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Commit f7002fca authored by Frédéric Escudié's avatar Frédéric Escudié
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GUI manage workflow.run errors. 

GUI display workflow execution errors.
Add log file for  workflow execution errors.
parent deb8268b
Hide whitespace changes
Inline Side-by-side
bin/jflow_server.py
View file @ f7002fca
......@@ -200,18 +200,21 @@ class JFlowServer (object):
@cherrypy.expose
@jsonify
def run_workflow(self, **kwargs):
kwargs_modified = {}
for key in kwargs.keys():
parts = key.split(JFlowServer.MULTIPLE_TYPE_SPLITER)
if len(parts) == 1:
kwargs_modified[key] = kwargs[key]
elif len(parts) == 2:
if kwargs_modified.has_key(parts[0]):
kwargs_modified[parts[0]].append((parts[1], kwargs[key]))
else:
kwargs_modified[parts[0]] = [(parts[1], kwargs[key])]
workflow = self.wfmanager.run_workflow(kwargs_modified["workflow_class"], kwargs_modified)
return self.jsonify_workflow_status(workflow, True)
try:
kwargs_modified = {}
for key in kwargs.keys():
parts = key.split(JFlowServer.MULTIPLE_TYPE_SPLITER)
if len(parts) == 1:
kwargs_modified[key] = kwargs[key]
elif len(parts) == 2:
if kwargs_modified.has_key(parts[0]):
kwargs_modified[parts[0]].append((parts[1], kwargs[key]))
else:
kwargs_modified[parts[0]] = [(parts[1], kwargs[key])]
workflow = self.wfmanager.run_workflow(kwargs_modified["workflow_class"], kwargs_modified)
return { "status" : 0, "content" : self.jsonify_workflow_status(workflow, True) }
except Exception as err:
return { "status" : 1, "content" : str(err) }
@cherrypy.expose
@jsonify
......@@ -300,6 +303,13 @@ class JFlowServer (object):
status.append(self.jsonify_workflow_status(workflow))
return status
@cherrypy.expose
@jsonify
def get_workflow_errors(self, **kwargs):
print JFlowServer.JFLOW_WDATA
print self.wfmanager.get_workflow_errors(kwargs["workflow_id"])
return self.wfmanager.get_workflow_errors(kwargs["workflow_id"])
@cherrypy.expose
@jsonify
def get_workflow_outputs(self, **kwargs):
......
src/jflow/workflow.py
View file @ f7002fca
......@@ -29,6 +29,7 @@ import urllib2
import types
import logging
from logging import FileHandler
from ConfigParser import ConfigParser, NoOptionError
from inspect import getcallargs
from urlparse import urlparse
......@@ -107,13 +108,46 @@ class Workflow(threading.Thread):
self.directory = self.manager.get_workflow_directory(self.name, self.id)
if not os.path.isdir(self.directory):
os.makedirs(self.directory, 0751)
if not hasattr(self, "stderr") or self.stderr is None:
self.set_stderr()
self._serialize()
def set_stderr(self):
if hasattr(self, "stderr") and self.stderr is not None:
os.rename( self.stderr, os.path.join(self.directory, str(time.time()) + "wf_stderr.old") )
stderr = os.path.join(self.directory, "wf_stderr.txt")
logger = logging.getLogger( "wf." + str(self.id) )
logger.setLevel(logging.DEBUG)
formatter = logging.Formatter( '%(asctime)s :: %(message)s' )
file_handler = FileHandler(stderr, 'a')
file_handler.setLevel(logging.ERROR)
file_handler.setFormatter(formatter)
logger.addHandler(file_handler)
self.stderr = stderr
@staticmethod
def config_parser(arg_lines):
for arg in arg_lines:
yield arg
def get_errors(self):
error_msg = list()
last_stacktrace_location = ""
FH_stderr = open( self.stderr )
lines = FH_stderr.readlines()
line_idx = 0
while line_idx < len(lines):
if lines[line_idx].startswith("Traceback"):
line_idx += 1
while lines[line_idx] != lines[line_idx].lstrip():
last_stacktrace_location = lines[line_idx].lstrip()
line_idx += 2
if not lines[line_idx].strip().endswith("RunWorflowException"):
error_msg.append( lines[line_idx].strip() )
line_idx += 1
FH_stderr.close()
return { "msg" : error_msg, "location" : last_stacktrace_location }
def get_outputs_per_components(self, web_path):
outputs_files = {}
for current_components in self.components:
......@@ -243,53 +277,58 @@ class Workflow(threading.Thread):
"""
Only require for Threading
"""
# if this is the first time the workflow run
if self.step == None :
self.start_time = time.time()
self.step = 0
self.status = self.STATUS_STARTED
self.end_time = None
self._serialize()
# if pre_processing has not been done yet
if self.step == 0:
self.pre_process()
self.step = 1
self._serialize()
# if collecting components and running workflow has not been done yet
if self.step == 1:
try:
self.wf_execution_wrapper()
except SystemExit, e:
self.status = self.STATUS_FAILED
self.end_time = time.time()
try:
# if this is the first time the workflow run
if self.step == None :
self.start_time = time.time()
self.step = 0
self.status = self.STATUS_STARTED
self.end_time = None
self._serialize()
raise
self.component_nameids_is_init = True
if self.dynamic_component_present:
self.step = 2
else:
self._execute_weaver()
# if pre_processing has not been done yet
if self.step == 0:
self.pre_process()
self.step = 1
self._serialize()
# if collecting components and running workflow has not been done yet
if self.step == 1:
try:
self.wf_execution_wrapper()
except SystemExit, e:
self.status = self.STATUS_FAILED
self.end_time = time.time()
self._serialize()
raise
self.component_nameids_is_init = True
if self.dynamic_component_present:
self.step = 2
else:
self._execute_weaver()
self.step = 3
self._serialize()
# if the workflow was a dynamic one
if self.step == 2:
try:
self.wf_execution_wrapper()
except SystemExit, e:
self.status = self.STATUS_FAILED
self.end_time = time.time()
self._serialize()
raise
if len(self.components_to_exec) > 0:
self._execute_weaver()
self.step = 3
self._serialize()
# if the workflow was a dynamic one
if self.step == 2:
try:
self.wf_execution_wrapper()
except SystemExit, e:
self.status = self.STATUS_FAILED
self._serialize()
# if post processing has ne been done yet
if self.step == 3:
self.post_process()
if self.status == self.STATUS_STARTED: self.status = self.STATUS_COMPLETED
self.end_time = time.time()
self._serialize()
raise
if len(self.components_to_exec) > 0:
self._execute_weaver()
self.step = 3
self._serialize()
# if post processing has ne been done yet
if self.step == 3:
self.post_process()
if self.status == self.STATUS_STARTED: self.status = self.STATUS_COMPLETED
self.end_time = time.time()
self._serialize()
except:
logging.getLogger("wf." + str(self.id)).exception("RunWorflowException")
raise
def _download_urlfile(self, input):
try:
......
src/jflow/workflows_manager.py
View file @ f7002fca
......@@ -76,6 +76,8 @@ class WorkflowsManager(object):
def rerun_workflow(self, workflow_id):
workflow = self.get_workflow(workflow_id)
if hasattr(workflow, "stderr"):
workflow.set_stderr()
workflow.start()
def run_workflow(self, workflow_class, args, function="process", parameters_section="parameters"):
......@@ -90,6 +92,10 @@ class WorkflowsManager(object):
self._add_workflow(workflow)
return workflow
def get_workflow_errors(self, workflow_id):
workflow = self.get_workflow(workflow_id)
return workflow.get_errors()
def get_workflow_ouputs(self, web_path, workflow_id):
workflow = self.get_workflow(workflow_id)
return workflow.get_outputs_per_components(web_path)
......@@ -157,5 +163,4 @@ class WorkflowsManager(object):
ifh.close()
finally:
WorkflowsManager.lock_ids_file.release()
return cid
\ No newline at end of file
return cid
\ No newline at end of file
src/js/jflow-wfform.js
View file @ f7002fca
......@@ -224,8 +224,18 @@ jQuery.validator.addMethod("exclude_required", function(value, element, options)
$.ajax({
url: $this.options.serverURL + '/run_workflow?' + params + 'callback=?',
dataType: "json",
success: function(running_wf) {
$this.$element.trigger('run', running_wf);
success: function(data) {
// Ajax success
if( data["status"] == 0 ) {
$this.$element.trigger('run', data["content"]);
// Ajax error
} else {
var alert_message = ['<div class="alert alert-error">',
'<strong>Error!</strong>',
'Jflow failed to run workflow <strong>' + data["content"] + '</strong>',
'</div>'].join('\n');
$this.$element.html(alert_message);
}
}
});
});
......
src/js/jflow-wfstatus.js
View file @ f7002fca
......@@ -60,6 +60,32 @@
return workflow;
}
WFStatus.prototype.errorMessage = function() {
var $this = this,
params = "" ;
if (this.options.workflowID) { params = "workflow_id=" + this.options.workflowID + "&"; }
$.ajax({
url: this.options.serverURL + '/get_workflow_errors?'+params+'callback=?',
dataType: "json",
timeout: 20000,
error: function (xhr, ajaxOptions, thrownError) {
var alert_message = ['<div class="alert alert-error">',
'<strong>Error!</strong>',
'Jflow failed to connect to the specified server <strong>' + $this.options.serverURL + '</strong>',
'</div>'].join('\n');
$this.$element.html(alert_message);
},
success: function(data) {
$this.$element.find("#wfstatus_error_panel").hide();
if( data["msg"].length != 0 ) {
$this.$element.find("#wfstatus_error_msg").text( data["msg"].join("<br/>") );
$this.$element.find("#wfstatus_error_location").text( data["location"] );
$this.$element.find("#wfstatus_error_panel").show();
}
}
});
}
WFStatus.prototype.reload = function() {
if (this.options.forceUsingWorkflow) {
var workflow = this.reformatWorkflowJSON(this.options.forceUsingWorkflow);
......@@ -97,6 +123,7 @@
var workflow = $this.reformatWorkflowJSON(data);
$this.$element.html("");
$.tmpl($this.options.template, {workflow: workflow}).appendTo($this.$element);
$this.errorMessage();
}
});
}
......@@ -133,6 +160,13 @@
'<dt>Elapsed time</dt>',
'<dd>${workflow.elapsed_time}</dd>',
'<br/>',
'<div id="wfstatus_error_panel" class="alert alert-error" style="display:none;">',
' <strong>Error message :</strong><br/>',
' <span id="wfstatus_error_msg"></span><br/>',
' <strong>Error location :</strong><br/>',
' <span id="wfstatus_error_location"></span>',
'</div>',
'<br/>',
'{{each(index, component) workflow.components}}',
'<dt>${component.name}</dt>',
'<dd>',
......
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