def report(rname,qdir):
f = open(rname,'wb')
f.write('<!DOCTYPE html>\n')
f.write('<html>\n')
f.write('<body>\n')
hd = h1('Assembly Statistics')
f.write(hd)
f.write('<table>\n')
reportdir=qdir+'/report.txt'
for line in file(reportdir):
line = line.strip()
if re.match('All statistics are based on contigs', line):
f.write(p(line)+'\n')
elif len(line)>0 :
f.write('<tr>'+'\n')
elem = re.split('\s{2,}',line)
for el in elem:
f.write(td(el))
f.write('</tr>'+'\n')
f.write('</table>')
f.write(p(b('Please download the whole quast report data for details'))+'\n')
f.write('</body>')
f.write('</html>')
def eval_clf_perfs_bag_of_words():
minSplit = 0.2
maxSplit = 0.6
data= CH.getMasterData("../FinalResults/ImgShrRnkListWithTags.csv")
for attribsType in ['non_sparse','non_zero','abv_mean']:
print("Classifier training started for %s" %attribsType)
allAttribs = CH.genAllAttribs("../FinalResults/ImgShrRnkListWithTags.csv",attribsType,"../data/infoGainsExpt2.csv")
codes = []
classifiers = []
for i in np.arange(minSplit,maxSplit,0.1): # i is the test percent
clfForRoc = []
for method in methods:
clfObj = CH.buildBinClassifier(data,allAttribs,1-i,80,method,kwargsDict[method])
clfObj.runClf()
classifiers.append(clfObj)
clfForRoc.append(clfObj)
# logic for roc curve:
traces = []
for clfObj in clfForRoc:
fpr,tpr,_ = clfObj.roccurve
trace = go.Scatter(
x = fpr,
y = tpr,
name = clfObj.methodName
)
traces.append(trace)
layout = dict(
xaxis = dict(title='False Positive Rate'),
yaxis = dict(title='True Positive Rate'),
title = str('Train-Test Split Ratio: %f' %i)
)
fig = dict(data=traces,layout=layout)
codes.append(py.iplot(fig,filename="ROC_curve_%s_%i" %(attribsType,int(i*100))).embed_code)
flNm = "../ClassifierResults/ROC_curve_%s.html" %attribsType
with open(flNm,"w") as perf:
perf.write(HT.h1("ROC curves of Classifiers with %s Attributes." %attribsType))
for row in codes:
perf.write(HT.HTML(row))
gen_graphics_clf_perf(classifiers, attribsType)
print("Classifier training complete for %s" %attribsType)
print()
def getHtmlPageFromCsvFile(filePath, css, title):
""" Prepare a html page including a table """
myHtml = html(
head(
link(' ', rel='stylesheet', type='text/css', href=css),
title=filePath
)
)
myHtml = myHtml.append(
body(
h1(title),
getHtmlTableFromCsvFile(filePath),
)
)
return myHtml
def gen_graphics_clf_perf(classifiers, suffix):
printableClfs = []
for clf in classifiers:
printableClfs.append(dict(literal_eval(clf.__str__())))
df = pd.DataFrame(printableClfs)
df = df[['methodName','splitPercent','accScore','precision','recall','f1Score','auc','sqerr']]
df.columns = ['Classifier','Train-Test Split','Accuracy','Precision','Recall','F1 score','AUC','Squared Error']
df.to_csv("../ClassifierResults/extrmClfMetrics_%s.csv" %suffix,index=False)
iFrameBlock = []
for i in np.arange(minSplit,maxSplit,0.1):
df1 = df[(df['Train-Test Split']==1-i)]
df1.index = df1['Classifier']
df1 = df1[['Accuracy','Precision','Recall','F1 score','AUC','Squared Error']].transpose()
fig = df1.iplot(kind='bar',filename=str('Train-Test_Split_Ratio %s %f' %(suffix,1-i)),title=str('Train-Test Split Ratio: %f' %i))
iFrameBlock.append(fig.embed_code)
flNm = "../ClassifierResults/performanceComparison_%s.html" %suffix
with open(flNm,"w") as perf:
perf.write(HT.h1("Performance Comparisons of Classifiers with %s Attributes." %suffix))
for row in iFrameBlock:
perf.write(HT.HTML(row))
def to_html(results):
PREAMBLE_FILE = os.getenv('LSM_PREAMBLE_FILE', "")
preamble = ""
methods = [
'capabilities', 'systems', 'plugin_info', 'pools', 'job_status',
'job_free', 'iscsi_chap_auth', 'volumes', 'volume_create',
'volume_delete', 'volume_resize', 'volume_replicate',
'volume_replicate_range_block_size', 'volume_replicate_range',
'volume_enable', 'volume_disable', 'disks', 'target_ports',
'volume_mask', 'volume_unmask', 'volume_child_dependency',
'volume_child_dependency_rm', 'access_groups',
'access_groups_granted_to_volume', 'access_group_create',
'access_group_delete', 'volumes_accessible_by_access_group',
'access_groups_granted_to_volume', 'access_group_initiator_add',
'access_group_initiator_delete', 'fs', 'fs_create', 'fs_delete',
'fs_resize', 'fs_clone', 'fs_file_clone', 'fs_snapshots',
'fs_snapshot_create', 'fs_snapshot_delete', 'fs_snapshot_restore',
'fs_child_dependency', 'fs_child_dependency_rm', 'export_auth',
'exports', 'export_fs', 'export_remove'
]
ch = []
row_data = []
if os.path.isfile(PREAMBLE_FILE):
with open(PREAMBLE_FILE, 'r') as pm:
preamble = pm.read()
#Build column header
for r in results:
ch.append(r['SYSTEM']['ID'])
# Add overall pass/fail for unit tests
pass_fail = ['Overall Pass/Fail result']
for r in results:
if r['META']['ec'] == '0':
pass_fail.append('P')
else:
pass_fail.append('F')
row_data.append(pass_fail)
# Append on link for error log
error_log = ['Error log (click +)']
for r in results:
error_log.append('<a href="%s">+</a>' %
('./' + os.path.basename(r['META']['error_file'])))
row_data.append(error_log)
for m in methods:
row = [m]
for r in results:
row.append(get_result(r, m))
row_data.append(row)
# Build HTML
text = '<!DOCTYPE html>'
text += str(
html(
head(
link(rel="stylesheet", type="text/css", href="../../test.css"),
title("libStorageMgmt test results"),
),
body(
HTML(
h1("%s Results generated @ %s") %
(preamble, time.strftime("%c"))),
div(table(_table_header(ch), _table_body(row_data)),
_class="angled_table"),
div(
pre(" Legend\n"
" P = Pass (Method called and returned without error)\n"
" F = Fail (Method call returned an error)\n"
" U = Unsupported or unable to test due to other errors\n"
" * = Unable to connect to array or provider totally unsupported\n"
" + = hyper link to error log")))))
return bs(text).prettify()
def to_html(results):
PREAMBLE_FILE = os.getenv('LSM_PREAMBLE_FILE', "")
preamble = ""
methods = ['capabilities',
'systems', 'plugin_info', 'pools', 'job_status', 'job_free',
'iscsi_chap_auth',
'volumes', 'volume_create', 'volume_delete', 'volume_resize',
'volume_replicate', 'volume_replicate_range_block_size',
'volume_replicate_range', 'volume_enable', 'volume_disable',
'disks', 'target_ports',
'volume_mask',
'volume_unmask',
'volume_child_dependency',
'volume_child_dependency_rm',
'access_groups',
'access_groups_granted_to_volume',
'access_group_create',
'access_group_delete',
'volumes_accessible_by_access_group',
'access_groups_granted_to_volume',
'access_group_initiator_add',
'access_group_initiator_delete',
'fs',
'fs_create',
'fs_delete',
'fs_resize',
'fs_clone',
'fs_file_clone',
'fs_snapshots',
'fs_snapshot_create',
'fs_snapshot_delete',
'fs_snapshot_restore',
'fs_child_dependency',
'fs_child_dependency_rm',
'export_auth',
'exports',
'export_fs',
'export_remove'
]
ch = []
row_data = []
if os.path.isfile(PREAMBLE_FILE):
with open(PREAMBLE_FILE, 'r') as pm:
preamble = pm.read()
#Build column header
for r in results:
ch.append(r['SYSTEM']['ID'])
# Add overall pass/fail for unit tests
pass_fail = ['Overall Pass/Fail result']
for r in results:
if r['META']['ec'] == '0':
pass_fail.append('P')
else:
pass_fail.append('F')
row_data.append(pass_fail)
# Append on link for error log
error_log = ['Error log (click +)']
for r in results:
error_log.append('<a href="%s">+</a>' %
('./' + os.path.basename(r['META']['error_file'])))
row_data.append(error_log)
for m in methods:
row = [m]
for r in results:
row.append(get_result(r, m))
row_data.append(row)
# Build HTML
text = '<!DOCTYPE html>'
text += str(html(
head(link(rel="stylesheet", type="text/css",
href="../../test.css"),
title("libStorageMgmt test results"), ),
body(
HTML(h1("%s Results generated @ %s") % (preamble, time.strftime("%c"))),
div(table(_table_header(ch), _table_body(row_data)),
_class="angled_table"),
div(pre(
" Legend\n"
" P = Pass (Method called and returned without error)\n"
" F = Fail (Method call returned an error)\n"
" U = Unsupported or unable to test due to other errors\n"
" * = Unable to connect to array or provider totally unsupported\n"
" + = hyper link to error log\n\n\n",
HTML(' Source code for plug-in for this test run <a href=./smis.py.html>is here. </a>'))))
))
return bs(text).prettify()