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MEPTS - 1617 | TX_RTT Changes for December 2024 Release #1303

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TinoMuianga
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codecov bot commented Nov 12, 2024

Codecov Report

Attention: Patch coverage is 2.36887% with 577 lines in your changes missing coverage. Please review.

Project coverage is 8.16%. Comparing base (2102bb6) to head (92d9cc2).
Report is 11 commits behind head on 2.x_develop.

Files with missing lines Patch % Lines
...orts/AdvancedDiseaseAndTBCascadeCohortQueries.java 1.49% 132 Missing ⚠️
...ntsEligibleForCd4RequestDataDefinitionQueries.java 0.00% 129 Missing ⚠️
...tOfPatientsEligibleForCd4RequestCohortQueries.java 0.00% 88 Missing ⚠️
...st/ListOfPatientsEligibleForCd4RequestDataset.java 3.03% 64 Missing ⚠️
...y/cohorts/QualityImprovement2020CohortQueries.java 0.00% 25 Missing ⚠️
...ts/ListOfPatientsDefaultersOrIITCohortQueries.java 0.00% 21 Missing ⚠️
...ng/library/cohorts/TPTCompletionCohortQueries.java 0.00% 16 Missing ⚠️
...orting/library/dimensions/EptsCommonDimension.java 0.00% 14 Missing ⚠️
...orts/ListOfPatientsEligibleForVLCohortQueries.java 0.00% 10 Missing ⚠️
.../reporting/library/cohorts/TxNewCohortQueries.java 0.00% 9 Missing ⚠️
... and 19 more
Additional details and impacted files
@@               Coverage Diff                @@
##             2.x_develop   #1303      +/-   ##
================================================
- Coverage           8.20%   8.16%   -0.04%     
  Complexity           873     873              
================================================
  Files                433     433              
  Lines              57794   58170     +376     
  Branches            1959    1965       +6     
================================================
+ Hits                4742    4751       +9     
- Misses             52878   53245     +367     
  Partials             174     174              

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+ " AND transf.concept_id = ${transferFromOther} "
+ " AND transf.value_coded = ${yes} "
+ " AND opening.voided = 0 "
+ " AND patientTransf.concept_id = ${typePatientTransferredFrom} "
+ " AND patientTransf.value_coded = ${tarv} "
+ " AND opening.concept_id = ${dateOfMasterCardFileOpening} ";
if (isExclusion) {
query = query + "AND opening.value_datetime < :onOrAfter ";
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Instead of using query = query +, consider using query +=. It's more concise and achieves the same result, improving readability and consistency.

EdmilsonJembi and others added 10 commits January 10, 2025 14:47
* Fix on Transferred Out To check arv pick up

* Fix on TX Curr Eligible for TPT Initiation composition

* Fix on start date Perid to be 210 days instead of 7 months

* Fix the TPT5 on the period of INH on FILT to be before endDate and not until endDate

* Fix on the tpt6 correcting the composition

* Fix the tpt6 corrected the date range. Aligned compositionCohortDefinition with the 7-month period using getTxCurrWithTPTInLast7Months().

---------

Co-authored-by: EdmilsonJembi <[email protected]>
* Change on TB Active the verify on a 7 month period

* Updated template

* Fix on Abandono Notificado implementation

* Fix on date notified abandono implementation

* Fix on Col AN Data do Último Levantamento Recepção Levantou ARV, changes e.encounter datetime to value datetime filter

* Fix on Col AP implementation

* Fix on Tipo De Dispensa Implementation

* MEPTS-1529 corrige a logica na query Tipo de Dispensa

* Fix on the MDS query

* Fix on column  AE - AJ, key population

* Fix the MDC2 column

* FIX: removing gender filters

* FEAT: adding correct definition for column AE

* FIX: separate fila from FC on monthly dispensation

* FIX: removing response filter on patient consent

* Fix on DM to verify last Tipo de Dispensa on Ficha Clinica by report endDate

* Fix on fila pick verification on same date of clinic visit

* Fix on DM to verify the most recent source

* FIX: using last consultation on art disp type

* Removed unnecessary System.out.print statement from code

* Remove unnecessary file

---------

Co-authored-by: Edmilson Saiete <[email protected]>
Co-authored-by: EdmilsonJembi <[email protected]>
Co-authored-by: helderjosue <[email protected]>
* Fix on Sample Collection For HIV implementation

* Fix on Positive Or Negative PCR result

* Fix on Infant Age queries

* Fix on PMTCT HEI infant age, removed value datetime check for collection date

* Fix on PMTCT HEI Positive or negative PCR resul, removed value datetime check for collection date

* Replaced query concatenation with '+=' for better readability and performance.

---------

Co-authored-by: EdmilsonJembi <[email protected]>
* Fix on Transferred Out during revision period, implementation

* Fix on end of TB implementation to check up to revision end date

* Fix the getMQ15NUM9 composition on the VLFL date range for Data Consulta 2o Pedido CV

* Fix the MQ15NUM11 on the LWVLFL date range for the resultado de carga viral

* Fix CAT 15.13 NUM: Filter patients with last pharmacy visit within 12 months and next visit scheduled between 335-395 days

---------

Co-authored-by: EdmilsonJembi <[email protected]>
)

* FEAT: removing transferred out and died exclusions

* FEAT: adding B13 from RM as filter

* FEAT: adding semi-quantitative CD4

* FEAT: adding two VL results on Lab

* FEAT: adding semi-quantitative on other definitions

* FEAT: updating summary definitions

* FEAT: adding new CD4 columns

* FEAT: adding VL new columns & new template

* FEAT: adding missing changes on column J

* FIX: correcting misspelled select

* FIX: correcting number of months evaluation

* FIX: replacing concepts with encounters

* FIX: changing source of vl columns

* FEAT: NA if date null

* FIX: changing second estadio criterias

* FIX: correcting second vl period

* FIX: removing completed criteria on program states

* FIX: separate programs on transferred in
* FIX: correcting vl and scheduled consultation

* FIX: Adding period filter

* FIX: Replacing vl results implementation

* FIX: correcting last pickup on arv levantou

* FIX: changing period for last scheduled pickup

* FR19: Fix logic to correctly pick most recent viral load result date

---------

Co-authored-by: EdmilsonJembi <[email protected]>
* FIX: adding semi-quantitavive criteria

* REFACTOR: removing comments

* MEPTS - 1595 | MDS Report Diff in FGH DB (#1292)

* Implemented B, C and D 7 - Condição Clínica Activa de Estadio III ou IV

* Added concepts metadata

* Implemented B C and D 12 Planeamento Familiar

* Implemented B C and D 13 Columns

* Implemented B C and D 15 Columns and added new concepts metadata

* Implemented B C and D 18 Columns

* Implemented B C and D 19 Columns

* Updated and mapped the New MDS Template

* Added new Dataset for Diferent MDS cohorts

* Updated the Evaluation start and end date periods

* Updated Template

* Fix on query alias

* Fix on query alias on b8

* Reimplemented MDS dataset and added chort 24 to 36 and 36 month string queries

* Fix on Months Cohort string queries

* Implemented the Patints by Year Cohort string query

* Fix on Patient Year Cohort string query

* Added Cohort period for B C and D 4 to 9

* Fix on Pregnant or Breastfeeding query

* Added Cohort period for B C and D 5 to 10

* Added Cohort period for B C and D 11 to 19

* Implemented B C and D 20 last state of stay

* Implemented the Cohort period for B C D 20 Last State of Stay

* Fix on MDS end 3 added concept map

* Fix on Last state of stay Trf Out

* Fix on Cohort Period mappings in all sections

* Fix on Cohort Period mappings on Section B C and D 20

* Fix on MDS date query

* Fix on A7, C1 and C2 implementation cohort periods

* Fix on B6 implementation

* Fix on B C D 12 - Family Planing implementation

* Fixed B C D 13 - Received tpt implementation

* Fixed B C D 15 - Arterial Pressure implementation

* Fix on Nao result for Patients with no Positive CACUM

* Results Harmonization

* Added converter to give 0 result instead of empty on number of Consultations

* Fix on Estado De Permanencia - Abandono

* Fix on A6 indicator converter to answer Yes or No

* Change on TB Active the verify on a 7 month period

* Updated template

* Fix on Abandono Notificado implementation

* Fix on date notified abandono implementation

* Fix on Col AN Data do Último Levantamento Recepção Levantou ARV, changes e.encounter datetime to value datetime filter

* Fix on Col AP implementation

* Fix on Tipo De Dispensa Implementation

* Fix on Pregnant implementation to verify CD4 after first pregnancy occurence

* Fix on ImmunoSevere Supression within 33 days implementation

* Fix on Immunusupressive CD4 result within 33 days of eligiblity implementation

* Refactored Enumerations

* Fix on Cascade 2 Clinets with CD4 count during Inclusion period

* fix(FR15): correct criteria to include clients with CD4 count results within 33 days

* fix(FR20):corret the criteria to always prioritize the positive result and not include the client in the negative disaggregation(FR10)

* FIX: adding elab as source for tblam

* FIX: adding elab as source for tblam disagg

* FEAT: implementing dimension hierarchy

* fix the FR19 on the cd4Under750 age gap issue

* Fixed consecutive VL Result get get the last lab consultation before before Vl >1000 on period

* Fix 2 consecutive VLs and added the dimension for 2 2VL having CD4 in 33 days

* Fix on Cascade 2 filters to verify up to report generation date

* fix on dimensation name

* Fix on CD4 in 33 days composition

* remove unused file .~lock.Template_List_Patients_Defaulters_IIT_TARV_v1.7.xls#

---------

Co-authored-by: Constantino De Jesus Muianga <[email protected]>
Co-authored-by: TinoMuianga <[email protected]>
Co-authored-by: EdmilsonJembi <[email protected]>
* [maven-release-plugin] prepare release 3.0.3

* [maven-release-plugin] prepare for next development iteration
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look's great to me.

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3 participants