@sjcrh/proteinpaint-server 2.141.0 → 2.142.0
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/package.json +4 -4
- package/routes/termdb.topVariablyExpressedGenes.js +6 -4
- package/src/app.js +15 -10
package/package.json
CHANGED
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@@ -1,6 +1,6 @@
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{
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"name": "@sjcrh/proteinpaint-server",
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-
"version": "2.
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3
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+
"version": "2.142.0",
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"type": "module",
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"description": "a genomics visualization tool for exploring a cohort's genotype and phenotype data",
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"main": "src/app.js",
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@@ -62,9 +62,9 @@
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"@sjcrh/augen": "2.136.0",
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"@sjcrh/proteinpaint-python": "2.139.1",
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"@sjcrh/proteinpaint-r": "2.137.2-0",
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-
"@sjcrh/proteinpaint-rust": "2.
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66
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-
"@sjcrh/proteinpaint-shared": "2.
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-
"@sjcrh/proteinpaint-types": "2.
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"@sjcrh/proteinpaint-rust": "2.142.0",
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"@sjcrh/proteinpaint-shared": "2.142.0",
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"@sjcrh/proteinpaint-types": "2.142.0",
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"@types/express": "^5.0.0",
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"@types/express-session": "^1.18.1",
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"better-sqlite3": "^9.4.1",
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@@ -83,8 +83,7 @@ function nativeValidateQuery(ds) {
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samples.push(n);
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}
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}
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-
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-
return genes;
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return await computeGenes4nativeDs(q, gE, samples);
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};
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}
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function addTopVEarg(q) {
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@@ -146,9 +145,9 @@ function addTopVEarg(q) {
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}
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q.arguments = arglst;
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}
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-
async function computeGenes4nativeDs(q,
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async function computeGenes4nativeDs(q, gE, samples) {
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const input_json = {
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-
input_file:
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input_file: gE.file,
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samples: samples.join(","),
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filter_extreme_values: q.filter_extreme_values,
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num_genes: q.maxGenes,
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@@ -158,6 +157,9 @@ async function computeGenes4nativeDs(q, matrixFile, samples) {
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input_json["min_count"] = q.min_count;
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input_json["min_total_count"] = q.min_total_count;
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}
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if (gE.newformat) {
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input_json["newformat"] = true;
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}
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const rust_output = await run_rust("topGeneByExpressionVariance", JSON.stringify(input_json));
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const rust_output_list = rust_output.split("\n");
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let output_json;
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