@platforma-open/milaboratories.mixcr-clonotyping-2 2.21.3 → 2.21.4
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package/block-pack/CHANGELOG.md
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# @platforma-open/milaboratories.mixcr-clonotyping
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## 2.21.4
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### Patch Changes
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- 9f35bb7: fix: size the exportClones execs from the .clns instead of a flat 12 GiB
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`exportClones` requested a constant 12 GiB (or `perProcessMemGB / 4`) — a number
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unrelated to what the command holds in memory. It reads the entire CloneSet into
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heap, and single-cell exports then materialise a second, expanded list — one clone
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per (clonotype × cell), each with its own split TagCount — then sort and re-rank it.
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`--chains` filters only after that division, so exporting one chain group still pays
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the whole-file cost.
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Under the `memory-from-limits` entrypoint a 12 GiB grant yields 8788 MiB of heap,
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because the non-heap reserve is a flat 3500 MiB. A 10.7k-cell / 26.7k-clone 10x BCR
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sample exhausted it: `exportClones` died with `OutOfMemoryError`, taking the
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`clonotypes`, `clonotypeTables` and `qcReportTable` outputs with it.
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- RAM is now `clamp(perByte × size(clns), floor, 128 GiB)` — 16 GiB and 16× for the
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bulk export, 24 GiB and 32× for the single-cell export, which pays the per-cell
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expansion. 24 GiB yields 20889 MiB of heap, 2.4× the ceiling that failed. The floors
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are kept tight because `-Xms` is half the grant: the request is a hard pre-allocation,
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and a sample runs one bulk plus one single-cell export per chain group.
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- An Advanced Settings memory override now applies as-is rather than quartered,
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matching how the analyze step treats the same setting. Projects that set it will
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request 4× more for the export step than before.
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- The two PTabler steps now inherit workflow-tengo 6.8's built-in input-volume
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formula, as the rest of the single-cell pipeline already does. They previously took
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⅔ of the mixcr step's budget.
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## 2.21.3
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### Patch Changes
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package/block-pack/main.plj.gz
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package/block-pack/manifest.json
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{"schema":"v2","description":{"id":{"organization":"milaboratories","name":"mixcr-clonotyping-2","version":"2.21.
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{"schema":"v2","description":{"id":{"organization":"milaboratories","name":"mixcr-clonotyping-2","version":"2.21.4"},"components":{"workflow":{"type":"workflow-v1","main":{"type":"relative","path":"main.plj.gz"}},"model":{"type":"relative","path":"model.json"},"ui":{"type":"relative","path":"ui.tgz"}},"meta":{"title":"MiXCR Clonotyping","description":"Extract TCR / BCR clonotypes from next-generation sequencing data","longDescription":{"type":"relative","path":"description.md"},"changelog":{"type":"relative","path":"CHANGELOG.md"},"logo":{"type":"relative","path":"block-logo.png"},"url":"https://github.com/platforma-open/mixcr-clonotyping-2","support":"mailto:support@milaboratories.com","tags":["upstream","airr","vdj","single-cell"],"organization":{"name":"MiLaboratories Inc","url":"https://milaboratories.com/","logo":{"type":"relative","path":"organization-logo.png"}},"marketplaceRanking":16900},"featureFlags":{"supportsLazyState":true,"supportsPframeQueryRanking":true,"requiresUIAPIVersion":3,"requiresModelAPIVersion":2,"requiresCreatePTable":2,"requiresPFramesVersion":1001031,"requiresPFrameSpec":true,"requiresPFrame":true,"requiresDialog":true,"requiresColumnsCollection":true}},"timestamp":1785843469923,"files":[{"name":"main.plj.gz","size":1523340,"sha256":"404DFE6E0B8735EE89D000749B749810DAFEBF5AF78B1B60ECEF2C6138BD5C57"},{"name":"model.json","size":521073,"sha256":"2B8820CAEB51DD44818E1AF5A30D7C01AD04A4D3477A6521213118830C9D6350"},{"name":"ui.tgz","size":4000930,"sha256":"1D99DD596DACA6CC61F4496C558D9629CAB1657B38B00D5184EE2735AFA60D0C"},{"name":"organization-logo.png","size":24439,"sha256":"FA71390C77C91E4B7FAAE5640D00F92F1E3F2869296F68B6040DD7CC549A50B5"},{"name":"description.md","size":1148,"sha256":"B319CBECC5055A89194C4D7B5768E1ABDE225053885800179439839408ECBA54"},{"name":"CHANGELOG.md","size":43277,"sha256":"2DC70E2EC0D56ABBE3B8A1D47A086C457CB7810FC852500FC4AB0A7E4311442A"},{"name":"block-logo.png","size":21527,"sha256":"6BB33BAF0CD039549661B51AE490373BE60D1811EC71F5023400928293BC2427"}]}
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package/block-pack/ui.tgz
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Binary file
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package/package.json
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{
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"name": "@platforma-open/milaboratories.mixcr-clonotyping-2",
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"version": "2.21.
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"version": "2.21.4",
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"files": [
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"dist",
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"block-pack"
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"shx": "^0.4.0",
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"typescript": "~5.6.3",
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"@platforma-open/milaboratories.mixcr-clonotyping-2.model": "1.27.2",
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"@platforma-open/milaboratories.mixcr-clonotyping-2.workflow": "3.28.
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"@platforma-open/milaboratories.mixcr-clonotyping-2.workflow": "3.28.3",
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"@platforma-open/milaboratories.mixcr-clonotyping-2.ui": "1.27.2"
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},
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"block": {
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