Release v2.2.0 #158

Aratz · 2025-11-03T15:55:43Z

[2.2.0] - 2025-11-02

This new minor version of nf-core/pixelator introduces new panel files with clearer names. These new
panels are now the default. To use the old version of the panels, append -v1 to the panel name in
the samplesheet, e.g. proxiome-immuno-155-v1.

Enhancements & fixes

Update panel files with new names for marker ids by @Aratz #152
New panel file with FLAG add-on by @Aratz #152
Template update for nf-core/tools v3.4.1 by @Aratz in #151
--input now accepts relative paths by @Aratz #153
Pass down memory limits in PNA demux and combine-collapse by @fbdtemme #154
Fix custom panel usage by @Aratz #156

Software dependencies

Dependency	Old version	New version
`pixelator`	0.21.4	0.22.1

PR checklist

This comment contains a description of changes (with reason).
If you've fixed a bug or added code that should be tested, add tests!
If necessary, also make a PR on the nf-core/pixelator branch on the nf-core/test-datasets repository.
Make sure your code lints (nf-core pipelines lint).
Ensure the test suite passes (nextflow run . -profile test,docker --outdir <OUTDIR>).
Check for unexpected warnings in debug mode (nextflow run . -profile debug,test,docker --outdir <OUTDIR>).
Usage Documentation in docs/usage.md is updated.
CHANGELOG.md is updated.
README.md is updated (including new tool citations and authors/contributors).

…-3.4.1

This is already covered by default_mpx and default_pna

Important! Template update for nf-core/tools v3.4.1

Update pixelator to v0.22.0

This makes it possible to use relative paths when specifying the samplesheet path.

Make it possible to use relative path with `--input`

This will allow DuckDB to properly spill to disk in this steps. The default memory limit of 80% of available resources does not seem to work properly in AWS Batch environments.

The PIXELATOR_DUCKDB_TEMP_DIR controls the directory duckdb will spill to disk for larger then memory operations. Set this to `/tmp` by default when using a container execution profile. The DuckDB default of `$PWD/.tmp` has issues

Pass down memory limits in PNA demux and combine-collapse

Update pixelator to v0.22.1

nf-core pipelines bump-version 2.2.0

Bump version to 2.2.0

github-actions · 2025-11-03T15:57:15Z

`nf-core pipelines lint` overall result: Passed ✅ ⚠️

Posted for pipeline commit 14e5b63

+| ✅ 290 tests passed       |+
#| ❔   7 tests were ignored |#
!| ❗   5 tests had warnings |!

Details

❗ Test warnings:

files_unchanged - LICENSE does not match the template
pipeline_todos - TODO string in main.nf: Optionally add in-text citation tools to this list.
pipeline_todos - TODO string in main.nf: Optionally add bibliographic entries to this list.
pipeline_todos - TODO string in main.nf: Only uncomment below if logic in toolCitationText/toolBibliographyText has been filled!
included_configs - Pipeline config does not include custom configs. Please add the includeConfig line.

❔ Tests ignored:

files_exist - File is ignored: assets/multiqc_config.yml
files_exist - File is ignored: conf/igenomes.config
files_exist - File is ignored: conf/igenomes_ignored.config
files_exist - File is ignored: tests/default.nf.test
files_unchanged - File ignored due to lint config: .github/PULL_REQUEST_TEMPLATE.md
files_unchanged - File ignored due to lint config: assets/nf-core-pixelator_logo_light.png
multiqc_config - multiqc_config

✅ Tests passed:

files_exist - File found: .gitattributes
files_exist - File found: .gitignore
files_exist - File found: .nf-core.yml
files_exist - File found: .prettierignore
files_exist - File found: .prettierrc.yml
files_exist - File found: CHANGELOG.md
files_exist - File found: CITATIONS.md
files_exist - File found: CODE_OF_CONDUCT.md
files_exist - File found: LICENSE or LICENSE.md or LICENCE or LICENCE.md
files_exist - File found: nextflow_schema.json
files_exist - File found: nextflow.config
files_exist - File found: README.md
files_exist - File found: .github/.dockstore.yml
files_exist - File found: .github/CONTRIBUTING.md
files_exist - File found: .github/ISSUE_TEMPLATE/bug_report.yml
files_exist - File found: .github/ISSUE_TEMPLATE/config.yml
files_exist - File found: .github/ISSUE_TEMPLATE/feature_request.yml
files_exist - File found: .github/PULL_REQUEST_TEMPLATE.md
files_exist - File found: .github/workflows/branch.yml
files_exist - File found: .github/workflows/nf-test.yml
files_exist - File found: .github/actions/get-shards/action.yml
files_exist - File found: .github/actions/nf-test/action.yml
files_exist - File found: .github/workflows/linting_comment.yml
files_exist - File found: .github/workflows/linting.yml
files_exist - File found: assets/email_template.html
files_exist - File found: assets/email_template.txt
files_exist - File found: assets/sendmail_template.txt
files_exist - File found: assets/nf-core-pixelator_logo_light.png
files_exist - File found: conf/modules.config
files_exist - File found: conf/test.config
files_exist - File found: conf/test_full.config
files_exist - File found: docs/images/nf-core-pixelator_logo_light.png
files_exist - File found: docs/images/nf-core-pixelator_logo_dark.png
files_exist - File found: docs/output.md
files_exist - File found: docs/README.md
files_exist - File found: docs/README.md
files_exist - File found: docs/usage.md
files_exist - File found: nf-test.config
files_exist - File found: main.nf
files_exist - File found: conf/base.config
files_exist - File found: .github/workflows/awstest.yml
files_exist - File found: .github/workflows/awsfulltest.yml
files_exist - File found: modules.json
files_exist - File found: ro-crate-metadata.json
files_exist - File not found check: .github/ISSUE_TEMPLATE/bug_report.md
files_exist - File not found check: .github/ISSUE_TEMPLATE/feature_request.md
files_exist - File not found check: .github/workflows/push_dockerhub.yml
files_exist - File not found check: .markdownlint.yml
files_exist - File not found check: .nf-core.yaml
files_exist - File not found check: .yamllint.yml
files_exist - File not found check: bin/markdown_to_html.r
files_exist - File not found check: conf/aws.config
files_exist - File not found check: docs/images/nf-core-pixelator_logo.png
files_exist - File not found check: lib/Checks.groovy
files_exist - File not found check: lib/Completion.groovy
files_exist - File not found check: lib/NfcoreTemplate.groovy
files_exist - File not found check: lib/Utils.groovy
files_exist - File not found check: lib/Workflow.groovy
files_exist - File not found check: lib/WorkflowMain.groovy
files_exist - File not found check: lib/WorkflowPixelator.groovy
files_exist - File not found check: parameters.settings.json
files_exist - File not found check: pipeline_template.yml
files_exist - File not found check: Singularity
files_exist - File not found check: lib/nfcore_external_java_deps.jar
files_exist - File not found check: .travis.yml
nextflow_config - Found nf-schema plugin
nextflow_config - Config variable found: manifest.name
nextflow_config - Config variable found: manifest.nextflowVersion
nextflow_config - Config variable found: manifest.description
nextflow_config - Config variable found: manifest.version
nextflow_config - Config variable found: manifest.homePage
nextflow_config - Config variable found: timeline.enabled
nextflow_config - Config variable found: trace.enabled
nextflow_config - Config variable found: report.enabled
nextflow_config - Config variable found: dag.enabled
nextflow_config - Config variable found: process.cpus
nextflow_config - Config variable found: process.memory
nextflow_config - Config variable found: process.time
nextflow_config - Config variable found: params.outdir
nextflow_config - Config variable found: params.input
nextflow_config - Config variable found: manifest.mainScript
nextflow_config - Config variable found: timeline.file
nextflow_config - Config variable found: trace.file
nextflow_config - Config variable found: report.file
nextflow_config - Config variable found: dag.file
nextflow_config - Config variable (correctly) not found: params.nf_required_version
nextflow_config - Config variable (correctly) not found: params.container
nextflow_config - Config variable (correctly) not found: params.singleEnd
nextflow_config - Config variable (correctly) not found: params.igenomesIgnore
nextflow_config - Config variable (correctly) not found: params.name
nextflow_config - Config variable (correctly) not found: params.enable_conda
nextflow_config - Config variable (correctly) not found: params.max_cpus
nextflow_config - Config variable (correctly) not found: params.max_memory
nextflow_config - Config variable (correctly) not found: params.max_time
nextflow_config - Config variable (correctly) not found: params.validationFailUnrecognisedParams
nextflow_config - Config variable (correctly) not found: params.validationLenientMode
nextflow_config - Config variable (correctly) not found: params.validationSchemaIgnoreParams
nextflow_config - Config variable (correctly) not found: params.validationShowHiddenParams
nextflow_config - Config variable (correctly) not found: validation.failUnrecognisedParams
nextflow_config - Config variable (correctly) not found: validation.failUnrecognisedHeaders
nextflow_config - Config timeline.enabled had correct value: true
nextflow_config - Config report.enabled had correct value: true
nextflow_config - Config trace.enabled had correct value: true
nextflow_config - Config dag.enabled had correct value: true
nextflow_config - Config manifest.name began with nf-core/
nextflow_config - Config variable manifest.homePage began with https://github.com/nf-core/
nextflow_config - Config dag.file ended with .html
nextflow_config - Config variable manifest.nextflowVersion started with >= or !>=
nextflow_config - Config manifest.version does not contain dev for release: 2.2.0
nextflow_config - Config params.custom_config_version is set to master
nextflow_config - Config params.custom_config_base is set to https://raw.githubusercontent.com/nf-core/configs/master
nextflow_config - Lines for loading custom profiles found
nextflow_config - nextflow.config contains configuration profile test
nextflow_config - Config default value correct: params.save_amplicon_reads= false
nextflow_config - Config default value correct: params.save_pna_amplicon_reads= false
nextflow_config - Config default value correct: params.pna_amplicon_quality_cutoff= 20
nextflow_config - Config default value correct: params.trim_front= 0
nextflow_config - Config default value correct: params.trim_tail= 0
nextflow_config - Config default value correct: params.max_n_bases= 0
nextflow_config - Config default value correct: params.avg_qual= 20
nextflow_config - Config default value correct: params.adapterqc_mismatches= 0.1
nextflow_config - Config default value correct: params.save_qc_passed_reads= false
nextflow_config - Config default value correct: params.save_qc_failed_reads= false
nextflow_config - Config default value correct: params.demux_mismatches= 0.1
nextflow_config - Config default value correct: params.save_demux_processed_reads= false
nextflow_config - Config default value correct: params.save_demux_failed_reads= false
nextflow_config - Config default value correct: params.pna_demux_mismatches= 1.0
nextflow_config - Config default value correct: params.pna_demux_output_chunk_reads= 50M
nextflow_config - Config default value correct: params.pna_demux_output_max_chunks= 8.0
nextflow_config - Config default value correct: params.pna_demux_strategy= independent
nextflow_config - Config default value correct: params.save_pna_demux_parquet= false
nextflow_config - Config default value correct: params.save_pna_demux_passed_reads= false
nextflow_config - Config default value correct: params.save_pna_demux_failed_reads= false
nextflow_config - Config default value correct: params.algorithm= adjacency
nextflow_config - Config default value correct: params.max_neighbours= 60
nextflow_config - Config default value correct: params.collapse_mismatches= 2
nextflow_config - Config default value correct: params.collapse_min_count= 2
nextflow_config - Config default value correct: params.save_collapsed_reads= false
nextflow_config - Config default value correct: params.pna_collapse_algorithm= directional
nextflow_config - Config default value correct: params.pna_collapse_mismatches= 2
nextflow_config - Config default value correct: params.save_pna_collapsed_reads= false
nextflow_config - Config default value correct: params.multiplet_recovery= true
nextflow_config - Config default value correct: params.graph_max_refinement_recursion_depth= 5
nextflow_config - Config default value correct: params.graph_max_edges_to_split= 5
nextflow_config - Config default value correct: params.graph_min_count= 2
nextflow_config - Config default value correct: params.save_edgelist= false
nextflow_config - Config default value correct: params.dynamic_filter= min
nextflow_config - Config default value correct: params.aggregate_calling= true
nextflow_config - Config default value correct: params.save_raw_component_metrics= false
nextflow_config - Config default value correct: params.save_annotate_dataset= false
nextflow_config - Config default value correct: params.save_pna_graph_pixelfile= false
nextflow_config - Config default value correct: params.pna_graph_multiplet_recovery= true
nextflow_config - Config default value correct: params.pna_graph_leiden_iterations= 1.0
nextflow_config - Config default value correct: params.pna_graph_initial_stage_leiden_resolution= 1.0
nextflow_config - Config default value correct: params.pna_graph_refinement_stage_leiden_resolution= 0.01
nextflow_config - Config default value correct: params.pna_graph_min_count= 1.0
nextflow_config - Config default value correct: params.pna_graph_min_component_size_in_refinement= 1000.0
nextflow_config - Config default value correct: params.pna_graph_max_refinement_recursion_depth= 5.0
nextflow_config - Config default value correct: params.pna_graph_refinement_stage_max_edges_to_remove= 4.0
nextflow_config - Config default value correct: params.pna_graph_graph_min_component_size_to_prune= 100.0
nextflow_config - Config default value correct: params.save_pna_denoise_pixelfile= false
nextflow_config - Config default value correct: params.pna_denoise_run_one_core_graph_denoising= true
nextflow_config - Config default value correct: params.pna_denoise_pval_threshold= 0.05
nextflow_config - Config default value correct: params.pna_denoise_inflate_factor= 1.5
nextflow_config - Config default value correct: params.compute_polarization= true
nextflow_config - Config default value correct: params.compute_colocalization= true
nextflow_config - Config default value correct: params.polarization_transformation= log1p
nextflow_config - Config default value correct: params.polarization_n_permutations= 50
nextflow_config - Config default value correct: params.polarization_min_marker_count= 5
nextflow_config - Config default value correct: params.colocalization_transformation= rate-diff
nextflow_config - Config default value correct: params.colocalization_neighbourhood_size= 1
nextflow_config - Config default value correct: params.colocalization_n_permutations= 50
nextflow_config - Config default value correct: params.colocalization_min_region_count= 5
nextflow_config - Config default value correct: params.colocalization_min_marker_count= 5
nextflow_config - Config default value correct: params.save_analysis_dataset= false
nextflow_config - Config default value correct: params.save_pna_analysis_pixelfile= false
nextflow_config - Config default value correct: params.pna_analysis_compute_proximity= true
nextflow_config - Config default value correct: params.pna_analysis_proximity_nbr_of_permutations= 100
nextflow_config - Config default value correct: params.pna_analysis_compute_svd_var_explained= true
nextflow_config - Config default value correct: params.pna_analysis_svd_nbr_of_pivots= 50
nextflow_config - Config default value correct: params.no_node_marker_counts= false
nextflow_config - Config default value correct: params.layout_algorithm= wpmds_3d
nextflow_config - Config default value correct: params.pna_layout_no_node_marker_counts= false
nextflow_config - Config default value correct: params.pna_layout_layout_algorithm= wpmds_3d
nextflow_config - Config default value correct: params.pna_layout_pmds_pivots= 50
nextflow_config - Config default value correct: params.pna_layout_wpmds_k= 5
nextflow_config - Config default value correct: params.save_all= false
nextflow_config - Config default value correct: params.save_json= true
nextflow_config - Config default value correct: params.custom_config_version= master
nextflow_config - Config default value correct: params.custom_config_base= https://raw.githubusercontent.com/nf-core/configs/master
nextflow_config - Config default value correct: params.publish_dir_mode= copy
nextflow_config - Config default value correct: params.validate_params= true
nextflow_config - Config default value correct: params.pipelines_testdata_base_path= https://raw.githubusercontent.com/nf-core/test-datasets/pixelator/
nf_test_content - 'tests/save_all.nf.test' contains outdir parameter
nf_test_content - 'tests/save_all.nf.test' snapshots a 'versions.yml' file
nf_test_content - 'tests/save_all.nf.test' snapshots a 'versions.yml' file
nf_test_content - 'tests/save_all.nf.test' contains outdir parameter
nf_test_content - 'tests/default_mpx.nf.test' contains outdir parameter
nf_test_content - 'tests/default_mpx.nf.test' snapshots a 'versions.yml' file
nf_test_content - 'tests/default_mpx.nf.test' snapshots a 'versions.yml' file
nf_test_content - 'tests/default_mpx.nf.test' contains outdir parameter
nf_test_content - 'tests/pna_es.nf.test' contains outdir parameter
nf_test_content - 'tests/pna_es.nf.test' snapshots a 'versions.yml' file
nf_test_content - 'tests/pna_es.nf.test' snapshots a 'versions.yml' file
nf_test_content - 'tests/pna_es.nf.test' contains outdir parameter
nf_test_content - 'tests/pna_es.nf.test' snapshots a 'versions.yml' file
nf_test_content - 'tests/pna_es.nf.test' snapshots a 'versions.yml' file
nf_test_content - 'tests/pna_es.nf.test' contains outdir parameter
nf_test_content - 'tests/default_pna.nf.test' contains outdir parameter
nf_test_content - 'tests/default_pna.nf.test' snapshots a 'versions.yml' file
nf_test_content - 'tests/default_pna.nf.test' snapshots a 'versions.yml' file
nf_test_content - 'tests/default_pna.nf.test' contains outdir parameter
nf_test_content - 'tests/nextflow.config' contains modules_testdata_base_path
nf_test_content - 'tests/nextflow.config' contains pipelines_testdata_base_path
nf_test_content - 'tests/nextflow.config' contains modules_testdata_base_path
nf_test_content - 'tests/nextflow.config' contains pipelines_testdata_base_path
nf_test_content - 'nf-test.config' sets a testsDir
nf_test_content - 'nf-test.config' sets a workDir
nf_test_content - 'nf-test.config' sets a configFile
files_unchanged - .gitattributes matches the template
files_unchanged - .prettierrc.yml matches the template
files_unchanged - CODE_OF_CONDUCT.md matches the template
files_unchanged - .github/.dockstore.yml matches the template
files_unchanged - .github/CONTRIBUTING.md matches the template
files_unchanged - .github/ISSUE_TEMPLATE/bug_report.yml matches the template
files_unchanged - .github/ISSUE_TEMPLATE/config.yml matches the template
files_unchanged - .github/ISSUE_TEMPLATE/feature_request.yml matches the template
files_unchanged - .github/workflows/branch.yml matches the template
files_unchanged - .github/workflows/linting_comment.yml matches the template
files_unchanged - .github/workflows/linting.yml matches the template
files_unchanged - assets/email_template.html matches the template
files_unchanged - assets/email_template.txt matches the template
files_unchanged - assets/sendmail_template.txt matches the template
files_unchanged - docs/images/nf-core-pixelator_logo_light.png matches the template
files_unchanged - docs/images/nf-core-pixelator_logo_dark.png matches the template
files_unchanged - docs/README.md matches the template
files_unchanged - .gitignore matches the template
files_unchanged - .prettierignore matches the template
actions_nf_test - '.github/workflows/nf-test.yml' is triggered on expected events
actions_nf_test - '.github/workflows/nf-test.yml' checks minimum NF version
actions_awstest - '.github/workflows/awstest.yml' is triggered correctly
actions_awsfulltest - .github/workflows/awsfulltest.yml is triggered correctly
actions_awsfulltest - .github/workflows/awsfulltest.yml does not use -profile test
readme - README Nextflow minimum version badge matched config. Badge: 25.04.0, Config: 25.04.0
readme - README nf-core template version badge found.
readme - README Zenodo placeholder was replaced with DOI.
pipeline_if_empty_null - No ifEmpty(null) strings found
plugin_includes - No wrong validation plugin imports have been found
pipeline_name_conventions - Name adheres to nf-core convention
template_strings - Did not find any Jinja template strings (0 files)
schema_lint - Schema lint passed
schema_lint - Schema title + description lint passed
schema_lint - Input mimetype lint passed: 'text/csv'
schema_params - Schema matched params returned from nextflow config
system_exit - No System.exit calls found
actions_schema_validation - Workflow validation passed: release-announcments.yml
actions_schema_validation - Workflow validation passed: linting.yml
actions_schema_validation - Workflow validation passed: download_pipeline.yml
actions_schema_validation - Workflow validation passed: template-version-comment.yml
actions_schema_validation - Workflow validation passed: linting_comment.yml
actions_schema_validation - Workflow validation passed: release-announcements.yml
actions_schema_validation - Workflow validation passed: fix_linting.yml
actions_schema_validation - Workflow validation passed: nf-test.yml
actions_schema_validation - Workflow validation passed: awsfulltest.yml
actions_schema_validation - Workflow validation passed: branch.yml
actions_schema_validation - Workflow validation passed: awstest.yml
actions_schema_validation - Workflow validation passed: clean-up.yml
merge_markers - No merge markers found in pipeline files
modules_json - Only installed modules found in modules.json
modules_structure - modules directory structure is correct 'modules/nf-core/TOOL/SUBTOOL'
local_component_structure - local subworkflows directory structure is correct 'subworkflows/local/TOOL/SUBTOOL'
base_config - conf/base.config found and not ignored.
modules_config - conf/modules.config found and not ignored.
modules_config - PIXELATOR found in conf/modules.config and Nextflow scripts.
modules_config - PIXELATOR_LIST_OPTIONS found in conf/modules.config and Nextflow scripts.
modules_config - CAT_FASTQ found in conf/modules.config and Nextflow scripts.
modules_config - PIXELATOR_COLLECT_METADATA found in conf/modules.config and Nextflow scripts.
modules_config - PIXELATOR_AMPLICON found in conf/modules.config and Nextflow scripts.
modules_config - PIXELATOR_QC found in conf/modules.config and Nextflow scripts.
modules_config - PIXELATOR_DEMUX found in conf/modules.config and Nextflow scripts.
modules_config - PIXELATOR_COLLAPSE found in conf/modules.config and Nextflow scripts.
modules_config - PIXELATOR_GRAPH found in conf/modules.config and Nextflow scripts.
modules_config - PIXELATOR_ANNOTATE found in conf/modules.config and Nextflow scripts.
modules_config - PIXELATOR_ANALYSIS found in conf/modules.config and Nextflow scripts.
modules_config - PIXELATOR_LAYOUT found in conf/modules.config and Nextflow scripts.
modules_config - PIXELATOR_REPORT found in conf/modules.config and Nextflow scripts.
nfcore_yml - Repository type in .nf-core.yml is valid: pipeline
nfcore_yml - nf-core version in .nf-core.yml is set to the latest version: 3.4.1
rocrate_readme_sync - RO-Crate descriptions are in sync with README.md.
version_consistency - Version tags are consistent: manifest.version = 2.2.0, nfcore_yml.version = 2.2.0

Run details

nf-core/tools version 3.4.1
Run at 2025-11-03 15:56:58

jonasscheid

Nice work! LGTM, only minor (non-blocking) comments

modules/local/collect_metadata/main.nf

modules/local/pixelator/single-cell-pna/combine_collapse/main.nf

modules/local/pixelator/single-cell-pna/demux/main.nf

modules/local/pixelator/single-cell-pna/layout/main.nf

johandahlberg

LGTM!

tests/pna_es.nf.test

Aratz · 2025-11-05T07:45:10Z

Thanks for the reviews @johandahlberg @jonasscheid !

nf-core-bot and others added 27 commits October 16, 2025 13:38

Template update for nf-core/tools version 3.4.1

6562713

Merge remote-tracking branch 'origin/dev' into nf-core-template-merge…

36667de

…-3.4.1

Update nf-test snapshot

47e58bc

Remove default test

87a8c5c

This is already covered by default_mpx and default_pna

Merge pull request #151 from nf-core/nf-core-template-merge-3.4.1

88e7fca

Important! Template update for nf-core/tools v3.4.1

Update all modules

6cadc70

Update pixelator to 0.22.0

0962573

Run prettier

41c92fb

Update usage

913033c

Update changelog

1b202b0

Merge pull request #152 from nf-core/feature/pna-1603_update_pixelator

2b7a61a

Update pixelator to v0.22.0

Use Channel.fromPath instead of Channel.of

1d360cd

This makes it possible to use relative paths when specifying the samplesheet path.

Update changelog

fe64097

Merge pull request #153 from nf-core/fix/relative_path_samplesheet

24d39fd

Make it possible to use relative path with `--input`

Pass memory limits to pna demux and combine-collapse.

2154014

This will allow DuckDB to properly spill to disk in this steps. The default memory limit of 80% of available resources does not seem to work properly in AWS Batch environments.

Update CHANGELOG

1de8216

Merge pull request #155 from nf-core/fix/duckdb_spilling

4bcd6fb

Pass down memory limits in PNA demux and combine-collapse

Add test with custom panel

9c80a06

Update pixelator to v0.22.1

bf7827a

Update CHANGELOG

674fca1

Merge pull request #156 from nf-core/fix/custom_panels

425ff78

Update pixelator to v0.22.1

Bump version to 2.2.0

ae7064b

nf-core pipelines bump-version 2.2.0

Update metromap

b319dc3

Update Changelog

1604359

Update snapshots

8de9377

Merge pull request #157 from nf-core/bump_version_2.2.0

14e5b63

Bump version to 2.2.0

Aratz self-assigned this Nov 3, 2025

Aratz marked this pull request as ready for review November 3, 2025 17:38

Aratz requested review from fbdtemme and johandahlberg November 4, 2025 07:17

jonasscheid approved these changes Nov 4, 2025

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johandahlberg approved these changes Nov 5, 2025

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Aratz merged commit 1affbf6 into master Nov 5, 2025
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Release v2.2.0 #158

Release v2.2.0 #158

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Aratz commented Nov 3, 2025 •

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github-actions bot commented Nov 3, 2025 •

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❗ Test warnings:

❔ Tests ignored:

✅ Tests passed:

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Aratz commented Nov 5, 2025

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Release v2.2.0 #158

Release v2.2.0 #158

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Aratz commented Nov 3, 2025 • edited Loading Uh oh! There was an error while loading. Please reload this page.

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[2.2.0] - 2025-11-02

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github-actions bot commented Nov 3, 2025 • edited Loading Uh oh! There was an error while loading. Please reload this page.

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nf-core pipelines lint overall result: Passed ✅ ⚠️

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Aratz commented Nov 3, 2025 •

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github-actions bot commented Nov 3, 2025 •

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`nf-core pipelines lint` overall result: Passed ✅ ⚠️