Testing Galaxy workflows with TESP

[micoleaoo]

• tesp-api branch: dev
• usegalaxy add new tesp runner, configure tpv to send jobs for specific role there #232

Let me know if the workflows are shared with their history or not (Galaxy client said they are, but when I open the link, it shows my last active history)

Machine Learning ✅

workflow
tutorial

Clustering in machine learning

workflow
tutorial

• visualization tool succeeds but generates 0-byte png file

Classification in machine learning

1st WF invocation
2nd WF invocation
3rd WF invocation
tutorial

1st time ran with old dataset

• most adjacent jobs to inputs have failed

2nd time used newly downloaded dataset

• most jobs succsessful
• remove beginning tool failed immediately
  • tried .txt suffix for the input file (as required by valid tool inputs), no difference
  • destination parameters are absent
  • error: No destinations are available to fulfill request: Role: tesp_tester, Tool: Remove .*
    • config this file?
      templates/galaxy-qa2.galaxy.cloud.e-infra.cz/config/tpv_rules_local.yml.j2
• support vector machines EXECUTOR ERROR in tesp-api logs, return code: 255

3rd time, same datasets

• all steps passed except remove beginning tool

Different outcomes, same TESP configuration = racing conditions?

Prepare data from CbioPortal for flexynesis integration ✅

workflow
tutorial

Filter, plot, and explore single cell RNA-seq data with Seurat

1st WF invocation
2nd WF invocation
tutorial

• updating dataset led to failed metadata on file

• different method for workflow input results in job COMPLETE in Pulsar and TESP, but Galaxy reports error:

Oct 30 09:38:24 galaxy-qa-nd-2 galaxyctl[810801]: galaxy.jobs.runners DEBUG 2025-10-30 09:38:24,420 [pN:handler_1,p:810801,tN:PulsarJobRunner.work_thread-0] execution of external set_meta for job 811 finished
Oct 30 09:38:24 galaxy-qa-nd-2 galaxyctl[810801]: galaxy.tool_util.output_checker INFO 2025-10-30 09:38:24,427 [pN:handler_1,p:810801,tN:PulsarJobRunner.work_thread-0] Job error detected, failing job. Reasons are [{'type': 'exit_code', 'desc': 'Fatal error: Exit code 1 ()', 'exit_code': 1, 'code_desc': '', 'error_level': 3}]
Oct 30 09:38:24 galaxy-qa-nd-2 galaxyctl[810801]: galaxy.jobs DEBUG 2025-10-30 09:38:24,463 [pN:handler_1,p:810801,tN:PulsarJobRunner.work_thread-0] (811) setting dataset 1264 state to ERROR

Ludwig image recognition model ✅

workflow
tutorial

Single-cell quality control with scater ✅

workflow
tutorial

Deep Learning - Convolutional neural networks ✅

workflow
tutorial