticket_system.html,sha256=0OfdSDsiLeg0FLmCK6PQ493E1Yw_ZM0p01OtJtK5DzY,472
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+ cg/meta/delivery_report/templates/macros/ticket_system.html,sha256=LpOEgMgnmXTjbKThpRvpcKPOFv5_rRcwBfY57uhwxGQ,468
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@@ -298,15 +298,15 @@ cg/meta/encryption/sbatch.py,sha256=gBtQyWseBgdWIdEyldTE-x_rTh_6tKh8S2Mx00jG6vU,
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- cg/meta/observations/balsamic_observations_api.py,sha256=4G2Fmm3AtRDsOH6698zI1ySAEWdtLKRMQ3XZn8WbDxU,11189
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- cg/meta/observations/mip_dna_observations_api.py,sha256=n-HY2hKK55SJhuqYwA_yHfm8g0zWD2gtlC9n1WRgGwM,6506
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- cg/meta/observations/nallo_observations_api.py,sha256=EOzHG7qsJ1gQOu37AVUNLd-9zjm1_2CFpR1srzI0IyY,5947
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- cg/meta/observations/observations_api.py,sha256=fc4W7_wtcIvJNf1VB37n3NZJSZaCsdBmps59hh-sa_U,7324
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- cg/meta/observations/raredisease_observations_api.py,sha256=3oTHqz0Ca_j35pR-ZmzveMjIIqYr3ln-PTnZRBLHUpk,6563
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+ cg/meta/observations/balsamic_observations_api.py,sha256=PHegyJUs0kWwe3peD1mKveodHGL4PW8RFY_fR7TAGWY,11193
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+ cg/meta/observations/mip_dna_observations_api.py,sha256=0TL2XRcVTQ7DjvbAaf6GM6BN-VBxcy3mTDcBSviwMtU,6510
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+ cg/meta/observations/nallo_observations_api.py,sha256=HglTxbMBp3VpwPsZiaN84qCNZddBPKJyEiNTsLkqgsw,5951
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+ cg/meta/observations/observations_api.py,sha256=5Wvtpz1sAzS2rpS6wqUg-Qfe6PIqaQZ0HOBkj0MiFe8,7328
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+ cg/meta/observations/raredisease_observations_api.py,sha256=oAk0qbZxF1vpTJgCGfDuCKFJEkPIdp16cgqzY7JWSw0,6567
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- cg/meta/tar/tar.py,sha256=hyvhPHp6yYt2gJ5krDY-oqmjo-gztFLUE9Ug5qVlQmE,1694
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+ cg/meta/tar/tar.py,sha256=DW2TAEBdqTGzfAC94X3y6cIPsPrurfytgy_h-HFVXH0,1920
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  cg/meta/transfer/lims.py,sha256=ZWtfCVlAzIKTOaYEH7wsZzURpN3PUiRwi584QBoeAtg,6992
@@ -314,7 +314,7 @@ cg/meta/transfer/utils.py,sha256=h6XlN1Wz4nIl8HDM1MxOhuyttU0UsM61MvwjGVfVZlA,503
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- cg/meta/upload/coverage.py,sha256=A9VmsLx8Ox7JFyKjB6MzGr-7qJOZ5m8YRvZ8-RrXZmE,2269
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+ cg/meta/upload/coverage.py,sha256=jrjeJbiaG_03AMt22j5_DZfwU9EI_NY42sEci6q0Wk0,2268
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@@ -334,13 +334,13 @@ cg/meta/upload/nf_analysis.py,sha256=ToL9ekQArFY0x9ACyzwlITBwfrkpzSWrpOtOZF4apV0
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  cg/meta/upload/nipt/__init__.py,sha256=figc4VgYuh7GNBigeyEQpmj7Ayf9-AL0HN1GsKxn4zs,32
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- cg/meta/upload/raredisease/raredisease.py,sha256=rEEWM6B9KvwQVtMIj260AYU3fDHDnYCe5ooO7MP8src,2078
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+ cg/meta/upload/raredisease/raredisease.py,sha256=e-ql2t_prT1UnUR7_3JbevbQysC-9N_x6LZ_MC7kkM4,2194
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- cg/meta/upload/scout/nallo_config_builder.py,sha256=98cmFuSb5-GfBbd4D9Eq-W1-s3vRLK2gNFTOmO_1WAg,5750
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+ cg/meta/upload/scout/nallo_config_builder.py,sha256=qw-71Q5eIXTvnA2-c2rxTX2qMZagGuK6hP_Znw7toFA,6317
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@@ -383,14 +383,14 @@ cg/meta/workflow/mutant/quality_controller/quality_controller.py,sha256=JMMCZHBj
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- cg/meta/workflow/nallo.py,sha256=sRD2Ti5LRq739N1RK8hdAlqtxIfnKf4_HRTpW8_n_04,13305
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- cg/meta/workflow/nf_analysis.py,sha256=sVS5VVOumllMi5kSLNMVUx9hbenskDp4lZhYkPxIRJ0,41755
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+ cg/meta/workflow/nallo.py,sha256=PFwG1gvA7pNqFzDA79AdOwk0udxknVdyG-1oGZwaAgI,10163
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+ cg/meta/workflow/nf_analysis.py,sha256=5M8IzSp0jXrBUDX46Tp1YFDefZtCNDhW9hDCyNmhVpw,30787
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- cg/meta/workflow/raredisease.py,sha256=in5mArFniOpkCXmbIua4fOmzVPigVuXCJwUGfVxCAmE,13938
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- cg/meta/workflow/rnafusion.py,sha256=7OdmDm66ytZm9l0XMDlAKmrQ7uZw2XolOB3bQhjWiPk,5060
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- cg/meta/workflow/taxprofiler.py,sha256=0MvXW9PRi5w7oXCN_P8Uct1816CwyyfgnHIM9KLa7Ro,4657
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- cg/meta/workflow/tomte.py,sha256=dKmOsOiL_UEYetzslz7QmHzEnKt0avkwhXFeANWlDRQ,4196
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+ cg/meta/workflow/raredisease.py,sha256=XhlgCPSx-MmzDdpXrLY__vKl2f8np_1JuIIwwQKI-7c,9038
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+ cg/meta/workflow/rnafusion.py,sha256=S8Pxq9eKN4Bm0U5pPh8Qi3I3eTBYRySdR7S8M6SVb-g,3782
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+ cg/meta/workflow/taxprofiler.py,sha256=SojjfA9dKsfzf_PNpPf3tG2z8M0cO5Fe4b45l4fXsgo,3185
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+ cg/meta/workflow/tomte.py,sha256=VstaJTpe-mCTitzvXcxAVXJ_JpH-icfPK1qN7zMsfHE,2473
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@@ -401,7 +401,7 @@ cg/models/balsamic/metrics.py,sha256=wtPulyNkfEvKBo742kIsfqRP88-_TBfeWNesh4ezsVI
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  cg/models/cg_config.py,sha256=LG6gNvXm4a_Gg7nDnwucb8kerbqvoFckXOcz7CsCpas,25839
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  cg/models/compression_data.py,sha256=io1XjIsvlqsVpEZy_jN2XveEYzApPdBbAMs2xcld4Ao,11741
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  cg/models/deliverables/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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- cg/models/deliverables/metric_deliverables.py,sha256=V4iuXvIZwC5ruHJH4nuEZYMRQKUZZzzV90a0TQvhMrk,5478
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+ cg/models/deliverables/metric_deliverables.py,sha256=nWNhlN0I_xbjp43522Uv8yfN0sCCcEqa7S4infIh8HA,5488
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  cg/models/delivery/delivery.py,sha256=pRceljBMte5kwTR-YTwP8gn8xIs8ZDesoHc2a00Y9PY,243
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  cg/models/delivery_report/metadata.py,sha256=DgSDwxNoSop6kf8SRO1zMj80QyT-YSQ_8gmVgL8m95Y,11443
@@ -427,8 +427,8 @@ cg/models/mip/mip_config.py,sha256=8GiTehsEKcEXWaMcWAo715L7fdOpvp8GIIEeWjJxBlU,1
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  cg/models/mip/mip_metrics_deliverables.py,sha256=WfnRQkNj8CIsI4EBXnPW2OuOd4394aRgMBsyAq5FhsI,5216
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  cg/models/mip/mip_sample_info.py,sha256=DM6tSwajQ-Cxf0peROiryYifFMCMHuD_jeZu39Q0-18,2550
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  cg/models/nallo/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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- cg/models/nallo/nallo.py,sha256=qCDnbAZpKF4lCB4Nh_kc1fGVs5R1zNKXFYrcK7huc-Q,2068
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- cg/models/nf_analysis.py,sha256=RrzYRBp_qQnWkAPJdLR5gWEBvLE2RGkCh29_H_DFzZw,2649
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+ cg/models/nallo/nallo.py,sha256=7oUCkDQyuRxvbsct1IItzfEtQnHvZdpTRiwt41EOoIo,727
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+ cg/models/nf_analysis.py,sha256=ZWloZxpyyMrwsDVbawEWTh28ywfL143WGX86gDeCebw,1158
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  cg/models/observations/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  cg/models/orders/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
@@ -443,32 +443,32 @@ cg/models/orders/validators/json_sample_validators.py,sha256=jMs5usnunUmEk6nnnK0
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  cg/models/orders/validators/sample_base_validators.py,sha256=4B3Bw569JqijlEw1_q6eMgUS1e48v-6yGVDtKhhbW5E,71
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  cg/models/qc_metrics.py,sha256=9GzwXG5IhGKb8X7pvwGt1iIyGQqTw_AFEPMhCUyPkas,98
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  cg/models/raredisease/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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- cg/models/raredisease/raredisease.py,sha256=Bu_zdHWBsaUpcoPVDhgodDYFo80IzVbpD-QnGYefB3s,2079
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+ cg/models/raredisease/raredisease.py,sha256=hjHYjxoMmPg7ourfpcTWNWNbbWYqGlaFsLFkAmM0DAU,279
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  cg/models/rnafusion/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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- cg/models/rnafusion/rnafusion.py,sha256=Pd9x63lr54ZNITi5bq_5UOeCeGwZoZCKpi7T-ufi67Y,1511
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+ cg/models/rnafusion/rnafusion.py,sha256=hM-9jFeIiUgy7BN5lfr39CtgClVZigd2z1NtpWq9kg0,548
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  cg/models/run_devices/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  cg/models/scout/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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- cg/models/scout/scout_load_config.py,sha256=Vi7kRLlJt7aDuhWXmKK6OLcmN25lodEWUswz91FkVZY,7496
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+ cg/models/scout/scout_load_config.py,sha256=4CCAAWXxbVb3QpV_TgrIOEdNi5ymUKZ5ERljwajwuqw,7560
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  cg/models/scout/validators.py,sha256=lRY5rOs0S4_dfEjaXkspV0XJhIrTA_YQzPM7zLXBlxc,116
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  cg/models/slurm/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  cg/models/slurm/sbatch.py,sha256=mSzgvRD6dY6oIO-AkEh95sPu4GpFu4GAuDdvqOadvw8,606
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  cg/models/taxprofiler/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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- cg/models/taxprofiler/taxprofiler.py,sha256=awZFrXcRERuOfv2RE5iyYXLEV0T9e5Tw04962PkQU2k,1758
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- cg/models/tomte/tomte.py,sha256=KFuwSWjBINaTtIGByclH5WSTo2h8nbVoA-23B_pO5WY,2704
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+ cg/models/taxprofiler/taxprofiler.py,sha256=fGAb9Iqv2zMuXpcEInlMUSK8wtbndzjkMEoxTzVcofU,394
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+ cg/models/tomte/tomte.py,sha256=QnUBnW14Emey4Crr0m6_yIFE2RlEFCU0vKt_ehRyBBA,571
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  cg/models/workflow/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  cg/models/workflow/mutant.py,sha256=Y5cwG7UninrAWCn6R9rTNhSDAkDprCebCilyCBlPIcY,685
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  cg/models/workflow/validators.py,sha256=BzbmB9QVDjM1C_7F874PR0QD6xhCZvDG01ItITmFy_s,70
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  cg/resources/__init__.py,sha256=mRMKpOEL-NO4JEzQsjTrtDFf8toOtBXK0BhDbPnZGVE,1247
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- cg/resources/nallo_bundle_filenames.yaml,sha256=g7xerK_EGNi23YyKoHgIq4BeLbX260qCTi8RBbTAt00,8506
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- cg/resources/raredisease_bundle_filenames.yaml,sha256=gk8mlWv7UzdJ76CRk_huwdf69SRqmjMfgfz_84y5d4Q,25040
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+ cg/resources/nallo_bundle_filenames.yaml,sha256=pjJaBgtZtsYAqd-sQ1bCq365u9fcsoN0Gn34JjDduJE,16724
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+ cg/resources/raredisease_bundle_filenames.yaml,sha256=IN8QDcYQNxFVWghvSNLJ2-Udsd5ts3uBqD9rnJGj4kg,25278
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  cg/resources/rnafusion_bundle_filenames.yaml,sha256=hoXuTobKbjH7W7dld87rSF7X0r4KxLXuUllX0ISDDXU,3281
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- cg/resources/taxprofiler_bundle_filenames.yaml,sha256=trZb4JUyoSkTeuzjHZn7qbZCxelMcnc6b2Jj3bIcIWc,2291
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+ cg/resources/taxprofiler_bundle_filenames.yaml,sha256=AULMEAYkMzADYUtVtuSmBj7UaAIlLGRDyBMEOO0xWz8,2871
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  cg/resources/tomte_bundle_filenames.yaml,sha256=lFxk9GssmCyKBUn5lbRBtBS9FS9cABaoVzb-e2zrJac,4144
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  cg/server/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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- cg/server/admin.py,sha256=cRclug4zq78vstG_6cNgBbn3doyflhznpfroIK3nAUI,29298
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- cg/server/app.py,sha256=ufgvwwmR2rmJUxb0L7jk8C8SLMWUuYC-X8j7NW1SWCw,6656
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+ cg/server/admin.py,sha256=cC2PZXGguuCtodhajx5mLe223-WNsJ24iK99SpAc138,29913
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+ cg/server/app.py,sha256=WEULzx5JeC0aJHag3Vltzopd8r7tgHPr_1nbytS-AI8,6975
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  cg/server/app_config.py,sha256=8DaNtYtdp6A29FAuTFX-Lk7SLv7Zx-_f57ZU0-T_3ZI,1403
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  cg/server/auto.py,sha256=5DqokNScv483imZTvOYrJo6wV9-P7ZGnJaaHnfnNJLs,57
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  cg/server/dto/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
@@ -498,8 +498,9 @@ cg/server/endpoints/sequencing_metrics/dtos.py,sha256=DXh9xFLrS0RQIxHrkAZa71AkcL
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  cg/server/endpoints/sequencing_metrics/error_handler.py,sha256=rVASP7uk1qSA5qu__-JcSZ6vXpBy3s7n4GdBVg0zAUA,758
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  cg/server/endpoints/sequencing_metrics/illumina_sequencing_metrics.py,sha256=IvXMH2KIeOH98lJkaFLPFIRj7j6uW3oBaJZozQ5Tva0,810
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  cg/server/endpoints/sequencing_metrics/pacbio_sequencing_metrics.py,sha256=iglo2cOYSPuK4HAWH4XPGLgbZOst2spdB7A6mQ8th8g,1218
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- cg/server/endpoints/sequencing_run/dtos.py,sha256=_6ya8EwpcVKGZGTR2d28riIl-MQoYU4H0iM_gStQ5PY,652
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- cg/server/endpoints/sequencing_run/pacbio_sequencing_run.py,sha256=Fn8sRhwJ7M2gHmqK7pAg92fA8pKPg89581kuwt0MFW8,800
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+ cg/server/endpoints/sequencing_run/dtos.py,sha256=ezs1TW0XyKO8gYyRreq6iQsFwLtgV8tzO96fzXT6kWg,1023
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+ cg/server/endpoints/sequencing_run/pacbio_sequencing_run.py,sha256=HvV7EPwrh_xe5ZjerQYoBK-bIdKLBZ1nk16whGSDAmw,1524
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+ cg/server/endpoints/sequencing_run/pacbio_smrt_cell_metrics.py,sha256=FVETf-KUghGbb7KGO2sDYWISp3Z9gnublo-9ekQHUuk,819
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  cg/server/endpoints/users.py,sha256=48z9Si2EuJ6wcN8jBIr0yvmtgygozYgUIytyFuTzFao,696
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  cg/server/endpoints/utils.py,sha256=RjhrcBqY3Mfg_hZIeXr6SfmCTu4FMpan-n5UNDjOeMg,2251
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  cg/server/ext.py,sha256=rQIv4qKS_N5whB158SGa2FZp-JuGDaUydCBjGhAxaOE,3923
@@ -516,7 +517,7 @@ cg/services/analysis_service/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NM
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  cg/services/analysis_service/analysis_service.py,sha256=vqT_f83Bf1hZ69HvfXwbR5FNqjh67nYTndWE0Rlr030,2041
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  cg/services/analysis_starter/analysis_starter.py,sha256=r2fH5AXhVW8Pt1zHgAE2x6HegNgcZRPmXc5GpNNL3c8,3010
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  cg/services/analysis_starter/configurator/abstract_model.py,sha256=S1g5VZJ_cnM8QdDe3AeHlUqq8iO9Fykp8Q80X2_6PvM,374
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- cg/services/analysis_starter/configurator/configurator.py,sha256=_B5kf-4axj9hUxvVujLfvOHxWFAvz5zYcp55o1iPon4,911
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+ cg/services/analysis_starter/configurator/configurator.py,sha256=ZgELQu9dQPt_42EwcEbLNPsvaLP58xOrfAVSXFiTZSA,943
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  cg/services/analysis_starter/configurator/extensions/nallo.py,sha256=lsqFyzbdUmOgAuB_OKM-Zeyzq1cNiaekjwD5icY1_Nk,1111
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  cg/services/analysis_starter/configurator/extensions/pipeline_extension.py,sha256=Cc7eFgXJpvwYH7c39mMbAmTVHwohpDdCV9tJ5UIm1SI,349
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  cg/services/analysis_starter/configurator/extensions/raredisease.py,sha256=FlU1wLLzowVWeC3d4r_HZiD9m5au-XsqRu9uEIL-j7M,1802
@@ -528,19 +529,19 @@ cg/services/analysis_starter/configurator/file_creators/microsalt_config.py,sha2
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  cg/services/analysis_starter/configurator/file_creators/mip_dna_config.py,sha256=318Mi_lnNMHPuRDrp6uNJwyUk8NdD0V0Nj8kr5XfD8s,3598
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  cg/services/analysis_starter/configurator/file_creators/nextflow/config_file.py,sha256=H47fnJ3HSGSRKs8F8Y8-H4RxYJkZ_BeCyfzgyB4K_Wo,1523
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- cg/services/analysis_starter/configurator/file_creators/nextflow/params_file/models.py,sha256=bu6OEMxnCJoswgrwUVPeAap-2FUktvRyD1KPqGZ1TD4,507
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- cg/services/analysis_starter/configurator/file_creators/nextflow/params_file/nallo.py,sha256=cE9pLChKEJlbjPqYShNU8cUgnJChMY52FkLqAq2-mio,1489
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+ cg/services/analysis_starter/configurator/file_creators/nextflow/params_file/models.py,sha256=1g2wY71TM0VlstNjNLSh_-BaIvgmqNNBkpGTw0hHLsg,1574
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+ cg/services/analysis_starter/configurator/file_creators/nextflow/params_file/nallo.py,sha256=PwCO-LhUtY5fb5zuXT_Lt1-eazENDt9DZbA7sN7Sv10,1560
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  cg/services/analysis_starter/configurator/file_creators/nextflow/params_file/raredisease.py,sha256=yvoSt-Rf6bWQOU5rK_Bu-Sg96qWODfxf4CuATTK9L5g,4777
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  cg/services/analysis_starter/configurator/file_creators/nextflow/params_file/rnafusion.py,sha256=irQIT6CsEuGM6xWg_tBzT7ilaa4ubXlJRBLw2Ovkoi8,1501
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  cg/services/analysis_starter/configurator/file_creators/nextflow/params_file/taxprofiler.py,sha256=1anmBbsSqGAoYNfPmwt4nV3qe0NSi_DsC58kV2VBhTA,1507
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- cg/services/analysis_starter/configurator/file_creators/nextflow/params_file/tomte_params_file_creator.py,sha256=m7NJTKzDRsblysI4qK4vIbyZGS9r6_8OSiXvze8Qyhk,2540
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+ cg/services/analysis_starter/configurator/file_creators/nextflow/params_file/tomte_params_file_creator.py,sha256=tbwAYcRAYBqbBVtzhYlrgB4utDrImroW3bR8vHxj3LI,2611
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  cg/services/analysis_starter/configurator/file_creators/nextflow/sample_sheet/creator.py,sha256=m7YBih9hPqoWIgW77B_3oQgmzdVp8BFkR0p3EZ0MQ9M,3698
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- cg/services/analysis_starter/configurator/file_creators/nextflow/sample_sheet/nallo.py,sha256=yEGzm-3nIvOgIL8fT_ju23iY-Gp1JLRphu_SOx9DFrE,2497
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+ cg/services/analysis_starter/configurator/file_creators/nextflow/sample_sheet/nallo_sample_sheet_creator.py,sha256=yEGzm-3nIvOgIL8fT_ju23iY-Gp1JLRphu_SOx9DFrE,2497
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- cg/services/analysis_starter/configurator/file_creators/nextflow/sample_sheet/raredisease.py,sha256=Ws4stwV7l_AVDCZK889kH3OHlqnu7GNnDa1I3irawG8,2704
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- cg/services/analysis_starter/configurator/file_creators/nextflow/sample_sheet/rnafusion.py,sha256=UW9tPLg7VGjSl0Zcv534xf8fHDdmjRWWAGqdep8rPX8,1390
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- cg/services/analysis_starter/configurator/file_creators/nextflow/sample_sheet/taxprofiler.py,sha256=dBbgE0TtZG3xNRrOkLbiGQdY2ZVfCKUsSL4jUOotNuo,1757
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+ cg/services/analysis_starter/configurator/file_creators/nextflow/sample_sheet/raredisease_sample_sheet_creator.py,sha256=Ws4stwV7l_AVDCZK889kH3OHlqnu7GNnDa1I3irawG8,2704
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+ cg/services/analysis_starter/configurator/file_creators/nextflow/sample_sheet/rnafusion_sample_sheet_creator.py,sha256=UW9tPLg7VGjSl0Zcv534xf8fHDdmjRWWAGqdep8rPX8,1390
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+ cg/services/analysis_starter/configurator/file_creators/nextflow/sample_sheet/taxprofiler_sample_sheet_creator.py,sha256=dBbgE0TtZG3xNRrOkLbiGQdY2ZVfCKUsSL4jUOotNuo,1757
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  cg/services/analysis_starter/configurator/file_creators/nextflow/sample_sheet/tomte_sample_sheet_creator.py,sha256=8OsMI7ZbcEHsPZAwbG1YRklINBISxsiyli5iaRspKYY,1488
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  cg/services/analysis_starter/configurator/implementations/balsamic.py,sha256=-5Omv61f20lQsVf5G_5NCwNPXn-BrRBdgu6XjfrrNUo,2894
@@ -552,7 +553,7 @@ cg/services/analysis_starter/configurator/models/microsalt.py,sha256=PvwYS9sL1hh
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  cg/services/analysis_starter/configurator/models/mip_dna.py,sha256=-9wiSIPeqp7McCnS_MWYS7DqkAoB0BEXVVYGnov1QUg,1156
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  cg/services/analysis_starter/configurator/models/nextflow.py,sha256=Ug-Kj179TW5hnaCBPJFu9rigbBnmFYSfv02kkItmn2o,610
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  cg/services/analysis_starter/constants.py,sha256=69R7TyZWXQlDMowpV87faHcY7zpH5KTTjHLViYadeo8,268
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- cg/services/analysis_starter/factories/configurator_factory.py,sha256=sHhXeuY6hFthLIR9B9V2-ndJbcBH5XHfvWMNVXzrtHQ,12175
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+ cg/services/analysis_starter/factories/configurator_factory.py,sha256=2K3vTqNd-6eZCeajTZ3PsOuik9CUSfrksKulQ7es_jE,12259
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  cg/services/analysis_starter/factories/starter_factory.py,sha256=hhM-5pRgklJiQ-vZYEyD0bwZ_v1IcybMfVCeKC_ySR8,6138
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  cg/services/analysis_starter/input_fetcher/implementations/bam_fetcher.py,sha256=ttpexbRji6VjlxYi_ayevfjNAtgkV25OQbAV7fagKYA,2530
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  cg/services/analysis_starter/input_fetcher/implementations/fastq_fetcher.py,sha256=P2NVYgjLNwnmRsebuVVMUA4_ks-1wx2ALfHBxoucmUg,9676
@@ -563,11 +564,11 @@ cg/services/analysis_starter/submitters/seqera_platform/seqera_platform_submitte
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  cg/services/analysis_starter/submitters/submitter.py,sha256=CkMH0y9JcsgKATCzG2M9GUzrV8YlX4_HfNVun7qEUaQ,356
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  cg/services/analysis_starter/submitters/subprocess/commands.py,sha256=bfc8nBGDo1AvrFK_b3G_N6daPapO3IqM5s9YzXQfOLw,155
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- cg/services/analysis_starter/tracker/implementations/balsamic.py,sha256=B1kh1rFewFPKIEfgZDJ3Rlu4ehfkkmwLhzvi7GOFOyo,709
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- cg/services/analysis_starter/tracker/implementations/microsalt.py,sha256=Kfy_CBdq472-nBzzWb-ilqSNxTvCBdFuYvwnxbIWMwE,1915
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- cg/services/analysis_starter/tracker/implementations/mip_dna.py,sha256=ET688jyKNjAOx-JkvdovGWidbcnxI-rvu-7VoXC618A,900
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- cg/services/analysis_starter/tracker/implementations/nextflow_tracker.py,sha256=QDh94iVfpK1DIObRDH1fy3s0IDaLwjlJnilJd-nPjiI,716
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- cg/services/analysis_starter/tracker/tracker.py,sha256=TMBvbkRJ9-A6EcCjtrBdc91g9FMe6-LqAlcp4U0MBk4,6161
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+ cg/services/analysis_starter/tracker/implementations/balsamic.py,sha256=f8JiVd4q83tsdSvdxvvaSV5y0-uPdey_7LL2Fyw4MSU,818
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+ cg/services/analysis_starter/tracker/implementations/microsalt.py,sha256=n5loG5ksQf54Kms0LPqRCTBwbksgtA7q51coWeQE014,1988
569
+ cg/services/analysis_starter/tracker/implementations/mip_dna.py,sha256=_LBb4OhMbvB_vYvg7VQKwJ4MKeOvFjxFREw0z01zIVg,1009
570
+ cg/services/analysis_starter/tracker/implementations/nextflow_tracker.py,sha256=BHvmgfhpFPh5fgytGBJv78Bp5ZH1z33ivoHwALChh_k,656
571
+ cg/services/analysis_starter/tracker/tracker.py,sha256=_GsyH0AGY-9_uG9y9qpD7h58AsDIeauFzwe8dD9Xv9M,6346
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  cg/services/decompression_service/decompressor.py,sha256=Sgb1oLaFxQjYjqCnsn8oJsf_rViv2_Xx1IjVP1-9AHs,973
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  cg/services/deliver_files/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  cg/services/deliver_files/constants.py,sha256=SPBc_tz9c6OKqlzwwSNG-rN3ZIUc36N2vs4gMaMbbvI,635
@@ -642,7 +643,7 @@ cg/services/fastq_concatenation_service/fastq_concatenation_service.py,sha256=3C
642
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  cg/services/fastq_concatenation_service/utils.py,sha256=f2RY1lFnOPsgNX64Vew4Q9bXpfgKG_cb09eE3hgiCJg,3532
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  cg/services/illumina/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
644
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  cg/services/illumina/backup/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
645
- cg/services/illumina/backup/backup_service.py,sha256=4qvjS8g-wdaRpSEe9I_yLIN1f8Y76kVU6-0BmNC-UFs,14942
646
+ cg/services/illumina/backup/backup_service.py,sha256=B5RBD9J2vqrWdieHpGnvvaer32-v_3Y5rAlCmA9m_0Y,16009
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  cg/services/illumina/backup/encrypt_service.py,sha256=HCyxmBmoUjD6-9W04Esi4VLDrAge8LWjNZ6r-pQ3xOo,8714
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  cg/services/illumina/backup/models.py,sha256=siFCpQn9S_uY7YK0kY0sZefUHd6dUZYYWTGNp8QOog4,670
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  cg/services/illumina/backup/utils.py,sha256=I6Jr2AV2eWOXbqduvcGtVLrcZU9FtoyNldcp5lXzdow,4123
@@ -694,14 +695,14 @@ cg/services/orders/storing/service_registry.py,sha256=ySnkLBqp1bM7I0ICWI_IkhjVgs
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  cg/services/orders/submitter/service.py,sha256=Jn_ToVCPL5Y2PmtF281Usces4-f0ebMKPg6mTrronjQ,1953
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  cg/services/orders/submitter/ticket_handler.py,sha256=PFW7v8CkSwCvfVG6zr2co8tv8C3XrkbDNwKcfqkOAnU,10261
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  cg/services/orders/validation/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
697
- cg/services/orders/validation/constants.py,sha256=ONAYt9fKnvVn93lFYTlGY7bQW9pAc5VvrhSmZSgXI38,1407
698
+ cg/services/orders/validation/constants.py,sha256=fj7Jy4VAQ_AYdtaBKRGu7-xrorQ5bsQATbfLmY2db_E,1575
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  cg/services/orders/validation/errors/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  cg/services/orders/validation/errors/case_errors.py,sha256=LpsErPsmxt3w4sUZfWIY_-Z6IxXVh70V1YCthTyPx4o,2314
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  cg/services/orders/validation/errors/case_sample_errors.py,sha256=rBUIwelf8Z4O0_ztk98j6V1HqmDisL8DYkPPzSOZfKA,5698
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  cg/services/orders/validation/errors/order_errors.py,sha256=hDqwv86IcmanxUCHLW1ExKg8Q4pGY-IaP6Bv76zJW4s,515
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  cg/services/orders/validation/errors/sample_errors.py,sha256=OWi2iu8CHa-mAf9sWieEat9fh4rZd4eGn1GtLofKjJQ,4562
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  cg/services/orders/validation/errors/validation_errors.py,sha256=8UPET3lrA0yLCFTvuqQ-fEMidq1iLxq7Sk3dUSTyt6M,1721
704
- cg/services/orders/validation/index_sequences.py,sha256=rM7UnG8pu7UIWNTxcUb30BW6PEnMyjRIzuUpPVruaww,77962
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+ cg/services/orders/validation/index_sequences.py,sha256=m7ZQJICnvBtV-USBR8OFzKfgzeW-nQbeNlrTqL4lYvM,112601
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  cg/services/orders/validation/model_validator/model_validator.py,sha256=S8SQqt-AHKQC6UL1HjjJaGWx48Ld-otpegnMq7NZOkc,704
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  cg/services/orders/validation/model_validator/utils.py,sha256=yzNbWwsW_sNcS8zcQ2ugi3rRSgDONU-Zg4LZEKYsQ2s,6874
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  cg/services/orders/validation/models/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
@@ -825,16 +826,16 @@ cg/services/run_devices/constants.py,sha256=-zI33OxI9XvXlyeSGw8jdqeuD_S1CFQRwWW5
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  cg/services/run_devices/error_handler.py,sha256=BXVXy-8i4hr5jd7H5LEPs_sT7YzCzQMNoFV8m7y9BEc,636
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  cg/services/run_devices/exc.py,sha256=6MH1yusfPNNa2RSbHhe48-WlUG1YJQsxMK2TkjemloI,1021
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  cg/services/run_devices/pacbio/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
828
- cg/services/run_devices/pacbio/data_storage_service/pacbio_store_service.py,sha256=SU-UuzHDR4o4AnKmTUjX7EcmbtirOd6_O_GT9r7wegk,3772
829
+ cg/services/run_devices/pacbio/data_storage_service/pacbio_store_service.py,sha256=dZWnssL1RgGkruPfKtJxZjghW1AGj8aiL4J4U7RorLE,4742
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  cg/services/run_devices/pacbio/data_transfer_service/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
830
- cg/services/run_devices/pacbio/data_transfer_service/data_transfer_service.py,sha256=jXn9Sm2Toa7fwXr63KzaM0mJr_OPREJIzgnvBO1yKlU,2154
831
- cg/services/run_devices/pacbio/data_transfer_service/dto.py,sha256=ZMUKnW2zuE7s0dMOqC9B4Ai_7dGha6DCfSH7YZjbPDY,1867
832
- cg/services/run_devices/pacbio/data_transfer_service/utils.py,sha256=HJdGEjbJgojoqCsNZzbMeagBrzgVHrgu5ME3ioeAZyA,3956
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+ cg/services/run_devices/pacbio/data_transfer_service/data_transfer_service.py,sha256=XqJ6cJc2KfiI0svQFvZe8Hz4EcCDaggbvKkp6HBejag,2410
832
+ cg/services/run_devices/pacbio/data_transfer_service/dto.py,sha256=g_7nrCLjQyEstLbR10v6cZV6hZnlCX2RQbPCFL8vAzE,2022
833
+ cg/services/run_devices/pacbio/data_transfer_service/utils.py,sha256=xQR-Sty5HwvjBpQbyZvnNnCaJrbFSRvb6pbzABCWiHY,4300
833
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  cg/services/run_devices/pacbio/housekeeper_service/models.py,sha256=F1c7dID12XiR4TcyRq4mhRB5gWZz430z0h7sHKcni00,153
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  cg/services/run_devices/pacbio/housekeeper_service/pacbio_houskeeper_service.py,sha256=kR3vbxWoJ-axouCofLjgfLgKPgdryaMu7vgo-EU1emY,5354
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  cg/services/run_devices/pacbio/metrics_parser/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
836
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  cg/services/run_devices/pacbio/metrics_parser/metrics_parser.py,sha256=26aAxw4xmBwtkVrSD4bmjThTTLsB6hmJgZEUXrITRW8,3279
837
- cg/services/run_devices/pacbio/metrics_parser/models.py,sha256=wX395V4M75ZZpon5YGD00oIj0dsJVFwiABk_q_j14y8,7245
838
+ cg/services/run_devices/pacbio/metrics_parser/models.py,sha256=4BTxMv5d5eg2NSoBoZ8EwVqJyGuLTqHacgiSQ3AFL0E,7331
838
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  cg/services/run_devices/pacbio/metrics_parser/utils.py,sha256=Y_Jsj-mnsuVF-iKZ7W1sJAuWqw25ayVonj9ktLHCNfA,3467
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  cg/services/run_devices/pacbio/post_processing_service.py,sha256=0NOmLAzF3I2UHbyKDAcEFJL5XykPMBLxs2Dz40J-UTc,3962
840
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  cg/services/run_devices/pacbio/run_data_generator/pacbio_run_data_generator.py,sha256=rvNepeIjt2BeZk-CvOpD449jmxceME0npEYAlqIebWg,1902
@@ -842,7 +843,7 @@ cg/services/run_devices/pacbio/run_data_generator/run_data.py,sha256=si-F7CCwmIF
842
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  cg/services/run_devices/pacbio/run_file_manager/models.py,sha256=C6kycBPx6YKNq2oFJOIhdrcPloi3QIBOrlbaAgeYzgs,192
843
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  cg/services/run_devices/pacbio/run_file_manager/run_file_manager.py,sha256=xW8cKrLKh445hQnmtuIrvg6INs2lMSaDirG83fvimI4,5068
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  cg/services/run_devices/pacbio/run_validator/pacbio_run_validator.py,sha256=d8fvmJcByEFPMnwqOe6mQsXXIO87WkXwfK9L_Bx7whg,3037
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- cg/services/run_devices/pacbio/sequencing_runs_service.py,sha256=c1DtXxnHzA4EAXhSNfewnHzX9yJh6nMA9YE6aNaLyyQ,852
846
+ cg/services/run_devices/pacbio/sequencing_runs_service.py,sha256=nLT8uCSztpgS-G8J1m16BBeJi4x_NMddMw1hS0Ook2w,2139
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  cg/services/run_devices/run_names/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
847
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  cg/services/run_devices/run_names/pacbio.py,sha256=DqvwtrVPeUeWu9PljeBrgGi_GT_8_lJRkgZTDU3WwhA,663
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  cg/services/run_devices/run_names/service.py,sha256=y2ljpN_gGew6grIHnez740IW6cOzyyz0sWS_O9Jut68,288
@@ -852,9 +853,9 @@ cg/services/sample_run_metrics_service/dtos.py,sha256=bJ0BL-QkqXIAAIg3F9edIdzAa_
852
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  cg/services/sample_run_metrics_service/sample_run_metrics_service.py,sha256=aQvOuorTG97lUbw7OREO8nsPhO3ouQ38RwksstGwguQ,1795
853
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  cg/services/sample_run_metrics_service/utils.py,sha256=BwICxptnhGg8oBghCLhzHaMNu0LuEV40cSYz1e8mB0A,829
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  cg/services/sequencing_qc_service/__init__.py,sha256=OaL9dyyI6B8uRjopTIoD1zcX_H-SbGj46ZM-V-aoq6w,88
855
- cg/services/sequencing_qc_service/quality_checks/checks.py,sha256=3V_N0jecDkqF9KBEPIZa3RVuzFEDLJnlmQ9c6FIwpfM,2293
856
- cg/services/sequencing_qc_service/quality_checks/utils.py,sha256=54dvy30YMbbwfo99hnSQAfnIoV7m0G-BQ00BnsumULQ,5325
857
- cg/services/sequencing_qc_service/sequencing_qc_service.py,sha256=uE5bu7xfTHB8CYRZ4uVzryfaSE42Ou6YbkvyormCobE,1754
856
+ cg/services/sequencing_qc_service/quality_checks/checks.py,sha256=Dew1xNjUBShAgv-kZtHNIL4HK6sMicu-cgACeeDjy20,2523
857
+ cg/services/sequencing_qc_service/quality_checks/utils.py,sha256=JCP__el8dflPuSE0QUea4NdRz_9XWu5l254VizNAy-U,7945
858
+ cg/services/sequencing_qc_service/sequencing_qc_service.py,sha256=2QIJ9IDZeMtO74ZHJ9bfzyK3-RhDK-m9xaoKsi9RHt8,1969
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  cg/services/sequencing_qc_service/utils.py,sha256=5WHJltBICfRODEzFVPFTdCbGNaMKCaVeOswHgIOGgFc,199
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  cg/services/slurm_service/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
860
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  cg/services/slurm_service/slurm_cli_service.py,sha256=t-XZoAOPgL-eufwK0A6H8WJvGtfWnlIYxnvKZJIX5-Y,702
@@ -874,10 +875,10 @@ cg/store/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
874
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  cg/store/api/data_classes.py,sha256=vgJehK0zm3SdB4LAQAWvTjoCHfos4N8_Vf0DDshrAnM,289
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  cg/store/base.py,sha256=qmIjuWuq_wryBfGoSZny9nvqZj7Hl8N23hcdQ7Hss5I,6885
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  cg/store/crud/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
877
- cg/store/crud/create.py,sha256=RVivXDAHRjOj-Q94kme9bjujInai-mBCMyIEI83zlxA,21172
878
+ cg/store/crud/create.py,sha256=ZEhhpoIXd05GP8DWIR5yFDb4X-Vg2BWrUinW8n89SfI,22509
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  cg/store/crud/delete.py,sha256=TlpoVWvUQMaRfy5bk-icFf9SSi_0Ir6XpFcAiM22DB0,1386
879
- cg/store/crud/read.py,sha256=00M-ZKZq16O1yq0yaDt_XwUeLs0i-SPCWCzacxEiqYM,77022
880
- cg/store/crud/update.py,sha256=UiQtKohaKGS0prUOLrtnUb91LeXC2l1PxV7o1l1K8ZQ,5745
880
+ cg/store/crud/read.py,sha256=4cxHQVYAHLSwHiNrh6rq207w99cKfLFMKtgd-iupXoM,78857
881
+ cg/store/crud/update.py,sha256=FZvOPebNnkWICu1N4gTdFeiMcuTUPglgCDfaxE6G288,6262
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  cg/store/database.py,sha256=7B0hZpMSKtu5R885TSI4UBj8id1T5JNBY-tn69n6Fk0,1662
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  cg/store/exc.py,sha256=uUCywNSwGus2uZnqmN56LHV84fHfkFYo8jXms1ToCnQ,274
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  cg/store/filters/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
@@ -903,8 +904,8 @@ cg/store/filters/status_panel_filters.py,sha256=qMYhIsrF9G3mjCvL9b9O2l_cmD3SfPWh
903
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  cg/store/filters/status_pool_filters.py,sha256=XcYqe2z5k_q09xpp4cleDMQ4Q3o2y7UPCkB0QUkl1ck,4308
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  cg/store/filters/status_sample_filters.py,sha256=mRpt_ik7niMjBo9K7pP8cmdfDMdr0B3I6Tt2MWXkLoc,9656
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  cg/store/filters/status_user_filters.py,sha256=sMwKeWqgEtqv8gyhbN_Uf5huPUxbOt5qEqMWVu67Zys,1328
906
- cg/store/models.py,sha256=J94eHbObBDlMcUTz70Ym2Y19jttli3Vtdc4xD-qtoz4,41763
907
- cg/store/store.py,sha256=HbtotlcJLB-UaeF2L3KwRtp3c-kfXydVW7Mjs6C_f_c,287
907
+ cg/store/models.py,sha256=dSJRWdvqFmgIbYTlQbsZD8utH10BIjbtUKERybnlssI,43915
908
+ cg/store/store.py,sha256=mz1TfKPlanH2uQyhZdwe_8VKg0IdFolmromKLu668IY,630
908
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  cg/utils/__init__.py,sha256=gGjdV2l_hfWFCTybU6dwDk_FcItM88EIHNPaX6g1qUk,30
909
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  cg/utils/calculations.py,sha256=zLVJO6nNw6n7AW7fHZI56UnQ23lqJrShB4Hh2ow6-TQ,349
910
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  cg/utils/checksum/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
@@ -922,7 +923,7 @@ cg/utils/flask/enum.py,sha256=xwNVtFPkSzoloJctLHu7obRyxcng1GJrhkeYkqwf9tw,1052
922
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  cg/utils/mapping.py,sha256=oZpZW2kgsbtAP2FZ7RtRPELiEE1zZk_nAGisHGtCOUo,491
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  cg/utils/time.py,sha256=_VOglhrFEZ5cwHK1U1g36SdwzB7UvV-Nvlt4ymuZUho,1501
924
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  cg/utils/utils.py,sha256=RciI_UhWcnG_pMZrmQZ1ZYb-O1N0DweTYMmhE0SIRgQ,1410
925
- cg-80.1.0.dist-info/METADATA,sha256=2EyHQA2Xy8bWNVFYg8QSN2k7nJie9IajR9Qdf69H7Ks,4939
926
- cg-80.1.0.dist-info/WHEEL,sha256=zp0Cn7JsFoX2ATtOhtaFYIiE2rmFAD4OcMhtUki8W3U,88
927
- cg-80.1.0.dist-info/entry_points.txt,sha256=q5f47YQQGltzK_xnIq1mDopRXXEItr85Xe1BCtG-Wts,39
928
- cg-80.1.0.dist-info/RECORD,,
926
+ cg-83.14.0.dist-info/METADATA,sha256=NfSMZZpwQzFwb2vRaPhpKv6sY5l3gfuNbeDIL81JQyk,4940
927
+ cg-83.14.0.dist-info/WHEEL,sha256=zp0Cn7JsFoX2ATtOhtaFYIiE2rmFAD4OcMhtUki8W3U,88
928
+ cg-83.14.0.dist-info/entry_points.txt,sha256=q5f47YQQGltzK_xnIq1mDopRXXEItr85Xe1BCtG-Wts,39
929
+ cg-83.14.0.dist-info/RECORD,,
File without changes