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biopet.biopet
Commits
b0795a75
Commit
b0795a75
authored
Jul 02, 2015
by
Sander van der Zeeuw
Browse files
Fix the test of seqstat, so that develop can build again
parent
2b7a4f2f
Changes
2
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public/biopet-framework/src/test/scala/nl/lumc/sasc/biopet/tools/SeqStatTest.scala
View file @
b0795a75
...
...
@@ -89,10 +89,10 @@ class SeqStatTest extends TestNGSuite with MockitoSugar with Matchers {
val
seqstat
=
SeqStat
baseHistogram
(
40
)
shouldEqual
5
baseHistogram
(
39
)
shouldEqual
10
baseHistogram
(
34
)
shouldEqual
1
5
baseHistogram
(
33
)
shouldEqual
20
baseHistogram
(
0
)
shouldEqual
20
baseHistogram
(
39
)
shouldEqual
5
baseHistogram
(
34
)
shouldEqual
5
baseHistogram
(
33
)
shouldEqual
5
baseHistogram
(
0
)
shouldEqual
5
}
@Test
def
testArgsMinimum
()
=
{
...
...
public/flexiprep/src/main/scala/nl/lumc/sasc/biopet/pipelines/flexiprep/Fastqc.scala
View file @
b0795a75
...
...
@@ -125,7 +125,7 @@ class Fastqc(root: Configurable) extends nl.lumc.sasc.biopet.extensions.Fastqc(r
line
<-
qcModule
.
lines
if
!(
line
.
startsWith
(
"#"
)
||
line
.
startsWith
(
">"
));
values
=
line
.
split
(
"\t"
)
if
values
.
size
==
7
}
yield
(
values
(
0
),
BasePositionStats
(
values
(
1
).
toDouble
,
values
(
2
).
toDouble
,
values
(
3
).
toDouble
,
values
(
4
).
toDouble
,
values
(
5
).
toDouble
,
values
(
6
).
toDouble
).
toMap
)
values
(
4
).
toDouble
,
values
(
5
).
toDouble
,
values
(
6
).
toDouble
).
toMap
)
tableContents
.
toMap
}
}
else
Map
()
...
...
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