def GET(self, request, response):
self.check_viewable(self.user)
page = HtmlPage(self, title='Accounts')
page.header = DIV(H1(page.title),
utils.rst_to_html(Account.__doc__))
if self.get_editable(self.user):
page.append(P(FORM(INPUT(type='submit', value='Create new account'),
method='GET',
action=configuration.get_url('account'))))
rows = [TR(TH('Account'),
TH('Full name'),
TH('Role'),
TH('Initials'))]
for result in self.db.view('account/name', include_docs=True):
doc = result.doc
ref = A(result.key,
href=configuration.get_url('account', result.key))
rows.append(TR(TD(ref),
TD(result.value or ''),
TD(doc.get('role')),
TD(doc.get('initials') or '')))
page.append(TABLE(border=1, *rows))
page.write(response)
def GET(self, request, response):
self.check_viewable(self.user)
page = HtmlPage(self, title='Instruments')
page.header = DIV(H1(page.title),
utils.rst_to_html(Instrument.__doc__))
if self.get_editable(self.user):
page.append(P(FORM(INPUT(type='submit',
value='Create new instrument'),
method='GET',
action=configuration.get_url('instrument'))))
rows = [TR(TH('Instrument'),
TH('Label'),
TH('Type'),
TH('Timestamp'))]
view = self.db.view('instrument/name', include_docs=True)
for result in view:
doc = result.doc
instrument = A(doc['name'],
href=configuration.get_url('instrument',doc['name']))
rows.append(TR(TD(instrument),
TD(doc['label'] or ''),
TD(doc['type']),
TD(doc['timestamp'])))
page.append(TABLE(border=1, *rows))
page.write(response)
def GET(self, request, response):
self.check_viewable(self.user)
page = HtmlPage(self, title='Instruments')
page.header = DIV(H1(page.title),
utils.rst_to_html(Instrument.__doc__))
if self.get_editable(self.user):
page.append(
P(
FORM(INPUT(type='submit', value='Create new instrument'),
method='GET',
action=configuration.get_url('instrument'))))
rows = [TR(TH('Instrument'), TH('Label'), TH('Type'), TH('Timestamp'))]
view = self.db.view('instrument/name', include_docs=True)
for result in view:
doc = result.doc
instrument = A(doc['name'],
href=configuration.get_url('instrument',
doc['name']))
rows.append(
TR(TD(instrument), TD(doc['label'] or ''), TD(doc['type']),
TD(doc['timestamp'])))
page.append(TABLE(border=1, *rows))
page.write(response)
def GET(self, request, response):
# XXX implement check_viewable properly
self.check_viewable(self.user)
page = HtmlPage(self, title="Tool %s" % self.tool)
page.header = DIV(H1(page.title), utils.rst_to_html(self.tool.__doc__))
page.append(
FORM(self.tool.get_view(self),
INPUT(type='hidden',
name='entity',
value=self.tool.get_entity_tag(self.doc)),
method='POST',
action=self.tool.get_url()))
page.write(response)
def GET(self, request, response):
self.check_viewable(self.user)
page = HtmlPage(self, title='Tasks')
page.header = DIV(H1(page.title),
utils.rst_to_html(Task.__doc__))
if self.get_editable(self.user):
page.append(P(FORM(INPUT(type='submit',
value='Create new task'),
method='GET',
action=configuration.get_url('task'))))
operator = self.get_selected_operator(request)
page.append(P(self.get_operator_select_form('tasks',operator)))
if operator:
view = self.db.view('task/operator', include_docs=True)
result = view[operator]
else:
result = self.db.view('task/name', include_docs=True)
tasks = [r.doc for r in result]
tasks.sort(lambda i, j: cmp(i['name'], i['name']))
rows = [TR(TH('Task'),
TH('Runname'),
TH('Protocol'),
TH('Instrument'),
TH('Operator'),
TH('Timestamp'))]
for row in result:
doc = row.doc
task = A(doc['name'], href=configuration.get_entity_url(doc))
url = configuration.get_url('protocol', doc['protocol'])
protocol = A(doc['protocol'], href=url)
instrument = doc.get('instrument') or ''
if instrument:
url = configuration.get_url('instrument', instrument)
instrument = A(instrument, href=url)
operator = doc.get('operator') or ''
if operator:
url = configuration.get_url('account', operator)
operator = A(operator, href=url)
rows.append(TR(TD(task),
TD(doc.get('runname') or ''),
TD(protocol),
TD(instrument),
TD(operator),
TD(doc['timestamp'])))
page.append(TABLE(border=1, *rows))
page.write(response)
def GET(self, request, response):
title = 'slog: simple lab tracking'
page = HtmlPage(self, title=title)
page.header = DIV(H1('slog: simple lab tracking'),
utils.rst_to_html("""Slog is a simple tracking system
for the lab. It consists of a number of types of entities representing things
to which information is attached. The entities have defined relationships
to each other. A log of who did what when to an entity is maintained.
A log entry also contains a snapshot of the information for an entity before
the change."""))
page.append(H2('Types of entities in the system'))
rows = []
for klass in [Account,
Project,
Sample,
Workset,
Protocol,
Task,
Instrument]:
rows.append(TR(TH(klass.__name__),
TD(utils.rst_to_html(klass.__doc__))))
page.append(TABLE(*rows))
page.write(response)
def GET(self, request, response):
# XXX implement check_viewable properly
self.check_viewable(self.user)
page = HtmlPage(self, title="Tool %s" % self.tool)
page.header = DIV(H1(page.title), utils.rst_to_html(self.tool.__doc__))
page.append(
FORM(
self.tool.get_view(self),
INPUT(type="hidden", name="entity", value=self.tool.get_entity_tag(self.doc)),
method="POST",
action=self.tool.get_url(),
)
)
page.write(response)
def GET(self, request, response):
self.check_viewable(self.user)
page = HtmlPage(self, title='Worksets')
page.header = DIV(H1(page.title),
utils.rst_to_html(Workset.__doc__))
if self.get_editable(self.user):
page.append(P(FORM(INPUT(type='submit', value='Create new workset'),
method='GET',
action=configuration.get_url('workset'))))
operator = self.get_selected_operator(request)
page.append(P(self.get_operator_select_form('worksets', operator)))
if operator:
view = self.db.view('workset/operator', include_docs=True)[operator]
else:
view = self.db.view('workset/name', include_docs=True)
worksets = [r.doc for r in view]
worksets.sort(lambda i, j: cmp(i['name'], i['name']))
rows = [TR(TH('Workset'),
TH('Operator'),
TH('Samples'),
TH('Timestamp'))]
for workset in worksets:
operator = workset.get('operator')
if operator:
url = configuration.get_url('account', operator)
operator = A(operator, href=url)
else:
operator = ''
samples = workset.get('samples', [])
for i, sample in enumerate(samples):
url = configuration.get_url('sample', sample)
samples[i] = str(A(sample, href=url))
samples = ', '.join(samples)
url = configuration.get_url('workset', workset['name'])
rows.append(TR(TD(A(workset['name'], href=url)),
TD(operator),
TD(samples),
TD(workset['timestamp'])))
page.append(TABLE(border=1, *rows))
page.write(response)
def GET(self, request, response):
self.check_viewable(self.user)
page = HtmlPage(self, title='Tasks')
page.header = DIV(H1(page.title), utils.rst_to_html(Task.__doc__))
if self.get_editable(self.user):
page.append(
P(
FORM(INPUT(type='submit', value='Create new task'),
method='GET',
action=configuration.get_url('task'))))
operator = self.get_selected_operator(request)
page.append(P(self.get_operator_select_form('tasks', operator)))
if operator:
view = self.db.view('task/operator', include_docs=True)
result = view[operator]
else:
result = self.db.view('task/name', include_docs=True)
tasks = [r.doc for r in result]
tasks.sort(lambda i, j: cmp(i['name'], i['name']))
rows = [
TR(TH('Task'), TH('Runname'), TH('Protocol'), TH('Instrument'),
TH('Operator'), TH('Timestamp'))
]
for row in result:
doc = row.doc
task = A(doc['name'], href=configuration.get_entity_url(doc))
url = configuration.get_url('protocol', doc['protocol'])
protocol = A(doc['protocol'], href=url)
instrument = doc.get('instrument') or ''
if instrument:
url = configuration.get_url('instrument', instrument)
instrument = A(instrument, href=url)
operator = doc.get('operator') or ''
if operator:
url = configuration.get_url('account', operator)
operator = A(operator, href=url)
rows.append(
TR(TD(task), TD(doc.get('runname') or ''), TD(protocol),
TD(instrument), TD(operator), TD(doc['timestamp'])))
page.append(TABLE(border=1, *rows))
page.write(response)
def GET(self, request, response):
self.check_viewable(self.user)
page = HtmlPage(self, title='Worksets')
page.header = DIV(H1(page.title), utils.rst_to_html(Workset.__doc__))
if self.get_editable(self.user):
page.append(
P(
FORM(INPUT(type='submit', value='Create new workset'),
method='GET',
action=configuration.get_url('workset'))))
operator = self.get_selected_operator(request)
page.append(P(self.get_operator_select_form('worksets', operator)))
if operator:
view = self.db.view('workset/operator',
include_docs=True)[operator]
else:
view = self.db.view('workset/name', include_docs=True)
worksets = [r.doc for r in view]
worksets.sort(lambda i, j: cmp(i['name'], i['name']))
rows = [
TR(TH('Workset'), TH('Operator'), TH('Samples'), TH('Timestamp'))
]
for workset in worksets:
operator = workset.get('operator')
if operator:
url = configuration.get_url('account', operator)
operator = A(operator, href=url)
else:
operator = ''
samples = workset.get('samples', [])
for i, sample in enumerate(samples):
url = configuration.get_url('sample', sample)
samples[i] = str(A(sample, href=url))
samples = ', '.join(samples)
url = configuration.get_url('workset', workset['name'])
rows.append(
TR(TD(A(workset['name'], href=url)), TD(operator), TD(samples),
TD(workset['timestamp'])))
page.append(TABLE(border=1, *rows))
page.write(response)
def GET(self, request, response):
self.check_viewable(self.user)
page = HtmlPage(self, title='Samples')
page.header = DIV(H1(page.title),
utils.rst_to_html(Sample.__doc__))
if self.user.get('role') in ('admin', 'manager', 'engineer'):
operator = self.get_selected_operator(request)
page.append(P(self.get_operator_select_form('samples', operator)))
else: # Customer can only view his own samples
operator = self.user['name']
view = self.db.view('project/customer')
if operator:
result = list(view[operator])
else:
result = list(view)
projects = [r.value for r in result]
rows = [TR(TH('Project'),
TH('Sample'),
TH('Customername'))]
for project in projects:
link_project = A(project,
href=configuration.get_url('project', project))
view = self.db.view('sample/project', include_docs=True)
samples = [r.doc for r in view[project]]
if samples:
samples.sort(lambda i, j: cmp(i['name'], j['name']))
for sample in samples:
if link_project:
cells = [TD(link_project, rowspan=len(samples))]
link_project = None # Skip after first row
else:
cells = []
url = configuration.get_entity_url(sample)
cells.append(TD(A(sample['name'], href=url)))
cells.append(TD(sample.get('customername') or ''))
rows.append(TR(*cells))
else:
rows.append(TR(TD(link_project)))
page.append(TABLE(border=1, *rows))
page.write(response)
def GET(self, request, response):
self.check_viewable(self.user)
page = HtmlPage(self, title='Protocols')
page.header = DIV(H1(page.title), utils.rst_to_html(Protocol.__doc__))
if self.get_editable(self.user):
page.append(
P(
FORM(INPUT(type='submit', value='Create new protocol'),
method='GET',
action=configuration.get_url('protocol'))))
view = self.db.view('protocol/name', include_docs=True)
rows = [TR(TH('Protocol'), TH('Timestamp'))]
for result in view:
doc = result.doc
protocol = A(doc['name'],
href=configuration.get_url('protocol', doc['name']))
rows.append(TR(TD(protocol), TD(doc['timestamp'])))
page.append(TABLE(border=1, *rows))
page.write(response)
def GET(self, request, response):
self.check_viewable(self.user)
page = HtmlPage(self, title='Samples')
page.header = DIV(H1(page.title), utils.rst_to_html(Sample.__doc__))
if self.user.get('role') in ('admin', 'manager', 'engineer'):
operator = self.get_selected_operator(request)
page.append(P(self.get_operator_select_form('samples', operator)))
else: # Customer can only view his own samples
operator = self.user['name']
view = self.db.view('project/customer')
if operator:
result = list(view[operator])
else:
result = list(view)
projects = [r.value for r in result]
rows = [TR(TH('Project'), TH('Sample'), TH('Customername'))]
for project in projects:
link_project = A(project,
href=configuration.get_url('project', project))
view = self.db.view('sample/project', include_docs=True)
samples = [r.doc for r in view[project]]
if samples:
samples.sort(lambda i, j: cmp(i['name'], j['name']))
for sample in samples:
if link_project:
cells = [TD(link_project, rowspan=len(samples))]
link_project = None # Skip after first row
else:
cells = []
url = configuration.get_entity_url(sample)
cells.append(TD(A(sample['name'], href=url)))
cells.append(TD(sample.get('customername') or ''))
rows.append(TR(*cells))
else:
rows.append(TR(TD(link_project)))
page.append(TABLE(border=1, *rows))
page.write(response)
def GET(self, request, response):
self.check_viewable(self.user)
page = HtmlPage(self, title='Projects')
page.header = DIV(H1(page.title),
utils.rst_to_html(Project.__doc__))
if self.get_editable(self.user):
page.append(P(FORM(INPUT(type='submit', value='Create new project'),
method='GET',
action=configuration.get_url('project'))))
view = self.db.view('sample/project_count', group=True)
counts = dict([(r.key, r.value) for r in view])
rows = [TR(TH('Project'),
TH('Label'),
TH('Customer'),
TH('# Samples'),
TH('Timestamp'))]
view = self.db.view('project/timestamp',
descending=True,
include_docs=True)
for result in view:
doc = result.doc
project = A(doc['name'],
href=configuration.get_url('project', doc['name']))
# Defensive programming: in reality always defined
customer = doc.get('customer')
if customer:
customer = A(customer,
href=configuration.get_url('account', customer))
rows.append(TR(TD(project),
TD(result.value or ''),
TD(customer),
TD(str(counts.get(doc['name'], 0))),
TD(result.key)))
page.append(TABLE(border=1, *rows))
page.write(response)
def GET(self, request, response):
self.check_viewable(self.user)
page = HtmlPage(self, title='Accounts')
page.header = DIV(H1(page.title), utils.rst_to_html(Account.__doc__))
if self.get_editable(self.user):
page.append(
P(
FORM(INPUT(type='submit', value='Create new account'),
method='GET',
action=configuration.get_url('account'))))
rows = [TR(TH('Account'), TH('Full name'), TH('Role'), TH('Initials'))]
for result in self.db.view('account/name', include_docs=True):
doc = result.doc
ref = A(result.key,
href=configuration.get_url('account', result.key))
rows.append(
TR(TD(ref), TD(result.value or ''), TD(doc.get('role')),
TD(doc.get('initials') or '')))
page.append(TABLE(border=1, *rows))
page.write(response)
def GET(self, request, response):
self.check_viewable(self.user)
page = HtmlPage(self, title='Projects')
page.header = DIV(H1(page.title), utils.rst_to_html(Project.__doc__))
if self.get_editable(self.user):
page.append(
P(
FORM(INPUT(type='submit', value='Create new project'),
method='GET',
action=configuration.get_url('project'))))
view = self.db.view('sample/project_count', group=True)
counts = dict([(r.key, r.value) for r in view])
rows = [
TR(TH('Project'), TH('Label'), TH('Customer'), TH('# Samples'),
TH('Timestamp'))
]
view = self.db.view('project/timestamp',
descending=True,
include_docs=True)
for result in view:
doc = result.doc
project = A(doc['name'],
href=configuration.get_url('project', doc['name']))
# Defensive programming: in reality always defined
customer = doc.get('customer')
if customer:
customer = A(customer,
href=configuration.get_url('account', customer))
rows.append(
TR(TD(project), TD(result.value or ''), TD(customer),
TD(str(counts.get(doc['name'], 0))), TD(result.key)))
page.append(TABLE(border=1, *rows))
page.write(response)
def GET(self, request, response):
self.check_viewable(self.user)
page = HtmlPage(self, title='Protocols')
page.header = DIV(H1(page.title),
utils.rst_to_html(Protocol.__doc__))
if self.get_editable(self.user):
page.append(P(FORM(INPUT(type='submit',
value='Create new protocol'),
method='GET',
action=configuration.get_url('protocol'))))
view = self.db.view('protocol/name', include_docs=True)
rows = [TR(TH('Protocol'),
TH('Timestamp'))]
for result in view:
doc = result.doc
protocol = A(doc['name'],
href=configuration.get_url('protocol', doc['name']))
rows.append(TR(TD(protocol),
TD(doc['timestamp'])))
page.append(TABLE(border=1, *rows))
page.write(response)