pass
public, importable
| id | wf_20260523_nf-core-demo-nextflow-qc-reproduction |
|---|
| workflow_class | general_galaxy_workflow |
|---|
| validation_profile | general_galaxy_workflow |
|---|
| validation_status | pass |
|---|
| review_status | tested |
|---|
| source_type | github_repository |
|---|
| source_ref | 45904cb9d12db3d89900e6c479fe604ef71b297b |
|---|
| source_url | https://github.com/nf-core/demo |
|---|
| galaxy_instance | https://usegalaxy.org |
|---|
| galaxy_history_id | bbd44e69cb8906b5bbf93ef93172ec2c |
|---|
| execution_surface | galaxy-cli |
|---|
| created | 2026-05-23 |
|---|
| updated | 2026-05-23 |
|---|
| tags | external-source, nextflow, fastq-qc, nf-core |
|---|
Entry README
nf-core/demo Nextflow QC reproduction
Summary
External Nextflow nf-core/demo FASTQ QC pipeline reproduced in Galaxy with FastQC, Seqtk trim, and MultiQC.
Source
- Type: github_repository
- URL: https://github.com/nf-core/demo
- Reference: 45904cb9d12db3d89900e6c479fe604ef71b297b
Galaxy Reproduction
- History: https://usegalaxy.org/histories/view?id=bbd44e69cb8906b5bbf93ef93172ec2c
- Public: yes
- Importable: yes
- Execution surface: galaxy-cli
Validation
- Status: pass
- Profile: general_galaxy_workflow
Files
- Metadata: `metadata.yaml`
- Validation report: `validation_report.json`
- Provenance: `provenance.json`
Entry id: `wf_20260523_nf-core-demo-nextflow-qc-reproduction`
Validation Summary
| Status | pass |
|---|
| Profile | general_galaxy_workflow |
|---|
| Checks | 8 |
|---|
Checks
| Name | Status | Details |
|---|
| external_non_galaxy_source | pass | {"source_url": "https://github.com/nf-core/demo"} |
| bioartifact_paired_fastq | pass | {"samples": ["SAMPLE1_PE", "SAMPLE2_PE"]} |
| galaxy_uploads_ok | pass | {"dataset_count": 4} |
| fastqc_raw_ok | pass | {"job_count": 4} |
| seqtk_trim_ok | pass | {"job_count": 4} |
| fastqc_trimmed_ok | pass | {"job_count": 4} |
| multiqc_ok | pass | {"output_id": "f9cad7b01a47213545b9f2582f0bd594"} |
| history_public_importable | pass | |
Warnings
- The first MultiQC submission through galaxy-cli did not bind the nested multiple-data input; a narrow Galaxy API fallback submitted the corrected MultiQC payload in the same history.
Provenance Summary
Galaxy Tools
| Name | Tool ID |
|---|
| fastqc | toolshed.g2.bx.psu.edu/repos/devteam/fastqc/fastqc/0.74+galaxy1 |
| multiqc | toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.34+galaxy0 |
| seqtk_trimfq | toolshed.g2.bx.psu.edu/repos/iuc/seqtk/seqtk_trimfq/1.5+galaxy0 |
Fallbacks
- Galaxy API fallback for MultiQC nested multiple-data input.
- Galaxy API fallback for published/importable flags.
Input Sources