class Plasmid(InventoryItem):
CommonName = models.TextField(blank=True, null=True)
Genotype = models.TextField(blank=True, null=True)
Antibiotic = models.ManyToManyField(AntibioticOption, blank=True)
Genbank_file = ResumableFileField(blank=True,
null=True,
upload_to=get_upload_path,
max_length=500)
order = [
*inventory_order, 'CommonName', 'Antibiotic', 'Genbank_file', 'Batches'
]
symbol = "PL"
col_display_func_dict = {
'Batches':
lambda item:
f"<a href='{reverse('list_PlasmidBatch', kwargs=dict(parent_pk=item.pk))}'>{item.plasmidbatch_set.filter(archived=False).count()} batches</a>",
'Genbank_file':
lambda item:
f"<a href='/downloads/{item.Genbank_file}'>{str(item.Genbank_file).split('/')[-1]}</a>",
'Antibiotic':
lambda item: ", ".join(ab.name for ab in item.Antibiotic.all())
if item.Antibiotic.all() else "",
}
col_html_string = ['Genbank_file', 'Batches']
col_read_only = [*default_readonly, 'Batches']
widgets = {
**default_widgets,
'Antibiotic':
autocomplete.ModelSelect2Multiple(
url=reverse_lazy('AntibioticOption-autocomplete')),
}
class Strain(GBEXModelBase):
Species = models.ForeignKey(SpeciesOption, on_delete=models.PROTECT)
Subtype = models.TextField(blank=True, null=True)
Description = models.TextField(blank=True, null=True)
Plasmids = models.ManyToManyField(Plasmid, blank=True)
ParentStrain = models.ForeignKey("self",
null=True,
on_delete=models.PROTECT)
Genbank_file = ResumableFileField(blank=True,
null=True,
upload_to=get_upload_path,
max_length=500)
menu_label = menu_label
order = [
*default_order, 'Species', 'Subtype', 'Description', 'Plasmids',
'Genbank_file'
]
symbol = "ST"
col_display_func_dict = {
'Plasmids':
lambda item: ", ".join(ab.name for ab in item.Plasmids.all())
if item.Plasmids.all() else "",
}
widgets = {
**default_widgets,
'Species':
autocomplete.ModelSelect2(
url=reverse_lazy('SpeciesOption-autocomplete')),
'Plasmids':
autocomplete.ModelSelect2Multiple(
url=reverse_lazy('Plasmid-autocomplete')),
}
class ExperimentBase(GBEXModelBase):
Description = models.TextField(blank=True, null=True)
RunDate = models.DateField(null=True, blank=True)
Data_file = ResumableFileField(blank=True,
null=True,
upload_to=get_upload_path,
max_length=500)
Status = models.TextField(blank=True, null=True)
menu_label = "Experiments"
widgets = ExperimentWidgets
col_display_func_dict = ExperimentCDFDict
col_html_string = ExperimentCHString
order = ExperimentOrder
class Meta:
abstract = True
class SOP(GBEXModelBase):
Summary = models.TextField(blank=True, null=True)
Tags = models.ManyToManyField(SOPTag, blank=True)
SOP_file = ResumableFileField(blank=True, null=True, upload_to=get_upload_path, max_length=500)
menu_label = menu_label
order = [*default_order, 'Summary', 'Tags', 'SOP_file']
symbol = "SOP"
col_display_func_dict = {
'Tags': lambda item: ", ".join(ab.name for ab in item.Tags.all()) if item.Tags.all() else "",
'SOP_file': lambda
item: f"<a href='/downloads/{item.SOP_file}'>{str(item.SOP_file).split('/')[-1]}</a>",
}
widgets = {
**default_widgets,
'Tags': autocomplete.ModelSelect2Multiple(url=reverse_lazy('SOPTag-autocomplete')),
}
col_html_string = ['SOP_file',]
class Plasmid(GBEXModelBase):
Description = models.TextField(blank=True, null=True)
Genbank_file = ResumableFileField(blank=True,
null=True,
upload_to=get_upload_path,
max_length=500)
menu_label = menu_label
order = [*default_order, 'Description', 'Genbank_file', 'Batches']
symbol = "PL"
col_display_func_dict = {
'Batches':
lambda item:
f"<a href='{reverse('list_PlasmidBatch', kwargs=dict(parent_pk=item.pk))}'>{item.plasmidbatch_set.filter(archived=False).count()} batches</a>",
'Genbank_file':
lambda item:
f"<a href='/downloads/{item.Genbank_file}'>{str(item.Genbank_file).split('/')[-1]}</a>",
}
col_html_string = ['Genbank_file', 'Batches']
col_read_only = [*default_readonly, 'Batches']
class Fermentation(GBEXModelBase):
RunDate = models.DateTimeField(null=True, blank=True)
Strain = models.ForeignKey(Strain,
on_delete=models.PROTECT,
null=True,
blank=True)
ReactorVessel = models.CharField(choices=ReactorVessel,
blank=True,
null=True,
max_length=10)
Data_file = ResumableFileField(blank=True,
null=True,
upload_to=get_upload_path,
max_length=500)
menu_label = menu_label
order = [*default_order, 'RunDate', 'Strain', 'ReactorVessel', 'Data_file']
symbol = "FE"
widgets = {
**default_widgets,
'Strain':
autocomplete.ModelSelect2(url=reverse_lazy('Strain-autocomplete')),
}
class Strain(InventoryItem):
CommonName = models.TextField(blank=True, null=True)
Species = models.ForeignKey(SpeciesOption, on_delete=models.PROTECT)
Subtype = models.TextField(blank=True, null=True)
Antibiotic = models.ManyToManyField(AntibioticOption, blank=True)
Genotype = models.TextField(blank=True, null=True)
Vendor = models.ForeignKey(VendorOption,
blank=True,
null=True,
on_delete=models.PROTECT)
CatalogNo = models.TextField(blank=True, null=True)
Plasmids = models.ManyToManyField(Plasmid, blank=True)
ParentStrain = models.ForeignKey("self",
null=True,
blank=True,
on_delete=models.PROTECT)
Genbank_file = ResumableFileField(blank=True,
null=True,
upload_to=get_upload_path,
max_length=500)
order = [
*inventory_order, 'CommonName', 'Species', 'Subtype', 'ParentStrain',
'Antibiotic', 'Genotype', 'Plasmids', 'Genbank_file', 'Vendor',
'CatalogNo', 'Batches'
]
symbol = "ST"
col_display_func_dict = {
'Plasmids':
lambda item: ", ".join(ab.name for ab in item.Plasmids.all())
if item.Plasmids.all() else "",
'Antibiotic':
lambda item: ", ".join(ab.name for ab in item.Antibiotic.all())
if item.Antibiotic.all() else "",
'Batches':
lambda item:
f"<a href='{reverse('list_StrainBatch', kwargs=dict(parent_pk=item.pk))}'>{item.strainbatch_set.filter(archived=False).count()} batches</a>",
'Genbank_file':
lambda item:
f"<a href='/downloads/{item.Genbank_file}'>{str(item.Genbank_file).split('/')[-1]}</a>",
}
widgets = {
**default_widgets,
'Species':
autocomplete.ModelSelect2(
url=reverse_lazy('SpeciesOption-autocomplete')),
'Vendor':
autocomplete.ModelSelect2(
url=reverse_lazy('VendorOption-autocomplete')),
'ParentStrain':
autocomplete.ModelSelect2(url=reverse_lazy('Strain-autocomplete')),
'Plasmids':
autocomplete.ModelSelect2Multiple(
url=reverse_lazy('Plasmid-autocomplete')),
'Antibiotic':
autocomplete.ModelSelect2Multiple(
url=reverse_lazy('AntibioticOption-autocomplete')),
}
col_html_string = ['Genbank_file', 'Batches']
col_read_only = [*default_readonly, 'Batches']