def create_results_tab(self, ample_dict):
if self.ccp4i2 or not self.summary_tab_id or not self._got_mrbump_results(
ample_dict):
return
mrb_results = ample_dict.get('mrbump_results')
if mrb_results == self.old_mrbump_results:
return
self.old_mrbump_results = mrb_results
if not self.results_tab_id:
self.results_tab_id = "results_tab"
pyrvapi.rvapi_insert_tab(self.results_tab_id, "Results",
self.summary_tab_id, False)
# Delete old sections:
pyrvapi.rvapi_flush()
for section_id in self.results_tab_sections:
pyrvapi.rvapi_remove_widget(section_id)
pyrvapi.rvapi_flush()
self.results_tab_sections = []
ensemble_results = ample_dict[
'ensembles_data'] if 'ensembles_data' in ample_dict[
'ensembles_data'] else None
mrbsum = mrbump_util.ResultsSummary(
results=mrb_results[0:min(len(mrb_results), mrbump_util.TOP_KEEP)])
mrbsum.sortResults(prioritise="SHELXE_CC")
self.results_section(
self.results_tab_id, mrbsum.results, ensemble_results,
"Top {0} SHELXE Results".format(mrbump_util.TOP_KEEP))
mrbsum.sortResults(prioritise="PHASER_TFZ")
# Add seperator between results - doesn't work as not deleted on refresh
# pyrvapi.rvapi_add_text("<br/><hr/><br/>", self.results_tab_id, 0, 0, 1, 1)
self.results_section(
self.results_tab_id, mrbsum.results, ensemble_results,
"Top {0} PHASER Results".format(mrbump_util.TOP_KEEP))
return self.results_tab_id
def create_results_tab(self, ample_dict):
if self.ccp4i2 or not self.summary_tab_id or not self._got_mrbump_results(ample_dict):
return
mrb_results = ample_dict.get('mrbump_results')
if mrb_results == self.old_mrbump_results:
return
self.old_mrbump_results = mrb_results
if not self.results_tab_id:
self.results_tab_id = "results_tab"
pyrvapi.rvapi_insert_tab(self.results_tab_id,
"Results", self.summary_tab_id, False)
# Delete old sections:
pyrvapi.rvapi_flush()
for section_id in self.results_tab_sections:
pyrvapi.rvapi_remove_widget(section_id)
pyrvapi.rvapi_flush()
self.results_tab_sections = []
ensemble_results = ample_dict['ensembles_data'] if 'ensembles_data' in ample_dict['ensembles_data'] else None
mrbsum = mrbump_util.ResultsSummary(results=mrb_results[0:min(len(mrb_results),mrbump_util.TOP_KEEP)])
mrbsum.sortResults(prioritise="SHELXE_CC")
self.results_section(self.results_tab_id,
mrbsum.results,
ensemble_results,
"Top {0} SHELXE Results".format(mrbump_util.TOP_KEEP))
mrbsum.sortResults(prioritise="PHASER_TFZ")
self.results_section(self.results_tab_id,
mrbsum.results,
ensemble_results,
"Top {0} PHASER Results".format(mrbump_util.TOP_KEEP))
return self.results_tab_id
def create_citation_tab(self, ample_dict):
if self.citation_tab_id:
return
self.citation_tab_id = "citation_tab"
pyrvapi.rvapi_insert_tab(self.citation_tab_id, "Citation",
self.log_tab_id, False)
refMgr = reference_manager.ReferenceManager(ample_dict)
bibtex_file = refMgr.save_citations_to_file(ample_dict)
if self.ccp4i2:
# The horror of ccp4i2 means that this all gets dumped into xml so we can't use any markup tags
tdata = refMgr.citations_as_text
else:
tdata = refMgr.methods_as_html
tdata += refMgr.citations_as_html
tdata += '<hr><p>A bibtex file with the relevant citations has been saved to: {}</p>'.format(
bibtex_file)
pyrvapi.rvapi_add_text(tdata, self.citation_tab_id, 0, 0, 1, 1)
if not self.ccp4i2:
pyrvapi.rvapi_add_data(
"bibtex_file",
"Citations as BIBTEX",
self.fix_path(bibtex_file),
"text",
self.citation_tab_id,
2,
0,
1,
1,
True,
)
return self.citation_tab_id
def _create_summary_tab(self):
if not self.summary_tab_id:
self.summary_tab_id = "summary_tab"
title = "Summary"
pyrvapi.rvapi_insert_tab(self.summary_tab_id, title, self.citation_tab_id, False)
# Create pending section until we have data to show
self.summary_tab_pending_sec_id = 'summary_tab_pending'
pyrvapi.rvapi_add_section(self.summary_tab_pending_sec_id, "Processing...",
self.summary_tab_id, 0, 0, 1, 1, True)
rstr = "<p>No results are currently available. Please check back later.</p>"
pyrvapi.rvapi_add_text(rstr, self.summary_tab_pending_sec_id, 0, 0, 1, 1)
return
def create_citation_tab(self, ample_dict):
if self.citation_tab_id:
return
self.citation_tab_id = "citation_tab"
pyrvapi.rvapi_insert_tab(self.citation_tab_id, "Citation", self.log_tab_id, False)
refMgr = reference_manager.ReferenceManager(ample_dict)
bibtex_file = refMgr.save_citations_to_file(ample_dict)
if self.ccp4i2:
# The horror of ccp4i2 means that this all gets dumped into xml so we can't use any markup tags
tdata = refMgr.citations_as_text
else:
tdata = refMgr.methods_as_html
tdata += refMgr.citations_as_html
tdata += '<hr><p>A bibtex file with the relevant citations has been saved to: {}</p>'.format(bibtex_file)
pyrvapi.rvapi_add_text(tdata, self.citation_tab_id, 0, 0, 1, 1)
if not self.ccp4i2:
pyrvapi.rvapi_add_data("bibtex_file",
"Citations as BIBTEX",
self.fix_path(bibtex_file),
"text",
self.citation_tab_id,
2, 0, 1, 1, True)
return self.citation_tab_id
def create_results_tab(self, ample_dict):
if self.ccp4i2 or not self.summary_tab_id: return
if not self._got_mrbump_results(ample_dict): return
mrb_results = ample_dict['mrbump_results']
if mrb_results == self.old_mrbump_results: return
self.old_mrbump_results = mrb_results
if not self.results_tab_id:
self.results_tab_id = "results_tab"
# Insert results tab before summary tab
pyrvapi.rvapi_insert_tab(
self.results_tab_id, "Results", self.summary_tab_id,
False) # Last arg is "open" - i.e. show or hide
# Delete old sections:
pyrvapi.rvapi_flush()
for section_id in self.results_tab_sections:
pyrvapi.rvapi_remove_widget(section_id)
pyrvapi.rvapi_flush()
self.results_tab_sections = []
ensemble_results = ample_dict[
'ensembles_data'] if 'ensembles_data' in ample_dict[
'ensembles_data'] else None
mrbsum = mrbump_util.ResultsSummary(
results=mrb_results[0:min(len(mrb_results), mrbump_util.TOP_KEEP)])
mrbsum.sortResults(prioritise="SHELXE_CC")
self.results_section(
self.results_tab_id, mrbsum.results, ensemble_results,
"Top {0} SHELXE Results".format(mrbump_util.TOP_KEEP))
mrbsum.sortResults(prioritise="PHASER_TFZ")
self.results_section(
self.results_tab_id, mrbsum.results, ensemble_results,
"Top {0} PHASER Results".format(mrbump_util.TOP_KEEP))
return self.results_tab_id
def _create_summary_tab(self):
if not self.summary_tab_id:
self.summary_tab_id = "summary_tab"
title = "Summary"
if self.ccp4i2:
# Create summary tab
pyrvapi.rvapi_add_tab(
self.summary_tab_id, title,
True) # Last arg is "open" - i.e. show or hide
else:
# Insert summary tab before log tab
pyrvapi.rvapi_insert_tab(
self.summary_tab_id, title, self.log_tab_id,
False) # Last arg is "open" - i.e. show or hide
# Create pending section until we have data to show
self.summary_tab_pending_sec_id = 'summary_tab_pending'
pyrvapi.rvapi_add_section(self.summary_tab_pending_sec_id,
"Processing...", self.summary_tab_id, 0,
0, 1, 1, True)
rstr = "<p>No results are currently available. Please check back later. when your structure will have been solved. Honest.</p>"
pyrvapi.rvapi_add_text(rstr, self.summary_tab_pending_sec_id, 0, 0,
1, 1)
return
def insertTab(self, tabId, tabName, beforeTabId, opened):
pyrvapi.rvapi_insert_tab(tabId, tabName, beforeTabId, opened)
return self.setOutputPage([tabId, 0])
def _insert_tab_to_pyrvapi(self, id, title, other_tab_id, opened):
pyrvapi.rvapi_insert_tab(id, title, other_tab_id, opened)
def _insert_tab_to_pyrvapi(self, id, title, other_tab_id, opened):
pyrvapi.rvapi_insert_tab(id, title, other_tab_id, opened)