Setting Up Profiles with Python/Django
This section explores how to use the Django administration interface (“admin”) to set up and configure profiles [1].
See Project Application Structure to understand the structure of the Django project.
Note
This section assumes basic knowledge of Django and Python. If you are new to either, see the official Django and Python documentation.
1. Defining the Profile Structure
Profile setup is modular, meaning each part of a profile is managed separately. Each part has its own model and can be configured independently, while still contributing to the overall profile.
These parts are stored in separate PostgreSQL database tables and managed through the Django Admin interface. Understanding how each part works helps administrators manage profiles more efficiently.
Select a link below to learn how to configure each part.
2. Defining Django Model
Define the model in a models.py Python file. This model describes the
structure of the database table.
Note
The models.py file should be located in the same directory as the
admin.py file. It can be used to define all models for the Django
application. There is no need to create a separate model file for
each model.
Hint
Click the
button below to view the contents of
the Python Django model file.View the implementation of the models used in the COPO project on GitHub
ProfileType model
ProfileType Python Django model definition
#models.py
from django.db import models
from .component_model import Component
class ProfileType(models.Model):
class Meta:
ordering = ['description']
components = models.ManyToManyField(Component, blank=True)
type = models.CharField(max_length=20, unique=True)
description = models.CharField(max_length=100)
widget_colour = models.CharField(max_length=200, blank=True, null=True)
is_dtol_profile = models.BooleanField(default=False)
is_permission_required = models.BooleanField(default=True)
def __str__(self):
return self.type + " : " + self.description
def create_profile_type(self, type, description, widget_colour, is_dtol_profile, is_permission_required):
self.type = type
self.description = description
self.widget_colour = widget_colour
self.is_dtol_profile = is_dtol_profile
self.is_permission_required = is_permission_required
self.save()
return self
Component model
Component Python Django model definition
# models.py
from django.db import models
from .title_button_model import TitleButton
from .record_action_button_model import RecordActionButton
class Component(models.Model):
class Meta:
ordering = ['title']
title_buttons = models.ManyToManyField(TitleButton, blank=True)
recordaction_buttons = models.ManyToManyField(RecordActionButton, blank=True)
name = models.CharField(max_length=100, unique=True)
title = models.CharField(max_length=100)
subtitle = models.CharField(max_length=100, blank=True, null=True)
widget_icon = models.CharField(max_length=100, blank=True, null=True)
widget_colour = models.CharField(max_length=200,blank=True, null=True)
widget_icon_class = models.CharField(max_length=100, blank=True, null=True)
table_id = models.CharField(max_length=100)
reverse_url = models.CharField(max_length=100,blank=True, null=True)
def __str__(self):
return self.name + " : " + self.title
def create_component(self, name, title, subtitle, widget_icon, widget_colour, widget_icon_class, table_id, reverse_url):
self.name = name
self.title = title
self.subtitle = subtitle
self.widget_icon = widget_icon
self.widget_colour = widget_colour
self.widget_icon_class = widget_icon_class
self.table_id = table_id
self.reverse_url = reverse_url
self.save()
return self
RecordActionButton model
RecordActionButton Python Django model definition
# models.py
from django.db import models
class RecordActionButton(models.Model):
class action_types(models.TextChoices):
SINGLE = 'single', _("Single")
MULTIPLE = 'multi', _("Multiple")
def __str__(self):
return self.value
name = models.CharField(max_length=100, unique=True)
icon_colour = models.CharField(max_length=100, blank=True, null=True, help_text="Colour of the icon")
title = models.CharField(max_length=100, blank=True, null=True)
label = models.CharField(max_length=100, blank=True, null=True)
type = models.CharField(max_length=100, choices=action_types.choices, default=action_types.SINGLE, blank=True, null=True )
error_message = models.CharField(max_length=100, blank=True, null=True)
icon_class = models.CharField(max_length=100, help_text="Font Awesome icon class", blank=True, null=True)
action = models.CharField(max_length=100, help_text="Name of javascript function to be performed on click", blank=True, null=True)
def __str__(self):
return self.name + " : " + self.title + " : " + self.type
def create_record_action_button(self, name, title, label, type, error_message, icon_class, action, icon_colour):
self.name = name
self.title = title
self.label = label
self.type = type
self.error_message = error_message
self.icon_class = icon_class
self.action = action
self.icon_colour = icon_colour
self.save()
return self
TitleButton model
TitleButton Python Django model definition
#models.py
from django.db import models
class TitleButton(models.Model):
class Meta:
ordering = ['name']
name = models.CharField(max_length=50, unique=True)
template = models.CharField(max_length=500)
additional_attr = models.CharField(max_length=500, blank=True, null=True,
help_text="Additional attributes for the button,format: key1:value1,key2:value2,key3:value3")
def __str__(self):
return self.name
def create_title_button(self, name, template, additional_attr):
self.name = name
self.template = template
self.additional_attr = additional_attr
self.save()
return self
3. Registering Django Model with Django Admin Site
This step makes the model available in the Django Admin interface after the model has been defined.
An admin class can be defined in the admin.py file to describe how the
model is displayed in the Django Admin interface. The display and behaviour
of each field in the model can be customised on the Django admin interface
like filters, search fields and more.
No admin class is required if you want to use the default Django Admin
interface for the model. The example below demonstrates how to register a
model with the default Django Admin interface using the
admin.site.register() method.
The admin.site.register() method associates the model with the admin class
and makes it available in the Django Admin interface.
Note
The
admin.pyfile should be located in the same directory as themodels.pyfile. It can be used to register all models with the Django Admin interface. There is no need to create a separate admin file for each model.Replace
ModelNamewith the actual model name in the code snippet below.
Hint
View the implementation of the admin.py file used in the
COPO project on GitHub
# admin.py
from django.contrib import admin
# Import the model. Replace ModelName with the actual model name
from .models import ModelName
# Register the admin class with the associated model
admin.site.register(ModelName)
4. Make Migrations and Migrate the Django Model
Important
Skipping these steps will cause the database to not match the models, leading to errors when using Django.
After creating and registering a Django model, run makemigrations and
migrate. makemigrations generates migration files for model changes
and migrate applies these changes to the database.
Run the following commands in the terminal to create and apply migrations:
python manage.py makemigrations
python manage.py migrate
5. Automating Profile Creation with manage.py
After registering the models, create a setup-profile-types.py Django
management command to automate the profile and subpart creation. Store this
command in the management/commands/ directory of the Django app.
Hint
Click the button below to view the contents of the
Python management command file, setup-profile-types.py. The actual
implementation may vary based on your specific requirements.
View the implementation of the COPO management command on GitHub.
Setup profile management command
Python setup-profile-types.py Python management command
file contents
from typing import Any
from django.core.management.base import BaseCommand
from src.apps.copo_core.models import ProfileType, Component, RecordActionButton, TitleButton
'''
ProfileType
id | type | description | widget_colour | is_dtol_profile | is_permission_required
----+----------+-----------------------------------------------------+---------------+-----------------+------------------------
5 | erga | European Reference Genome Atlas (ERGA) | #E61A8D | t | t
4 | asg | Aquatic Symbiosis Genomics (ASG) | #5829bb | t | t
3 | dtolenv | Darwin Tree of Life Environmental Samples (DTOLENV) | #fb7d0d | t | t
2 | dtol | Darwin Tree of Life (DTOL) | #16ab39 | t | t
1 | biodata | Biodata | #009c95 | f | f
6 | test | Test New Profile | violet | f | t
'''
"""
Component
id | name | title | widget_icon | widget_colour | widget_icon_class | table_id | reverse_url | subtitle
----+----------------------+----------------------+--------------+---------------+--------------------+---------------------+----------------------------------------------------+---------------------
3 | accessions_dashboard | Accessions | pink | | fa fa-sitemap | accessions_table | copo_accession:copo_accessions |
4 | assembly | Assembly | puzzle piece | violet | fa fa-puzzle-piece | assembly_table | copo_assembly_submission:copo_assembly |
5 | taggedseq | Barcoding Manifests | barcode | red | fa fa-barcode | tagged_seq_table | copo_barcoding_submission:copo_taggedseq | #component_subtitle
6 | files | Files | file | blue | fa fa-file | files_table | copo_file:copo_files |
9 | seqannotation | Sequence Annotations | tag | yellow | fa fa-tag | seqannotation_table | copo_seq_annotation_submission:copo_seq_annotation |
8 | read | Reads | dna | orange | fa fa-dna | read_table | copo_read_submission:copo_reads | #component_subtitle
7 | sample | Samples | filter | olive | fa fa-filter | sample_table | copo_sample:copo_samples |
2 | accessions | Accessions | sitemap | pink | fa fa-sitemap | accessions_table | copo_accession:copo_accessions |
1 | profiles | Work Profiles | | | | copo_profiles_table | | #component_subtitle
"""
"""
RecordActionButton
id | name | title | label | type | error_message | icon_class | action | icon_colour
----+---------------------------------+--------------------------------------------+--------------------------+--------+---------------------------------------------------------------------------------------+-----------------------+--------------------------+-------------
8 | add_terminal_all | Add new file by terminal | Add | | | fa fa-terminal | add_files_by_terminal | blue
10 | download_sample_manifest_single | Download Sample Manifest | Download sample manifest | single | Please select one of samples in the manifest to download | fa fa-download | download-sample-manifest | blue
7 | add_local_all | Add new file by browsing local file system | Add | | Add new file by browsing local file system | fa fa-desktop | add_files_locally | blue
2 | edit_record_single | Edit record | Edit | single | Please select a record to edit | fa fa-pencil-square-o | edit | green
1 | add_record_all | Add new record | Add | | | fa fa-plus | add | blue
12 | download_permits_multiple | Download Permits | Download permits | multi | Please select one or more sample records from the table shown to download permits for | fa fa-download | download-permits | orange
11 | view_images_multiple | View Images | View images | multi | Please select one or more sample records from the table shown to view images for | fa fa-eye | view-images | teal
9 | submit_tagged_seq_multi | Submit Tagged Sequence | Submit | multi | Please select one or more record to submit | fa fa-info | submit_tagged_seq | teal
6 | submit_read_multi | Submit Read | Submit | multi | Please select one or more record to submit | fa fa-info | submit_read | teal
5 | submit_annotation_multi | Submit Annotation | Submit | multi | Please select one or more record to submit | fa fa-info | submit_annotation | teal
4 | submit_assembly_multi | Submit Assembly | Submit | multi | Please select one or more record to submit | fa fa-info | submit_assembly |
3 | delete_record_multi | Delete records | Delete | multi | Please select one or more records to delete | fa fa-trash-can | validate_and_delete | red
13 | releasestudy | Release Study | Release Study | single | | fa fa-globe | release_study | blue
"""
"""
TitleButton
id | name | template | additional_attr
----+------------------------------------+---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------+--------------------------
10 | accept_reject_samples | <button style="display: none" title="Accept/Reject TOL Samples" class="big circular ui icon teal button accept_reject_samples copo-tooltip"> <i class="icon tasks sign"></i> </button> |
11 | tol_inspect | <button style="display: none" title="Inspect TOL" class="big circular ui icon yellow button tol_inspect copo-tooltip"> <i class="icon clipboard list"></i> </button> |
12 | tol_inspect_gal | <button class="big circular ui icon green button tol_inspect_gal copo-tooltip" title="Inspect TOL by GAL"> <i class="icon building"></i> </button> |
13 | copo_accessions | <button style="display: none" title="View Accessions Dashboard" class="big circular ui icon pink button copo_accessions copo-tooltip"> <i class="icon sitemap"></i> </button> |
7 | new_taggedseq_spreadsheet_template | <button style="display: inline" title="Add Tagged Sequence (s) from Tagged Sequence Spreadsheet" class="big circular ui icon button new-taggedseq-spreadsheet-template copo-tooltip"> <i class="icon table sign"></i> </button> |
6 | new_terminal_file | <button title="Add new file by terminal" class="big circular ui icon primary button new-terminal-file copo-tooltip"> <i class="icon terminal sign"></i> </button> |
5 | new_local_file | <button title="Add new file by browsing local file system" class="big circular ui icon primary button new-local-file copo-tooltip"> <i class="icon desktop sign"></i> </button> |
4 | new_reads_spreadsheet_template | <button style="display: inline" title="Add Read(s) from Read Spreadsheet" class="big circular ui icon button new-reads-spreadsheet-template copo-tooltip"> <i class="icon table sign"></i> </button> |
3 | new_samples_spreadsheet_template | <button title="Add Sample(s) from Spreadsheet" class="big circular ui icon button new-samples-spreadsheet-template copo-tooltip"> <i class="icon table sign"></i> </button> |
2 | quick_tour_template | <button title="Quick tour" class="big circular ui icon orange button takeatour quick-tour-template copo-tooltip"> <i class="icon lightbulb"></i> </button> |
1 | new_component_template | <button title="Add new profiles record" class="big circular ui icon primary button new-component-template copo-tooltip"> <i class="icon add sign"></i> </button> |
9 | download_sop | <a title="Download Standard Operating Procedure (SOP)" class="big circular ui icon yellow button download-sop copo-tooltip" target="_blank"> <i class="icon download sign"></i> </a> | href:#sop_url
8 | download_blank_manifest_template | <a title="Download Blank Manifest Template" class="big circular ui icon brown button download-blank-manifest-template copo-tooltip" target="_blank"> <i class="icon download sign"></i> </a> | href:#blank_manifest_url
"""
# The class must be named Command, and subclass BaseCommand
class Command(BaseCommand):
# Show this when the user types help
help = "Add profiles type definition to the database "
def __init__(self):
super().__init__()
def handle(self, *args, **options):
self.stdout.write("Removing Record Action Button ")
RecordActionButton().remove_all_record_action_buttons()
self.stdout.write("Adding Record Action Button ")
add_terminal_all = RecordActionButton().create_record_action_button(name="add_terminal_all",
title="Add new file by terminal",
label="Add", type="", error_message="",
icon_class="fa fa-terminal",
action="add_files_by_terminal",
icon_colour="blue")
download_sample_manifest_single = RecordActionButton().create_record_action_button(
name="download_sample_manifest_single", title="Download Sample Manifest", label="Download sample manifest",
type="single", error_message="Please select one of samples in the manifest to download",
icon_class="fa fa-download", action="download-sample-manifest", icon_colour="blue")
add_local_all = RecordActionButton().create_record_action_button(name="add_local_all",
title="Add new file by browsing local file system",
label="Add", type="",
error_message="Add new file by browsing local file system",
icon_class="fa fa-desktop",
action="add_files_locally", icon_colour="blue")
edit_record_single = RecordActionButton().create_record_action_button(name="edit_record_single",
title="Edit record", label="Edit",
type="single",
error_message="Please select a record to edit",
icon_class="fa fa-pencil-square",
action="edit", icon_colour="green")
add_record_all = RecordActionButton().create_record_action_button(name="add_record_all", title="Add new record",
label="Add", type="", error_message="",
icon_class="fa fa-plus-circle", action="add",
icon_colour="blue")
download_permits_multiple = RecordActionButton().create_record_action_button(name="download_permits_multiple",
title="Download Permits",
label="Download permits",
type="multi",
error_message="Please select one or more sample records from the table shown to download permits for",
icon_class="fa fa-download",
action="download-permits",
icon_colour="orange")
view_images_multiple = RecordActionButton().create_record_action_button(name="view_images_multiple",
title="View Images",
label="View images", type="multi",
error_message="Please select one or more sample records from the table shown to view images for",
icon_class="fa fa-eye",
action="view-images",
icon_colour="teal")
submit_tagged_seq_multi = RecordActionButton().create_record_action_button(name="submit_tagged_seq_multi",
title="Submit Tagged Sequence",
label="Submit", type="multi",
error_message="Please select one or more record to submit",
icon_class="fa fa-info-circle",
action="submit_tagged_seq",
icon_colour="teal")
submit_read_multi = RecordActionButton().create_record_action_button(name="submit_read_multi",
title="Submit Read", label="Submit",
type="multi",
error_message="Please select one or more record to submit",
icon_class="fa fa-info-circle",
action="submit_read", icon_colour="teal")
submit_annotation_multi = RecordActionButton().create_record_action_button(name="submit_annotation_multi",
title="Submit Annotation",
label="Submit", type="multi",
error_message="Please select one or more record to submit",
icon_class="fa fa-info-circle",
action="submit_annotation",
icon_colour="teal")
submit_assembly_multi = RecordActionButton().create_record_action_button(name="submit_assembly_multi",
title="Submit Assembly",
label="Submit", type="multi",
error_message="Please select one or more record to submit",
icon_class="fa fa-info-circle",
action="submit_assembly",
icon_colour="teal")
delete_record_multi = RecordActionButton().create_record_action_button(name="delete_record_multi",
title="Delete records", label="Delete",
type="multi",
error_message="Please select one or more records to delete",
icon_class="fa fa-trash-can",
action="validate_and_delete",
icon_colour="red")
releasestudy = RecordActionButton().create_record_action_button(name="releasestudy", title="Release Study",
label="Release Study", type="single",
error_message="", icon_class="fa fa-globe",
action="release_study", icon_colour="blue")
self.stdout.write("Record Action Button Added")
records = RecordActionButton.objects.all()
for record in records:
self.stdout.write(record.name)
self.stdout.write("Removing Title Button ")
TitleButton().remove_all_title_buttons()
self.stdout.write("Adding Title Button ")
accept_reject_samples = TitleButton().create_title_button(name="accept_reject_samples",
template="<button style=\"display: none\" title=\"Accept/Reject TOL Samples\" class=\"big circular ui icon teal button accept_reject_samples copo-tooltip\"> <i class=\"icon tasks sign\"></i> </button>",
additional_attr="")
tol_inspect = TitleButton().create_title_button(name="tol_inspect",
template="<button style=\"display: none\" title=\"Inspect TOL\" class=\"big circular ui icon yellow button tol_inspect copo-tooltip\"> <i class=\"icon clipboard list\"></i> </button>",
additional_attr="")
tol_inspect_gal = TitleButton().create_title_button(name="tol_inspect_gal",
template="<button class=\"big circular ui icon green button tol_inspect_gal copo-tooltip\" title=\"Inspect TOL by GAL\"> <i class=\"icon building\"></i> </button>",
additional_attr="")
copo_accessions = TitleButton().create_title_button(name="copo_accessions",
template="<button style=\"display: none\" title=\"View Accessions Dashboard\" class=\"big circular ui icon pink button copo_accessions copo-tooltip\"> <i class=\"icon sitemap\"></i> </button>",
additional_attr="")
new_taggedseq_spreadsheet_template = TitleButton().create_title_button(
name="new_taggedseq_spreadsheet_template",
template="<button style=\"display: inline\" title=\"Add Tagged Sequence (s) from Tagged Sequence Spreadsheet\" class=\"big circular ui icon button new-taggedseq-spreadsheet-template copo-tooltip\"> <i class=\"icon table sign\"></i> </button>",
additional_attr="")
new_terminal_file = TitleButton().create_title_button(name="new_terminal_file",
template="<button title=\"Add new file by terminal\" class=\"big circular ui icon primary button new-terminal-file copo-tooltip\"> <i class=\"icon terminal sign\"></i> </button>",
additional_attr="")
new_local_file = TitleButton().create_title_button(name="new_local_file",
template="<button title=\"Add new file by browsing local file system\" class=\"big circular ui icon primary button new-local-file copo-tooltip\"> <i class=\"icon desktop sign\"></i> </button>",
additional_attr="")
new_reads_spreadsheet_template = TitleButton().create_title_button(name="new_reads_spreadsheet_template",
template="<button style=\"display: inline\" title=\"Add Read(s) from Read Spreadsheet\" class=\"big circular ui icon button new-reads-spreadsheet-template copo-tooltip\"> <i class=\"icon table sign\"></i> </button>",
additional_attr="")
new_samples_spreadsheet_template = TitleButton().create_title_button(name="new_samples_spreadsheet_template",
template="<button title=\"Add Sample(s) from Spreadsheet\" class=\"big circular ui icon button new-samples-spreadsheet-template copo-tooltip\"> <i class=\"icon table sign\"></i> </button>",
additional_attr="")
quick_tour_template = TitleButton().create_title_button(name="quick_tour_template",
template="<button title=\"Quick tour\" class=\"big circular ui icon orange button takeatour quick-tour-template copo-tooltip\"> <i class=\"icon lightbulb\"></i> </button>",
additional_attr="")
new_component_template = TitleButton().create_title_button(name="new_component_template",
template="<button title=\"Add new profiles record\" class=\"big circular ui icon primary button new-component-template copo-tooltip\"> <i class=\"icon add sign\"></i> </button>",
additional_attr="")
download_sop = TitleButton().create_title_button(name="download_sop",
template="<a title=\"Download Standard Operating Procedure (SOP)\" class=\"big circular ui icon yellow button download-sop copo-tooltip\" target=\"_blank\"> <i class=\"icon download sign\"></i> </a>",
additional_attr="href:#sop_url")
download_blank_manifest_template = TitleButton().create_title_button(name="download_blank_manifest_template",
template="<a title=\"Download Blank Manifest Template\" class=\"big circular ui icon brown button download-blank-manifest-template copo-tooltip\" target=\"_blank\"> <i class=\"icon download sign\"></i> </a>",
additional_attr="href:#blank_manifest_url")
self.stdout.write("Title Button Added")
records = TitleButton.objects.all()
for record in records:
self.stdout.write(record.name)
self.stdout.write("Setup Completed")
self.stdout.write("Removing Component ")
Component().remove_all_components()
self.stdout.write("Adding Component ")
assembly = Component().create_component(name="assembly", title="Assembly", widget_icon="puzzle piece",
widget_colour="violet", widget_icon_class="fa fa-puzzle-piece",
table_id="assembly_table",
reverse_url="copo_assembly_submission:copo_assembly", subtitle="")
taggedseq = Component().create_component(name="taggedseq", title="Barcoding Manifests", widget_icon="barcode",
widget_colour="red", widget_icon_class="fa fa-barcode",
table_id="tagged_seq_table",
reverse_url="copo_barcoding_submission:copo_taggedseq",
subtitle="#component_subtitle")
files = Component().create_component(name="files", title="Files", widget_icon="file", widget_colour="blue",
widget_icon_class="fa fa-file", table_id="files_table",
reverse_url="copo_file:copo_files", subtitle="")
seqannotation = Component().create_component(name="seqannotation", title="Sequence Annotations",
widget_icon="tag", widget_colour="yellow",
widget_icon_class="fa fa-tag", table_id="seqannotation_table",
reverse_url="copo_seq_annotation_submission:copo_seq_annotation",
subtitle="")
read = Component().create_component(name="read", title="Reads", widget_icon="dna", widget_colour="orange",
widget_icon_class="fa fa-dna", table_id="read_table",
reverse_url="copo_read_submission:copo_reads",
subtitle="#component_subtitle")
sample = Component().create_component(name="sample", title="Samples", widget_icon="filter",
widget_colour="olive", widget_icon_class="fa fa-filter",
table_id="sample_table", reverse_url="copo_sample:copo_samples",
subtitle="")
accessions = Component().create_component(name="accessions", title="Accessions", widget_icon="sitemap",
widget_colour="pink", widget_icon_class="fa fa-sitemap",
table_id="accessions_table",
reverse_url="copo_accession:copo_accessions", subtitle="")
profile = Component().create_component(name="profiles", title="Work Profiles", widget_icon="", widget_colour="",
widget_icon_class="", table_id="copo_profiles_table", reverse_url="",
subtitle="#component_subtitle")
assembly.recordaction_buttons.set(
[add_record_all, edit_record_single, delete_record_multi, submit_assembly_multi])
assembly.title_buttons.set([new_component_template])
taggedseq.recordaction_buttons.set(
[add_record_all, edit_record_single, delete_record_multi, submit_tagged_seq_multi])
taggedseq.title_buttons.set([new_taggedseq_spreadsheet_template, download_blank_manifest_template])
files.recordaction_buttons.set([add_local_all, add_terminal_all, delete_record_multi])
files.title_buttons.set([new_local_file, new_terminal_file])
seqannotation.recordaction_buttons.set(
[add_record_all, edit_record_single, delete_record_multi, submit_annotation_multi])
seqannotation.title_buttons.set([new_component_template])
read.recordaction_buttons.set([delete_record_multi, submit_read_multi])
read.title_buttons.set([new_reads_spreadsheet_template, download_blank_manifest_template])
sample.recordaction_buttons.set(
[download_sample_manifest_single, download_permits_multiple, view_images_multiple])
sample.title_buttons.set(
[quick_tour_template, new_samples_spreadsheet_template, download_blank_manifest_template, download_sop,
accept_reject_samples])
accessions.title_buttons.set([copo_accessions, accept_reject_samples, tol_inspect, tol_inspect_gal])
profile.recordaction_buttons.set([releasestudy])
profile.title_buttons.set([quick_tour_template, new_component_template])
self.stdout.write("Component Added")
records = Component.objects.all()
for record in records:
self.stdout.write(record.name)
self.stdout.write("Removing Existing Profile Types ")
ProfileType().remove_all_profile_types()
self.stdout.write("Adding Profile Types")
erga = ProfileType().create_profile_type(type="erga", description="European Reference Genome Atlas (ERGA)",
widget_colour="#E61A8D", is_dtol_profile=True,
is_permission_required=True)
asg = ProfileType().create_profile_type(type="asg", description="Aquatic Symbiosis Genomics (ASG)",
widget_colour="#5829bb", is_dtol_profile=True,
is_permission_required=True)
dtolenv = ProfileType().create_profile_type(type="dtolenv",
description="Darwin Tree of Life Environmental Samples (DTOLENV)",
widget_colour="#fb7d0d", is_dtol_profile=True,
is_permission_required=True)
dtol = ProfileType().create_profile_type(type="dtol", description="Darwin Tree of Life (DTOL)",
widget_colour="#16ab39", is_dtol_profile=True,
is_permission_required=True)
biodata = ProfileType().create_profile_type(type="biodata", description="Biodata", widget_colour="#009c95",
is_dtol_profile=False, is_permission_required=False)
erga.components.set([assembly, taggedseq, files, seqannotation, read, sample, accessions])
asg.components.set([assembly, taggedseq, files, seqannotation, read, sample, accessions])
dtolenv.components.set([assembly, taggedseq, files, seqannotation, read, sample, accessions])
dtol.components.set([assembly, taggedseq, files, seqannotation, read, sample, accessions])
biodata.components.set([assembly, files, seqannotation, read, sample, accessions])
self.stdout.write("Profile Types Added")
records = ProfileType.objects.all()
for record in records:
self.stdout.write(record.type)
Execute the management command using the following:
python manage.py setup_profile_types
Visual Representation of Profile Subparts
Select a link below to view each profile subpart within COPO.