def oneByAllLeesLRequest():
"""
Post example:
{
map : "PancanAtlas/SampleMap",
focusAttr: opts.dynamicData,
layoutIndex : 1,
email : Meteor.user().username,
};
focusAttr is in this form:
{"attrName" : { "sampleId" : value}, ... }
JSON response on Success from job queue:
{result:
[
[ attributeId, leesL, Rank, Pearson],
...,
...
]
}
For all attributes on the requested map.
"""
logging.info('One By All LeesL requested')
parms = validatePost()
ctx = Context({'app': appCtx})
responseDict = statsLayout_web.preCalc(parms, ctx)
logging.info(responseDict)
raise SuccessResp(responseDict)
def reflectionRequest():
"""
JSON post example
{
dataType : "dataTypePointsToAFileInReflectionConfig"
layout : "layoutTheToMapWillOpenUpOn"
toMap : "mapToViewReflection"
map : "Pancan12/SampleMap",
nodeIds : [id, id, ...],
rankCategories: True/False,
dynamicAttrName : "Kindey Isle"
email: [email protected]
};
JSON response on Success from job queue:
{
url : "http://aLong/UrlForTheClient/ToViewReflectionOnAMap"
dataRetrievalUrl : HUB_URL/reflect/attrId/<string:fileId>,
nNodes : 123
}
dataRetrievalUrl is an enpoint to download the calculated file.
"url" will open a map viewer with the reflection in your
browser.
nNodes is the number of nodes there was data for when
calculating reflection.
"""
logging.info('Reflection requested')
parms = validatePost()
ctx = Context({'app': appCtx})
responseDict = reflect_web.preCalc(parms, ctx)
logging.info(responseDict)
raise SuccessResp(responseDict)
def oneByAllStatRequest():
"""
Post example:
{
map : "PancanAtlas/SampleMap",
focusAttr: opts.dynamicData,
focusAttrDatatype : dType,
email : Meteor.user().username,
};
focusAttr is in this form:
{"attrName" : { "sampleId" : value}, ... }
focus attribute datatype is one of:
["bin", "cat", "cont"]
JSON response on Success from job queue:
{result:
[
[ attributeId, single-test pvalue, BHFDR, bonefonni],
...,
...
]
}
For all attributes on the requested map.
"""
logging.info('One By All Stat requested')
parms = validatePost()
ctx = Context({'app': appCtx})
responseDict = statsNoLayout_web.preCalc(parms, ctx)
logging.info(responseDict)
raise SuccessResp(responseDict)
def getRefAttr(attrId):
"""Returns reflection request JSON.
define return schema
"""
logging.info('Reflection get request, attrid: ' + attrId)
responseDict = reflect_web.getReflectionAttr(attrId)
raise SuccessResp(responseDict)
def deleteMap(mapId, userEmail=None, userRole=[]):
# Verify this is from the allowed view server
if not request.environ['REMOTE_ADDR'] in appCtx.viewServerAddrs and \
not request.environ['HTTP_X_FORWARDED_FOR'] in appCtx.viewServerAddrs:
raise ErrorResp('', 404)
raise SuccessResp(
projectEdit.delete(mapId, userEmail, _urlParmToList(userRole), appCtx))
def updateColor():
# Verify this is from the allowed view server.
# TODO why not use the view server name and certificate here,
# rather than the IP addr?
if not request.environ['REMOTE_ADDR'] in appCtx.viewServerAddrs and \
not request.environ['HTTP_X_FORWARDED_FOR'] in appCtx.viewServerAddrs:
raise ErrorResp('', 404)
raise SuccessResp(projectEdit.updateColor(validatePost(), appCtx))
def getReflectMetadata(mapId):
"""
:returns:
{
toMapIds : []
dataType : []
}
"""
responseDict = reflect_web.getReflectionMetadata(mapId)
raise SuccessResp(responseDict)
def highlightAttrNodeRoute():
raise SuccessResp(viewData.highlightAttrNode(validatePost(), appCtx))
def getLayoutListRoute(mapId):
raise SuccessResp(viewData.getLayoutList(mapId, appCtx))
def getFirstAttr(mapId):
raise SuccessResp(viewData.getFirstAttr(mapId, appCtx))
def queryPlaceNodeRoute():
raise SuccessResp(
placeNode_web.preCalc(validatePost(), Context({'app': appCtx})))
def getAttrById(attrId, mapId):
raise SuccessResp(viewData.getAttrById(attrId, mapId, appCtx))
def queryCreateMapRoute():
raise SuccessResp(
createMap_web.preCalc(validatePost(), Context({'app': appCtx })))
def queryOverlayNodesRoute():
raise SuccessResp(placeNode_web.preCalc(validatePost(),
Context({'app': appCtx, 'overlayNodes': True})))
def testRoute():
raise SuccessResp('just testing upload on data server')
def queryJobTestHelperRoute():
raise SuccessResp(
jobTestHelper_web.preCalc(validatePost(), Context({'app': appCtx})))
def getAll():
data = cellDataset.getAll(appCtx)
raise SuccessResp(data)
def jobStatusRoute(jobId):
raise SuccessResp(job.getStatus(jobId, appCtx.jobQueuePath))
def getMapListRoute(userEmail=None, userRole=[]):
raise SuccessResp(
projectList.get(userEmail, _urlParmToList(userRole), appCtx.viewDir))
def mapAuthRoute(mapId, userEmail=None, userRole=[]):
raise SuccessResp(projectList.authorize(mapId, userEmail,
_urlParmToList(userRole), appCtx.viewDir))
def getAllJobsRoute():
raise SuccessResp(job.getAll(appCtx.jobQueuePath))
def testRoute():
raise SuccessResp('just testing cellDb on data server')
def upload(dataId):
filename = uploadFile.oldApi(dataId, request)
raise SuccessResp('upload of ' + filename + ' complete')