Skip to content
GitLab
Explore
Sign in
Primary navigation
Search or go to…
Project
O
openbis
Manage
Activity
Members
Labels
Code
Merge requests
Repository
Branches
Commits
Tags
Repository graph
Compare revisions
Snippets
Build
Pipelines
Jobs
Pipeline schedules
Artifacts
Deploy
Releases
Model registry
Analyze
Value stream analytics
Contributor analytics
CI/CD analytics
Repository analytics
Help
Help
Support
GitLab documentation
Compare GitLab plans
Community forum
Contribute to GitLab
Provide feedback
Keyboard shortcuts
?
Snippets
Groups
Projects
Show more breadcrumbs
sispub
openbis
Commits
dd12c201
"eu_basysbio/git@sissource.ethz.ch:sispub/openbis.git" did not exist on "28ec0c8014506dabcf9d27a45858becc0b9e82e9"
Commit
dd12c201
authored
14 years ago
by
cramakri
Browse files
Options
Downloads
Patches
Plain Diff
LMS-2072 Fixed tests (I think).
SVN: 20179
parent
ec0281ca
No related branches found
No related tags found
No related merge requests found
Changes
1
Hide whitespace changes
Inline
Side-by-side
Showing
1 changed file
datastore_server/source/java/ch/systemsx/cisd/etlserver/api/v1/PutDataSetExecutor.java
+56
-25
56 additions, 25 deletions
...ch/systemsx/cisd/etlserver/api/v1/PutDataSetExecutor.java
with
56 additions
and
25 deletions
datastore_server/source/java/ch/systemsx/cisd/etlserver/api/v1/PutDataSetExecutor.java
+
56
−
25
View file @
dd12c201
...
@@ -101,7 +101,7 @@ class PutDataSetExecutor implements IDataSetHandlerRpc
...
@@ -101,7 +101,7 @@ class PutDataSetExecutor implements IDataSetHandlerRpc
private
final
IImmutableCopier
copier
;
private
final
IImmutableCopier
copier
;
private
DataSetInformation
override
;
private
DataSetInformation
override
OrNull
;
PutDataSetExecutor
(
PutDataSetService
service
,
IETLServerPlugin
plugin
,
String
sessionToken
,
PutDataSetExecutor
(
PutDataSetService
service
,
IETLServerPlugin
plugin
,
String
sessionToken
,
NewDataSetDTO
newDataSet
,
InputStream
inputStream
)
NewDataSetDTO
newDataSet
,
InputStream
inputStream
)
...
@@ -141,7 +141,7 @@ class PutDataSetExecutor implements IDataSetHandlerRpc
...
@@ -141,7 +141,7 @@ class PutDataSetExecutor implements IDataSetHandlerRpc
getOpenBisService
().
checkSpaceAccess
(
sessionToken
,
spaceId
);
getOpenBisService
().
checkSpaceAccess
(
sessionToken
,
spaceId
);
writeDataSetToTempDirectory
();
writeDataSetToTempDirectory
();
createDefaultOverride
()
;
overrideOrNull
=
null
;
// Register the data set
// Register the data set
try
try
...
@@ -164,10 +164,10 @@ class PutDataSetExecutor implements IDataSetHandlerRpc
...
@@ -164,10 +164,10 @@ class PutDataSetExecutor implements IDataSetHandlerRpc
{
{
// Remember the old override, replace it with the override for the execution, then restore
// Remember the old override, replace it with the override for the execution, then restore
// it
// it
DataSetInformation
oldOverride
=
override
;
DataSetInformation
oldOverride
=
override
OrNull
;
if
(
newOverride
!=
null
)
if
(
newOverride
!=
null
)
{
{
override
=
newOverride
;
override
OrNull
=
newOverride
;
}
}
RegistrationHelper
helper
=
new
RegistrationHelper
(
service
,
plugin
,
dataSet
);
RegistrationHelper
helper
=
new
RegistrationHelper
(
service
,
plugin
,
dataSet
);
...
@@ -184,7 +184,7 @@ class PutDataSetExecutor implements IDataSetHandlerRpc
...
@@ -184,7 +184,7 @@ class PutDataSetExecutor implements IDataSetHandlerRpc
}
}
}).
runAlgorithm
();
}).
runAlgorithm
();
override
=
oldOverride
;
override
OrNull
=
oldOverride
;
return
Collections
.
singletonList
(
helper
.
getDataSetInformation
());
return
Collections
.
singletonList
(
helper
.
getDataSetInformation
());
}
}
...
@@ -248,30 +248,25 @@ class PutDataSetExecutor implements IDataSetHandlerRpc
...
@@ -248,30 +248,25 @@ class PutDataSetExecutor implements IDataSetHandlerRpc
public
DataSetInformation
getCallerDataSetInformation
()
public
DataSetInformation
getCallerDataSetInformation
()
{
{
return
override
;
DataSetInformation
dataSetInfo
=
new
DataSetInformation
();
}
private
void
createDefaultOverride
()
{
override
=
new
DataSetInformation
();
DataSetOwner
owner
=
getDataSetOwner
();
DataSetOwner
owner
=
getDataSetOwner
();
switch
(
owner
.
getType
())
switch
(
owner
.
getType
())
{
{
case
EXPERIMENT:
case
EXPERIMENT:
override
.
setExperimentIdentifier
(
tryExperimentIdentifier
());
dataSetInfo
.
setExperimentIdentifier
(
tryExperimentIdentifier
());
break
;
break
;
case
SAMPLE:
case
SAMPLE:
SampleIdentifier
sampleId
=
trySampleIdentifier
();
SampleIdentifier
sampleId
=
trySampleIdentifier
();
override
.
setSampleCode
(
sampleId
.
getSampleCode
());
dataSetInfo
.
setSampleCode
(
sampleId
.
getSampleCode
());
override
.
setSpaceCode
(
sampleId
.
getSpaceLevel
().
getSpaceCode
());
dataSetInfo
.
setSpaceCode
(
sampleId
.
getSpaceLevel
().
getSpaceCode
());
override
.
setInstanceCode
(
sampleId
.
getSpaceLevel
().
getDatabaseInstanceCode
());
dataSetInfo
.
setInstanceCode
(
sampleId
.
getSpaceLevel
().
getDatabaseInstanceCode
());
break
;
break
;
}
}
String
typeCode
=
newDataSet
.
tryDataSetType
();
String
typeCode
=
newDataSet
.
tryDataSetType
();
if
(
null
!=
typeCode
)
if
(
null
!=
typeCode
)
{
{
override
.
setDataSetType
(
new
DataSetType
(
typeCode
));
dataSetInfo
.
setDataSetType
(
new
DataSetType
(
typeCode
));
}
}
Map
<
String
,
String
>
primitiveProps
=
newDataSet
.
getProperties
();
Map
<
String
,
String
>
primitiveProps
=
newDataSet
.
getProperties
();
...
@@ -282,8 +277,10 @@ class PutDataSetExecutor implements IDataSetHandlerRpc
...
@@ -282,8 +277,10 @@ class PutDataSetExecutor implements IDataSetHandlerRpc
{
{
properties
.
add
(
new
NewProperty
(
key
,
primitiveProps
.
get
(
key
)));
properties
.
add
(
new
NewProperty
(
key
,
primitiveProps
.
get
(
key
)));
}
}
override
.
setDataSetProperties
(
properties
);
dataSetInfo
.
setDataSetProperties
(
properties
);
}
}
return
dataSetInfo
;
}
}
private
void
writeDataSetToTempDirectory
()
throws
IOException
private
void
writeDataSetToTempDirectory
()
throws
IOException
...
@@ -465,10 +462,13 @@ class PutDataSetExecutor implements IDataSetHandlerRpc
...
@@ -465,10 +462,13 @@ class PutDataSetExecutor implements IDataSetHandlerRpc
public
DataSetType
getDataSetType
(
File
incomingDataSetPath
)
public
DataSetType
getDataSetType
(
File
incomingDataSetPath
)
{
{
DataSetType
dataSetType
=
override
.
getDataSetType
();
if
(
null
!=
overrideOrNull
)
if
(
null
!=
dataSetType
)
{
{
return
dataSetType
;
DataSetType
dataSetType
=
overrideOrNull
.
getDataSetType
();
if
(
null
!=
dataSetType
)
{
return
dataSetType
;
}
}
}
return
pluginTypeExtractor
.
getDataSetType
(
incomingDataSetPath
);
return
pluginTypeExtractor
.
getDataSetType
(
incomingDataSetPath
);
}
}
...
@@ -635,14 +635,45 @@ class PutDataSetExecutor implements IDataSetHandlerRpc
...
@@ -635,14 +635,45 @@ class PutDataSetExecutor implements IDataSetHandlerRpc
IEncapsulatedOpenBISService
openbisService
)
throws
UserFailureException
,
IEncapsulatedOpenBISService
openbisService
)
throws
UserFailureException
,
EnvironmentFailureException
EnvironmentFailureException
{
{
if
(
null
!=
override
)
if
(
null
!=
override
OrNull
)
{
{
return
override
;
return
overrideOrNull
;
}
else
}
DataSetInformation
dataSetInfo
=
plugin
.
getDataSetInfoExtractor
().
getDataSetInformation
(
incomingDataSetPath
,
openbisService
);
DataSetOwner
owner
=
getDataSetOwner
();
switch
(
owner
.
getType
())
{
{
return
plugin
.
getDataSetInfoExtractor
().
getDataSetInformation
(
incomingDataSetPath
,
case
EXPERIMENT:
openbisService
);
dataSetInfo
.
setExperimentIdentifier
(
tryExperimentIdentifier
());
break
;
case
SAMPLE:
SampleIdentifier
sampleId
=
trySampleIdentifier
();
dataSetInfo
.
setSampleCode
(
sampleId
.
getSampleCode
());
dataSetInfo
.
setSpaceCode
(
sampleId
.
getSpaceLevel
().
getSpaceCode
());
dataSetInfo
.
setInstanceCode
(
sampleId
.
getSpaceLevel
().
getDatabaseInstanceCode
());
break
;
}
}
String
typeCode
=
newDataSet
.
tryDataSetType
();
if
(
null
!=
typeCode
)
{
dataSetInfo
.
setDataSetType
(
new
DataSetType
(
typeCode
));
}
Map
<
String
,
String
>
primitiveProps
=
newDataSet
.
getProperties
();
if
(
false
==
primitiveProps
.
isEmpty
())
{
ArrayList
<
NewProperty
>
properties
=
new
ArrayList
<
NewProperty
>();
for
(
String
key
:
primitiveProps
.
keySet
())
{
properties
.
add
(
new
NewProperty
(
key
,
primitiveProps
.
get
(
key
)));
}
dataSetInfo
.
setDataSetProperties
(
properties
);
}
return
dataSetInfo
;
}
}
}
}
}
}
This diff is collapsed.
Click to expand it.
Preview
0%
Loading
Try again
or
attach a new file
.
Cancel
You are about to add
0
people
to the discussion. Proceed with caution.
Finish editing this message first!
Save comment
Cancel
Please
register
or
sign in
to comment