Patch for multiple apptags (#575)(patch)

### Fixed - Patch the use of multiple apptags to filter on for the top-up summary script
Clinical-Genomics · Jan 14, 2025 · d2a1c2b · d2a1c2b
1 parent 4bf1687
commit d2a1c2b
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Showing 3 changed files with 11 additions and 4 deletions.
diff --git a/cg_lims/models/arnold/prep/twist/aliquot_samples_for_enzymatic_fragmentation_twist.py b/cg_lims/models/arnold/prep/twist/aliquot_samples_for_enzymatic_fragmentation_twist.py
@@ -23,7 +23,9 @@ class ProcessUDFs(BaseModel):
     lot_nr_h2o_aliquot_samples_fragmentation: Optional[str] = Field(
         None, alias="Nuclease free water"
     )
-    lot_nr_elution_buffer_aliquot_samples_fragmentation: Optional[str] = Field(None, alias="Lot no: Elution Buffer")
+    lot_nr_elution_buffer_aliquot_samples_fragmentation: Optional[str] = Field(
+        None, alias="Lot no: Elution Buffer"
+    )
 
 
 class ArtifactUDFs(BaseModel):

diff --git a/cg_lims/models/arnold/prep/twist/bead_purification_twist.py b/cg_lims/models/arnold/prep/twist/bead_purification_twist.py
@@ -14,7 +14,9 @@ class ArtifactUDFs(BaseModel):
 class ProcessUDFs(BaseModel):
     lot_nr_etoh_bead_purification_post_hyb: Optional[str] = Field(None, alias="Ethanol")
     lot_nr_h2o_bead_purification_post_hyb: Optional[str] = Field(None, alias="Nuclease free water")
-    lot_nr_elution_buffer_bead_purification_post_hyb: Optional[str] = Field(None, alias="Lot no: Elution Buffer")
+    lot_nr_elution_buffer_bead_purification_post_hyb: Optional[str] = Field(
+        None, alias="Lot no: Elution Buffer"
+    )
     bead_purification_post_hyb_method: Optional[str] = Field(None, alias="Method document")
     binding_and_purification_beads: Optional[str] = Field(
         None, alias="Twist Binding and Purification beads"

diff --git a/cg_lims/scripts/one_time_scripts/topup_summary.py b/cg_lims/scripts/one_time_scripts/topup_summary.py
@@ -36,8 +36,11 @@ def get_matching_samples(
     lims: Lims, from_date: datetime.date, to_date: datetime.date, apptags: List[str]
 ) -> List[Sample]:
     """Return all samples matching the given apptags and timeframe."""
-    udf_dict: Dict[str, List[str]] = {"Sequencing Analysis": apptags}
-    found_samples: List[Sample] = lims.get_samples(udf=udf_dict)
+    found_samples: List[Sample] = []
+    for apptag in apptags:
+        udf_dict: Dict[str, List[str]] = {"Sequencing Analysis": [apptag]}
+        found_samples += lims.get_samples(udf=udf_dict)
+    LOG.info(f"Total amount samples with matching apptags: {len(found_samples)}.")
     matching_samples: List[Sample] = []
     for sample in found_samples:
         sequenced_at: datetime.date = sample.udf.get("Sequencing Finished")