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Creating a bulk RNA-Seq ISA template fails

Status: Open.

#291 In bihealth/cubi-tk;

· january3 opened on Jul 9, 2025

Fully deprecate <code>cubi_tk/irods/check.py</code>

Status: Open.

#280 In bihealth/cubi-tk;

· Nicolai-vKuegelgen opened on Apr 28, 2025

cubi-tk documentation does not build

Status: Open.

#275 In bihealth/cubi-tk;

· mbenary opened on Mar 5, 2025

<code>iRODSTransfer</code> usage, command-line parameters and additions

Status: Open.

#272 In bihealth/cubi-tk;

· Nicolai-vKuegelgen opened on Feb 26, 2025

Refactoring: SodarAPI usage and sodar_cli

Status: Open.

#271 In bihealth/cubi-tk;

· Nicolai-vKuegelgen opened on Feb 26, 2025

Refactoring: class inheritance for itransfer functions

Status: Open.

#270 In bihealth/cubi-tk;

· Nicolai-vKuegelgen opened on Feb 26, 2025

<code>cubi-tk sodar add-ped</code> does not write metadata to index when used to update existing entires

Status: Open.

#269 In bihealth/cubi-tk;

· Nicolai-vKuegelgen opened on Feb 26, 2025

<code>cubi-tk sodar update samplesheet</code> autofill does not work correctly on small/template projects

Status: Open.

#268 In bihealth/cubi-tk;

· Nicolai-vKuegelgen opened on Feb 26, 2025

<code>cubi-tk sodar add-ped</code> expects the <code>Library Name</code> Column to exist

Status: Open.

#267 In bihealth/cubi-tk;

· Nicolai-vKuegelgen opened on Feb 26, 2025

Sodar-API tokens should never show up in logging messages

Status: Open.

#257 In bihealth/cubi-tk;

· Nicolai-vKuegelgen opened on Feb 11, 2025

Add support for cancer samplesheets

Status: Open.

#256 In bihealth/cubi-tk;

· ericblanc20 opened on Feb 4, 2025

Add file type filters to <code>cubi-tk sodar check-remote</code> and allow optional output suppression

Status: Open.

#230 In bihealth/cubi-tk;

· Nicolai-vKuegelgen opened on Apr 10, 2024