feat(spikeinterface/sort): add module wrapping SpikeInterface 0.101.2 spike sorting#11464
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olaflaitinen wants to merge 1 commit intonf-core:masterfrom
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feat(spikeinterface/sort): add module wrapping SpikeInterface 0.101.2 spike sorting#11464olaflaitinen wants to merge 1 commit intonf-core:masterfrom
olaflaitinen wants to merge 1 commit intonf-core:masterfrom
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… spike sorting Co-authored-by: Cursor <cursoragent@cursor.com>
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PR checklist
README.mdin the module/subworkflow directory?meta.ymlfile?tags.yml?tags.ymlcategory it fits in?tags.ymlfor the categories it fits into?nf-core lint).nf-core testornf-testwhere applicable).feat:,fix:, etc.).docs/directory?tests/pytest/test_modules.py?Description
Adds
spikeinterface/sort, a process module wrapping SpikeInterface0.101.2for extracellular spike sorting. Conda package is pinned asconda-forge::spikeinterface=0.101.2(build reflected in Multi-container tagpyh0610db2_0). Container usesbiocontainers/spikeinterface:0.101.2--pyh0610db2_0.versions.ymlrecordsspikeinterface: 0.101.2andspike_sorter: <sorter channel>so snapshots remain stable across runs.biotools identifier: biotools:spikeinterface.
Outstanding follow-ups
Add
modules/data/genomics/electrophysiology/recording_small.binundernf-core/test-datasets(HTTP 404 as of validation). Candidate: attach a minimal public-domain or CC0-compatibleint16extracellular excerpt (single channel, 30 kHz) under 5 MB, then rerunnf-test --update-snapshotso the integration test MD5 placeholders intests/main.nf.test.snapare replaced.nf-core modules lintreports transient container registry warnings (Quay HEAD 403 / Galaxy depot 404 for this tag in the lint environment). Consider a Wave URL once available or a depot-published Singularity artifact if the nf-core bots provide one.