@platforma-open/milaboratories.mixcr-clonotyping-2 2.23.2 → 2.23.3
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
package/block-pack/CHANGELOG.md
CHANGED
|
@@ -1,5 +1,33 @@
|
|
|
1
1
|
# @platforma-open/milaboratories.mixcr-clonotyping
|
|
2
2
|
|
|
3
|
+
## 2.23.3
|
|
4
|
+
|
|
5
|
+
### Patch Changes
|
|
6
|
+
|
|
7
|
+
- 2dc34c8: fix: size the QC exportClones steps from the .clns
|
|
8
|
+
|
|
9
|
+
The QC report runs `exportClones` twice more per sample — once for the bulk out-of-frame /
|
|
10
|
+
stop-codon counts and once per chain in single-cell mode — and both asked for a flat 16 GiB.
|
|
11
|
+
`exportClones` loads the whole CloneSet and applies `--chains` after the load, so those runs
|
|
12
|
+
cost what the main clonotype export costs; only the column list is smaller. On a large `.clns`
|
|
13
|
+
they OOM at the 12.8 GiB heap the `main` entrypoint hands the JVM out of 16 GiB, while the main
|
|
14
|
+
export beside them now gets a request sized from the file.
|
|
15
|
+
|
|
16
|
+
Both now use the same rule as the main export, moved into `:mem-formula` as `exportRam`:
|
|
17
|
+
|
|
18
|
+
ram = clamp(8 GiB + perByte x size(clns), floorGiB, 256 GiB)
|
|
19
|
+
|
|
20
|
+
with `floorGiB` 24 and `perByte` 30. The report template also moves from the `main` MiXCR
|
|
21
|
+
entrypoint to `memory-from-limits`, which every other template in the block already uses. The
|
|
22
|
+
entrypoint sets the heap fraction the JVM gets, so one entrypoint means one coefficient.
|
|
23
|
+
|
|
24
|
+
The `perProcessMemGB` override now raises the floor instead of replacing the rule. A project
|
|
25
|
+
that set it below the floor requested that value and OOMed; a value below the floor now has no
|
|
26
|
+
effect, and the data term still applies above one above it. This is how
|
|
27
|
+
`aggregate-by-clonotype-key` already treats the same override. An override above the 256 GiB
|
|
28
|
+
cap also raises the cap — `between()` asserts `lo <= hi`, so a floor raised past a fixed cap
|
|
29
|
+
would have failed the step outright rather than clamped.
|
|
30
|
+
|
|
3
31
|
## 2.23.2
|
|
4
32
|
|
|
5
33
|
### Patch Changes
|
package/block-pack/main.plj.gz
CHANGED
|
Binary file
|
package/block-pack/manifest.json
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"schema":"v2","description":{"id":{"organization":"milaboratories","name":"mixcr-clonotyping-2","version":"2.23.
|
|
1
|
+
{"schema":"v2","description":{"id":{"organization":"milaboratories","name":"mixcr-clonotyping-2","version":"2.23.3"},"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},"kind":"@platforma-open/milaboratories.mixcr-clonotyping-2.kind@1.1.0"},"timestamp":1789671515912,"files":[{"name":"main.plj.gz","size":1560792,"sha256":"C316C0D7E55C04315CDB9BA50A8B3F7DD96139D044E28027A3C00CC939287AC2"},{"name":"model.json","size":575939,"sha256":"ABE8B2BA1F3818F65E7E58D81B8C72FB3274CFEDA89BC2F0F5D9AF8FE0D6C416"},{"name":"ui.tgz","size":4040755,"sha256":"702CC988A01787A0DE526A9F3D7294615F33626E1CFF61B289E12AC76CC25F5A"},{"name":"organization-logo.png","size":24439,"sha256":"FA71390C77C91E4B7FAAE5640D00F92F1E3F2869296F68B6040DD7CC549A50B5"},{"name":"description.md","size":1148,"sha256":"B319CBECC5055A89194C4D7B5768E1ABDE225053885800179439839408ECBA54"},{"name":"CHANGELOG.md","size":48766,"sha256":"C1B262960BECE0A22A780D04BA474A25837E9F6B8C8571901952FD374846320B"},{"name":"block-logo.png","size":21527,"sha256":"6BB33BAF0CD039549661B51AE490373BE60D1811EC71F5023400928293BC2427"}]}
|
package/block-pack/ui.tgz
CHANGED
|
Binary file
|
package/package.json
CHANGED
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
{
|
|
2
2
|
"name": "@platforma-open/milaboratories.mixcr-clonotyping-2",
|
|
3
|
-
"version": "2.23.
|
|
3
|
+
"version": "2.23.3",
|
|
4
4
|
"files": [
|
|
5
5
|
"dist",
|
|
6
6
|
"block-pack"
|
|
@@ -20,14 +20,14 @@
|
|
|
20
20
|
"devDependencies": {
|
|
21
21
|
"@milaboratories/ts-builder": "1.7.0",
|
|
22
22
|
"@milaboratories/ts-configs": "1.4.0",
|
|
23
|
-
"@platforma-sdk/block-tools": "2.
|
|
23
|
+
"@platforma-sdk/block-tools": "2.16.0",
|
|
24
24
|
"@platforma-sdk/model": "1.82.0",
|
|
25
25
|
"shx": "^0.4.0",
|
|
26
26
|
"typescript": "~5.6.3",
|
|
27
27
|
"@platforma-open/milaboratories.mixcr-clonotyping-2.kind": "1.1.0",
|
|
28
|
-
"@platforma-open/milaboratories.mixcr-clonotyping-2.
|
|
28
|
+
"@platforma-open/milaboratories.mixcr-clonotyping-2.workflow": "3.29.3",
|
|
29
29
|
"@platforma-open/milaboratories.mixcr-clonotyping-2.model": "1.28.0",
|
|
30
|
-
"@platforma-open/milaboratories.mixcr-clonotyping-2.
|
|
30
|
+
"@platforma-open/milaboratories.mixcr-clonotyping-2.ui": "1.27.3"
|
|
31
31
|
},
|
|
32
32
|
"block": {
|
|
33
33
|
"components": {
|