Search results

Add unit tests for pathchar should_run methods

enhancementNew feature or requestNew feature or request

nice to haveFeature or change is nice to haveFeature or change is nice to have

Status: Open.

Feature

#50 In ukhsa-collaboration/cherami;

· JessF298 opened on Jun 9, 2026

Introduce custom config errors and provide a more robust config validation

enhancementNew feature or requestNew feature or request

Status: Open.

#48 In ukhsa-collaboration/cherami;

· Sam-Sims opened on May 26, 2026

nf_profiles and nf_extra_args in the config can be interpreted incorrectly if passed as a string

bugSomething isn't workingSomething isn't working

Status: Open.

#47 In ukhsa-collaboration/cherami;

· Sam-Sims opened on May 22, 2026

Nextflow should parse version from the config

enhancementNew feature or requestNew feature or request

nice to haveFeature or change is nice to haveFeature or change is nice to have

required v1Issue required to be completed for version 1.Issue required to be completed for version 1.

Status: Open.

Feature

#45 In ukhsa-collaboration/cherami;

· JessF298 opened on May 22, 2026

·  

v1.0.0

Implement onyx analysis helper hash function

Status: Open.

#44 In ukhsa-collaboration/cherami;

· Sam-Sims opened on May 22, 2026

Pipeline_trace check logic fails if Nextflow process completes after fail

bugSomething isn't workingSomething isn't working

complete pending mergeThis issue has been resolved or completed, and will be closed on merge of dev into main.This issue has been resolved or completed, and will be closed on merge of dev into main.

required v1Issue required to be completed for version 1.Issue required to be completed for version 1.

Status: Open.

#42 In ukhsa-collaboration/cherami;

· JessF298 opened on May 20, 2026

Add orangebox analysis table depdencies to each downstream pipeline

required v2Required for v2 releaseRequired for v2 release

Status: Open.

#41 In ukhsa-collaboration/cherami;

· Sam-Sims opened on Apr 23, 2026

Implement PathCharPipeline subclass with common build_context and should_run methods aware of orange box payload

enhancementNew feature or requestNew feature or request

required v2Required for v2 releaseRequired for v2 release

Status: Open.

Feature

#40 In ukhsa-collaboration/cherami;

· Sam-Sims opened on Apr 23, 2026

Consider stable hash function for onyx fields orangebox depends on

complete pending mergeThis issue has been resolved or completed, and will be closed on merge of dev into main.This issue has been resolved or completed, and will be closed on merge of dev into main.

required v1Issue required to be completed for version 1.Issue required to be completed for version 1.

Status: Open.

#39 In ukhsa-collaboration/cherami;

· Sam-Sims opened on Apr 23, 2026

Add post success/skip validation of orangebox results before RMQ publish

nice to haveFeature or change is nice to haveFeature or change is nice to have

required v2Required for v2 releaseRequired for v2 release

Status: Open.

#38 In ukhsa-collaboration/cherami;

· Sam-Sims opened on Apr 23, 2026

Standardise extra orangebox RMQ payload metadata

required v2Required for v2 releaseRequired for v2 release

Status: Open.

#37 In ukhsa-collaboration/cherami;

· Sam-Sims opened on Apr 23, 2026

Pipeline context and should_run logic

nice to haveFeature or change is nice to haveFeature or change is nice to have

required v1Issue required to be completed for version 1.Issue required to be completed for version 1.

Status: Open.

#36 In ukhsa-collaboration/cherami;

· Sam-Sims opened on Apr 23, 2026