From 745c94a945c40ec790ba31b6edf982d1d56b6b3b Mon Sep 17 00:00:00 2001 From: Nathan Dunn Date: Fri, 12 Feb 2021 17:33:05 -0800 Subject: [PATCH] converted it --- scripts/convert_gmt_to_json.groovy | 21 +++++++++++++++++++++ scripts/tgac.json | 1 + 2 files changed, 22 insertions(+) create mode 100644 scripts/convert_gmt_to_json.groovy create mode 100644 scripts/tgac.json diff --git a/scripts/convert_gmt_to_json.groovy b/scripts/convert_gmt_to_json.groovy new file mode 100644 index 0000000..e9936e5 --- /dev/null +++ b/scripts/convert_gmt_to_json.groovy @@ -0,0 +1,21 @@ +#!/usr/bin/env groovy +import groovy.json.JsonBuilder +import groovy.json.JsonOutput + +def file = new File("9606-go_tcga-bp-all_converted.gmt") + +//def builder = new JsonBuilder() + +StringBuilder stringBuilder =new StringBuilder() +List entries = [] +file.splitEachLine("\t"){ List columns -> + Map map = new HashMap([golabel:columns[0],goid:columns[1],gene:columns.subList(2,columns.size())]) + entries.add(map) +// def output = JsonOutput.toJson(map) +// println output +// stringBuilder.append(output) +} + + +def outputFile = new File("tgac.json") +outputFile.write(JsonOutput.toJson(entries)) diff --git a/scripts/tgac.json b/scripts/tgac.json new file mode 100644 index 0000000..1816013 --- /dev/null +++ b/scripts/tgac.json @@ -0,0 +1 @@ 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