@platforma-open/milaboratories.mixcr-amplicon-alignment.workflow 1.13.1 → 1.13.2

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Files changed (14) hide show
  1. package/.turbo/turbo-build.log +1 -1
  2. package/CHANGELOG.md +6 -0
  3. package/dist/tengo/lib/calculate-export-specs.lib.tengo +2 -2
  4. package/dist/tengo/tpl/aggregate-by-clonotype-key.plj.gz +0 -0
  5. package/dist/tengo/tpl/main.plj.gz +0 -0
  6. package/dist/tengo/tpl/mixcr-analyze.plj.gz +0 -0
  7. package/dist/tengo/tpl/mixcr-export.plj.gz +0 -0
  8. package/dist/tengo/tpl/process.plj.gz +0 -0
  9. package/dist/tengo/tpl/repseqio-library.plj.gz +0 -0
  10. package/package.json +4 -4
  11. package/src/calculate-export-specs.lib.tengo +2 -2
  12. package/src/mixcr-analyze.tpl.tengo +1 -0
  13. package/src/mixcr-export.tpl.tengo +0 -1
  14. package/src/repseqio-library.tpl.tengo +1 -0
package/.turbo/turbo-build.log CHANGED
@@ -1,6 +1,6 @@
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   WARN  Issue while reading "/home/runner/work/mixcr-amplicon-alignment/mixcr-amplicon-alignment/.npmrc". Failed to replace env in config: ${NPMJS_TOKEN}
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- > @platforma-open/milaboratories.mixcr-amplicon-alignment.workflow@1.13.1 build /home/runner/work/mixcr-amplicon-alignment/mixcr-amplicon-alignment/workflow
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+ > @platforma-open/milaboratories.mixcr-amplicon-alignment.workflow@1.13.2 build /home/runner/work/mixcr-amplicon-alignment/mixcr-amplicon-alignment/workflow
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  > rm -rf dist && pl-tengo check && pl-tengo build
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  Processing "src/aggregate-by-clonotype-key.tpl.tengo"...
package/CHANGELOG.md CHANGED
@@ -1,5 +1,11 @@
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  # @platforma-open/milaboratories.mixcr-amplicon-alignment.workflow
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+ ## 1.13.2
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+
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+ ### Patch Changes
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+
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+ - f4d0ddb: Fix issue after update
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+
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  ## 1.13.1
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  ### Patch Changes
package/dist/tengo/lib/calculate-export-specs.lib.tengo CHANGED
@@ -187,7 +187,7 @@ calculateExportSpecs := func(presetSpecForBack, blockId) {
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  spec: {
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  name: "pl7.app/vdj/readFractionMean",
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  valueType: "Double",
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- annotations: a(87130, true, {
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+ annotations: a(87130, false, {
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  "pl7.app/min": "0",
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  "pl7.app/max": "1",
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  "pl7.app/isAbundance": "true",
@@ -268,7 +268,7 @@ calculateExportSpecs := func(presetSpecForBack, blockId) {
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  spec: {
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  name: "pl7.app/vdj/uniqueMoleculeFractionMean",
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  valueType: "Double",
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- annotations: a(87130, true, {
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+ annotations: a(87130, false, {
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  "pl7.app/min": "0",
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  "pl7.app/max": "1",
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  "pl7.app/isAbundance": "true",
package/dist/tengo/tpl/main.plj.gz CHANGED
Binary file
package/dist/tengo/tpl/mixcr-analyze.plj.gz CHANGED
Binary file
package/dist/tengo/tpl/mixcr-export.plj.gz CHANGED
Binary file
package/dist/tengo/tpl/process.plj.gz CHANGED
Binary file
package/package.json CHANGED
@@ -1,16 +1,16 @@
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  {
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  "name": "@platforma-open/milaboratories.mixcr-amplicon-alignment.workflow",
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- "version": "1.13.1",
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+ "version": "1.13.2",
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  "description": "MiXCR Amplicon Alignment Workflow",
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  "type": "module",
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  "dependencies": {
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- "@platforma-sdk/workflow-tengo": "^5.6.4",
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+ "@platforma-sdk/workflow-tengo": "^5.6.6",
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  "@platforma-open/milaboratories.software-mixcr": "4.7.0-254-develop",
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  "@platforma-open/milaboratories.software-repseqio": "^2.5.0-13-master"
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  },
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  "devDependencies": {
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- "@platforma-sdk/tengo-builder": "^2.3.14",
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- "@platforma-sdk/test": "^1.46.3",
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+ "@platforma-sdk/tengo-builder": "^2.4.1",
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+ "@platforma-sdk/test": "^1.47.6",
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  "vitest": "^2.1.8"
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  },
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  "scripts": {
package/src/calculate-export-specs.lib.tengo CHANGED
@@ -187,7 +187,7 @@ calculateExportSpecs := func(presetSpecForBack, blockId) {
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  spec: {
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  name: "pl7.app/vdj/readFractionMean",
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  valueType: "Double",
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- annotations: a(87130, true, {
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+ annotations: a(87130, false, {
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  "pl7.app/min": "0",
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  "pl7.app/max": "1",
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  "pl7.app/isAbundance": "true",
@@ -268,7 +268,7 @@ calculateExportSpecs := func(presetSpecForBack, blockId) {
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  spec: {
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  name: "pl7.app/vdj/uniqueMoleculeFractionMean",
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  valueType: "Double",
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- annotations: a(87130, true, {
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+ annotations: a(87130, false, {
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  "pl7.app/min": "0",
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  "pl7.app/max": "1",
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  "pl7.app/isAbundance": "true",
package/src/mixcr-analyze.tpl.tengo CHANGED
@@ -171,6 +171,7 @@ self.body(func(inputs) {
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  mixcrCmdBuilder.saveFile("result.qc.json")
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  mixcrCmdBuilder.saveFile(clnsFileName)
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+ mixcrCmdBuilder.saveStdoutStream()
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  for report in reports {
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  mixcrCmdBuilder.saveFile(report.fileJson)
package/src/mixcr-export.tpl.tengo CHANGED
@@ -36,7 +36,6 @@ self.body(func(inputs) {
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  mem("12GB").
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  cpu(2).
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  printErrStreamToStdout().
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- dontSaveStdoutOrStderr().
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  software(mixcrSw).
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  secret("MI_LICENSE", "MI_LICENSE").
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  arg("exportClones").
package/src/repseqio-library.tpl.tengo CHANGED
@@ -120,6 +120,7 @@ self.body(func(inputs) {
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  arg("referenceLibrary.json").
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  addFile("vGene.fasta", vGeneFasta).
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  addFile("jGene.fasta", jGeneFasta).
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+ saveStdoutStream().
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  cpu(1).mem("4GB")
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  repseqioDebugResult := repseqioDebugCmd.run()