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Use mehari instead of vep in CI/CD

Status: Open.

#654 In bihealth/snappy-pipeline;

· tedil opened on Apr 23, 2026

Error creating conda environment

Status: Open.

#651 In bihealth/snappy-pipeline;

· stolpeo opened on Mar 31, 2026

Pin software versions in dedicated branch for germline leg

Status: Open.

#650 In bihealth/snappy-pipeline;

· stolpeo opened on Mar 30, 2026

Make CNA and Expression sub-steps optional based on config flags

Status: Open.

#648 In bihealth/snappy-pipeline;

· DivyaratanPopli opened on Jan 23, 2026

gcnv environment problem

Status: Open.

#646 In bihealth/snappy-pipeline;

· ericblanc20 opened on Jan 14, 2026

Cannot create conda environment

Status: Open.

#643 In bihealth/snappy-pipeline;

· ErikaZ95 opened on Oct 10, 2025

libmamba Non-conda folder exists at prefix

Status: Open.

#640 In bihealth/snappy-pipeline;

· ericblanc20 opened on Sep 1, 2025

Examine parallel wrappers to be replaced with scattergather

backlogpostponed and put to backlogpostponed and put to backlog

Status: Open.

Task

#632 In bihealth/snappy-pipeline;

· tedil opened on Jul 24, 2025

out of memory error when annotating somatic variants with VEP

Status: Open.

#624 In bihealth/snappy-pipeline;

· JakubLiu opened on Jun 25, 2025

Update pydantic to >=2.11 and fix issues introduced by pydantic behaviour change regarding type aliases

bugSomething isn't workingSomething isn't working

Status: Open.

Bug

#616 In bihealth/snappy-pipeline;

· ericblanc20 opened on Apr 9, 2025

Re-think LibraryKitEntry

backlogpostponed and put to backlogpostponed and put to backlog

Status: Open.

Feature

#605 In bihealth/snappy-pipeline;

· tedil opened on Feb 24, 2025

MBCS mapping step not running with snappy 0.3.0

Status: Open.

#602 In bihealth/snappy-pipeline;

· steinbrecht opened on Feb 3, 2025