From 81b7da447594544fd970f2c5c87758252c46036b Mon Sep 17 00:00:00 2001
From: Sander Bollen <a.h.b.bollen@lumc.nl>
Date: Fri, 28 Aug 2015 17:40:31 +0200
Subject: [PATCH] Adding some todos to seq stat
---
.../src/main/scala/nl/lumc/sasc/biopet/tools/SeqStat.scala | 2 ++
.../src/test/scala/nl/lumc/sasc/biopet/tools/SeqStatTest.scala | 2 ++
2 files changed, 4 insertions(+)
diff --git a/public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/SeqStat.scala b/public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/SeqStat.scala
index 1ec419529..710d24ac9 100644
--- a/public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/SeqStat.scala
+++ b/public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/SeqStat.scala
@@ -317,6 +317,8 @@ object SeqStat extends ToolCommand {
))
)
+ // TODO: have function generate map so that it can be tested
+
println(ConfigUtils.mapToJson(report))
}
}
diff --git a/public/biopet-framework/src/test/scala/nl/lumc/sasc/biopet/tools/SeqStatTest.scala b/public/biopet-framework/src/test/scala/nl/lumc/sasc/biopet/tools/SeqStatTest.scala
index d9180aec4..c9dd5e290 100644
--- a/public/biopet-framework/src/test/scala/nl/lumc/sasc/biopet/tools/SeqStatTest.scala
+++ b/public/biopet-framework/src/test/scala/nl/lumc/sasc/biopet/tools/SeqStatTest.scala
@@ -101,4 +101,6 @@ class SeqStatTest extends TestNGSuite with MockitoSugar with Matchers {
val parsed = parseArgs(args)
parsed.fastq shouldBe resourceFile("/paired01a.fq")
}
+
+ // TODO: Shared state here. Calling main changes the state, which causes other tests to fail
}
\ No newline at end of file
--
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