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biopet.biopet
Commits
b5023f42
Commit
b5023f42
authored
Apr 06, 2015
by
Peter van 't Hof
Browse files
Added full path to templates
parent
0e529121
Changes
1
Hide whitespace changes
Inline
Side-by-side
public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/core/report/ReportBuilder.scala
View file @
b5023f42
...
...
@@ -4,7 +4,7 @@ import java.io.{ PrintWriter, File }
import
nl.lumc.sasc.biopet.core.ToolCommand
import
nl.lumc.sasc.biopet.core.summary.Summary
import
org.fusesource.scalate.
{
TemplateSource
,
TemplateEngine
}
import
org.fusesource.scalate.TemplateEngine
import
scala.io.Source
...
...
@@ -13,7 +13,7 @@ import scala.io.Source
*/
trait
ReportBuilder
extends
ToolCommand
{
case
class
Args
(
summary
:
File
=
null
,
outputDir
:
File
=
null
)
extends
AbstractArgs
case
class
Args
(
summary
:
File
=
null
,
outputDir
:
File
=
null
,
pageArgs
:
Map
[
String
,
String
]
=
Map
()
)
extends
AbstractArgs
class
OptParser
extends
AbstractOptParser
{
opt
[
File
](
's'
,
"summary"
)
required
()
maxOccurs
(
1
)
valueName
(
"<file>"
)
action
{
(
x
,
c
)
=>
...
...
@@ -22,6 +22,9 @@ trait ReportBuilder extends ToolCommand {
opt
[
File
](
'o'
,
"outputDir"
)
required
()
maxOccurs
(
1
)
valueName
(
"<file>"
)
action
{
(
x
,
c
)
=>
c
.
copy
(
outputDir
=
x
)
}
opt
[
Map
[
String
,
String
]](
'a'
,
"args"
)
action
{
(
x
,
c
)
=>
c
.
copy
(
pageArgs
=
c
.
pageArgs
++
x
)
}
}
private
var
setSummary
:
Summary
=
_
...
...
@@ -41,10 +44,10 @@ trait ReportBuilder extends ToolCommand {
logger
.
info
(
"Write Base files"
)
// Write css to output dir
val
cssDir
=
new
File
(
cmdArgs
.
outputDir
,
"css"
)
val
cssDir
=
new
File
(
cmdArgs
.
outputDir
,
"css"
)
cssDir
.
mkdirs
()
val
cssWriter
=
new
PrintWriter
(
new
File
(
cssDir
,
"biopet.css"
))
Source
.
fromInputStream
(
getClass
.
getResourceAsStream
(
"biopet.css"
)).
getLines
().
foreach
(
cssWriter
.
println
(
_
))
Source
.
fromInputStream
(
getClass
.
getResourceAsStream
(
"
/nl/lumc/sasc/biopet/core/report/
biopet.css"
)).
getLines
().
foreach
(
cssWriter
.
println
(
_
))
cssWriter
.
close
()
logger
.
info
(
"Parsing summary"
)
...
...
@@ -52,7 +55,8 @@ trait ReportBuilder extends ToolCommand {
logger
.
info
(
"Generate pages"
)
generatePage
(
summary
,
indexPage
,
cmdArgs
.
outputDir
,
args
=
pageArgs
++
Map
(
"summary"
->
summary
,
"reportName"
->
reportName
,
"indexPage"
->
indexPage
))
args
=
pageArgs
++
cmdArgs
.
pageArgs
++
Map
(
"summary"
->
summary
,
"reportName"
->
reportName
,
"indexPage"
->
indexPage
))
logger
.
info
(
"Done"
)
}
...
...
@@ -69,12 +73,9 @@ trait ReportBuilder extends ToolCommand {
path
:
List
[
String
]
=
Nil
,
args
:
Map
[
String
,
Any
]
=
Map
())
:
Unit
=
{
val
templateText
=
Source
.
fromInputStream
(
getClass
.
getResourceAsStream
(
"main.ssp"
)).
getLines
().
mkString
(
"\n"
)
val
templateText
=
Source
.
fromInputStream
(
getClass
.
getResourceAsStream
(
"/nl/lumc/sasc/biopet/core/report/main.ssp"
)).
getLines
().
mkString
(
"\n"
)
val
template
=
engine
.
compileText
(
"ssp"
,
templateText
)
val
pageArgs
=
args
++
page
.
args
++
Map
(
"page"
->
page
,
"path"
->
path
)
val
output
=
engine
.
layout
(
template
.
source
,
pageArgs
++
Map
(
"args"
->
pageArgs
))
val
file
=
new
File
(
outputDir
,
path
.
mkString
(
""
,
File
.
separator
,
File
.
separator
)
+
"index.html"
)
...
...
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