def imageDetailByKey(key):
image = image_hunter.getImageByKey(key)
if image:
return renderImageDetail(image)
#return renderImageDetail()
return error_template('No image found for key= %s' % key)
def imageDetailById(id):
image = image_hunter.getImageByMGIID(id)
if image:
return renderImageDetail(image)
#return renderImageDetail()
return error_template('No image found for ID = %s' % id)
def genotypeDetailById(genotypeId):
"""
Same as all genotype summary for Allele, but renders
only the one genotype
"""
genotype = genotype_hunter.getGenotypeByMGIID(genotypeId)
if genotype:
return renderGenotypeDetailForGenotype(genotype)
return error_template('No genotype found for ID = %s' % genotypeId)
def genotypeDetailById(genotypeId):
"""
Same as all genotype summary for Allele, but renders
only the one genotype
"""
genotype = genotype_hunter.getGenotypeByMGIID(genotypeId)
if genotype:
return renderGenotypeDetailForGenotype(genotype)
return error_template('No genotype found for ID = %s' % genotypeId)
def renderAccessionIDSearch(ids):
global ACC_TYPE_MAP
accessionObj = None
# Try object retrieval with mapped mgitype keys first
accessionObjList = accession_hunter.getAccessionByAccID(
ids, inMGITypeKeys=list(ACC_TYPE_MAP.keys()))
# try marker symbols too
accessionObjList.extend(accession_hunter.getAccessionByMarkerSymbol(ids))
app.logger.debug("found %s accession objects: %s" \
% (len(accessionObjList), [r.accid for r in accessionObjList]))
# If multiple accession objects, send to summary
if len(accessionObjList) > 1:
return render_template("summary/accession/accession_summary.html",
ids=ids,
typemap=ACC_TYPE_MAP,
accessionObjList=accessionObjList)
# If single accession object, forward to detail page of object
if len(accessionObjList) == 1:
accessionObj = accessionObjList[0]
objectType = ACC_TYPE_MAP[accessionObj._mgitype_key]
newUrl = getURLForObject(accessionObj, objectType)
return redirect(newUrl)
# If we made it this far, and no accession object was found, we
# try again without mapped mgitype keys as a filter
accessionObjList = accession_hunter.getAccessionByAccID(ids)
if len(accessionObjList) > 0:
tabletype = '%s(%s)' % (accessionObj.mgitype.name,
accessionObj.mgitype.tablename)
return error_template('Found %s object with ID = %s, '
'but no link URL has been defined.' %
(tabletype, id))
# if still have no accession object, return default error page
return error_template('No accession object found for ID = %s' % ids)
def renderAccessionIDSearch(ids):
global ACC_TYPE_MAP
accessionObj = None
# Try object retrieval with mapped mgitype keys first
accessionObjList = accession_hunter.getAccessionByAccID(ids, inMGITypeKeys=ACC_TYPE_MAP.keys())
# try marker symbols too
accessionObjList.extend(accession_hunter.getAccessionByMarkerSymbol(ids))
app.logger.debug("found %s accession objects: %s" % (len(accessionObjList), [r.accid for r in accessionObjList]))
# If multiple accession objects, send to summary
if len(accessionObjList) > 1:
return render_template(
"summary/accession/accession_summary.html", ids=ids, typemap=ACC_TYPE_MAP, accessionObjList=accessionObjList
)
# If single accession object, forward to detail page of object
if len(accessionObjList) == 1:
accessionObj = accessionObjList[0]
objectType = ACC_TYPE_MAP[accessionObj._mgitype_key]
newUrl = getURLForObject(accessionObj, objectType)
return redirect(newUrl)
# If we made it this far, and no accession object was found, we
# try again without mapped mgitype keys as a filter
accessionObjList = accession_hunter.getAccessionByAccID(ids)
if len(accessionObjList) > 0:
tabletype = "%s(%s)" % (accessionObj.mgitype.name, accessionObj.mgitype.tablename)
return error_template("Found %s object with ID = %s, " "but no link URL has been defined." % (tabletype, id))
# if still have no accession object, return default error page
return error_template("No accession object found for ID = %s" % ids)
def assayDetailById(id):
assay = gxd_assay_hunter.getAssayByMGIID(id)
if assay:
return renderAssayDetail(assay)
return error_template('No assay found for ID = %s' % id)
def voctermDetailById(id):
vocterm = vocterm_hunter.getVocTermByPrimaryID(id)
if vocterm:
return renderVocTermDetail(vocterm)
return error_template('No VocTerm found for primary ID = %s' % id)
def voctermDetailByKey(key):
vocterm = vocterm_hunter.getVocTermByKey(key)
if vocterm:
return renderVocTermDetail(vocterm)
return error_template('No VocTerm found for _term_key = %d' % key)
def probeDetailById(id):
probe = probe_hunter.getProbeByMGIID(id)
if probe:
return renderProbeDetail(probe)
return error_template('No probe found for ID = %s' % id)
def markerDetailByKey(key):
marker = marker_hunter.getMarkerByKey(key)
if marker:
return renderMarkerDetail(marker)
return error_template('No marker found for _marker_key = %d' % key)
def alleleDetailByKey(key):
allele = allele_hunter.getAlleleByKey(key)
if allele:
return renderAlleleDetail(allele)
return error_template('No allele found for _allele_key = %d' % key)
def markerDetailById(id):
marker = marker_hunter.getMarkerByMGIID(id)
if marker:
return renderMarkerDetail(marker)
return error_template('No marker found for ID = %s' % id)
def experimentDetailById(id):
experiment = experiment_hunter.getExperimentByMGIID(id)
if experiment:
return renderExperimentDetail(experiment)
return error_template('No experiment found for ID = %s' % id)
def experimentDetailByKey(key):
experiment = experiment_hunter.getExperimentByKey(key)
if experiment:
return renderExperimentDetail(experiment)
return error_template('No experiment found for _experiment_key = %d' % key)
def probeDetailByKey(key):
probe = probe_hunter.getProbeByKey(key)
if probe:
return renderProbeDetail(probe)
return error_template('No probe found for _probe_key = %d' % key)
def probeDetailById(id):
probe = probe_hunter.getProbeByMGIID(id)
if probe:
return renderProbeDetail(probe)
return error_template('No probe found for ID = %s' % id)
def voctermDetailById(id):
vocterm = vocterm_hunter.getVocTermByPrimaryID(id)
if vocterm:
return renderVocTermDetail(vocterm)
return error_template('No VocTerm found for primary ID = %s' % id)
def assayrDetailByKey(key):
assay = gxd_assay_hunter.getAssayByKey(key)
if assay:
return renderAssayDetail(assay)
return error_template('No assay found for _assay_key = %d' % key)
def alleleDetailById(id):
allele = allele_hunter.getAlleleByMGIID(id)
if allele:
return renderAlleleDetail(allele)
return error_template('No allele found for ID = %s' % id)
def markerDetailByKey(key):
marker = marker_hunter.getMarkerByKey(key)
if marker:
return renderMarkerDetail(marker)
return error_template('No marker found for _marker_key = %d' % key)
def experimentDetailById(id):
experiment = experiment_hunter.getExperimentByMGIID(id)
if experiment:
return renderExperimentDetail(experiment)
return error_template('No experiment found for ID = %s' % id)
def probeDetailByKey(key):
probe = probe_hunter.getProbeByKey(key)
if probe:
return renderProbeDetail(probe)
return error_template('No probe found for _probe_key = %d' % key)
def alleleDetailById(id):
allele = allele_hunter.getAlleleByMGIID(id)
if allele:
return renderAlleleDetail(allele)
return error_template('No allele found for ID = %s' % id)
def markerDetailById(id):
marker = marker_hunter.getMarkerByMGIID(id)
if marker:
return renderMarkerDetail(marker)
return error_template('No marker found for ID = %s' % id)
def antibodyDetailByKey(key):
antibody = antibody_hunter.getAntibodyByKey(key)
if antibody:
return renderAntibodyDetail(antibody)
return error_template('No antibody found for _antibody_key = %d' % key)
def voctermDetailByKey(key):
vocterm = vocterm_hunter.getVocTermByKey(key)
if vocterm:
return renderVocTermDetail(vocterm)
return error_template('No VocTerm found for _term_key = %d' % key)
def antibodyDetailByKey(key):
antibody = antibody_hunter.getAntibodyByKey(key)
if antibody:
return renderAntibodyDetail(antibody)
return error_template('No antibody found for _antibody_key = %d' % key)
def alleleDetailByKey(key):
allele = allele_hunter.getAlleleByKey(key)
if allele:
return renderAlleleDetail(allele)
return error_template('No allele found for _allele_key = %d' % key)
def experimentDetailByKey(key):
experiment = experiment_hunter.getExperimentByKey(key)
if experiment:
return renderExperimentDetail(experiment)
return error_template('No experiment found for _experiment_key = %d' % key)
def antibodyDetailById(id):
antibody = antibody_hunter.getAntibodyByMGIID(id)
if antibody:
return renderAntibodyDetail(antibody)
return error_template('No antibody found for ID = %s' % id)
def antibodyDetailById(id):
antibody = antibody_hunter.getAntibodyByMGIID(id)
if antibody:
return renderAntibodyDetail(antibody)
return error_template('No antibody found for ID = %s' % id)
