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Metagenomics
metagenedb
Commits
b7da4530
Commit
b7da4530
authored
4 years ago
by
Kenzo-Hugo Hillion
♻️
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allow to retrieve more genes for metadata csv
parent
f620d023
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1 merge request
!68
Retrieve taxonomy details from gene list
Pipeline
#37730
passed
4 years ago
Stage: build
Stage: test
Changes
1
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1
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1 changed file
backend/metagenedb/api/catalog/views/gene.py
+3
-3
3 additions, 3 deletions
backend/metagenedb/api/catalog/views/gene.py
with
3 additions
and
3 deletions
backend/metagenedb/api/catalog/views/gene.py
+
3
−
3
View file @
b7da4530
...
@@ -88,12 +88,12 @@ class GeneViewSet(BulkViewSet):
...
@@ -88,12 +88,12 @@ class GeneViewSet(BulkViewSet):
def
_build_csv_response
(
self
):
def
_build_csv_response
(
self
):
queryset
=
self
.
filter_queryset
(
self
.
get_queryset
())
queryset
=
self
.
filter_queryset
(
self
.
get_queryset
())
queryset
=
queryset
.
select_related
(
"
taxonomy
"
).
prefetch_related
(
"
functions
"
)
queryset
=
queryset
.
select_related
(
"
taxonomy
"
).
prefetch_related
(
"
functions
"
)
if
self
.
_check_too_many_genes
(
queryset
):
#
if self._check_too_many_genes(queryset):
return
self
.
too_many_genes_error_response
#
return self.too_many_genes_error_response
with
StringIO
()
as
csv_file
:
with
StringIO
()
as
csv_file
:
# Write header
# Write header
header
=
"
,
"
.
join
([
header
=
"
,
"
.
join
([
'
gene_id
'
,
'
gene_name
'
,
'
gene_source
'
,
'
length
'
,
'
tax_id
'
,
'
tax_name
'
,
'
tax_rank
'
,
'
tax_full
'
,
'
gene_id
'
,
'
gene_name
'
,
'
gene_source
'
,
'
length
'
,
'
tax_id
'
,
'
tax_name
'
,
'
tax_rank
'
,
'
tax_full
'
'
kegg_id
'
,
'
eggnog_id
'
,
'
kegg_id
'
,
'
eggnog_id
'
,
])
])
csv_file
.
write
(
f
"
{
header
}
\n
"
)
csv_file
.
write
(
f
"
{
header
}
\n
"
)
...
...
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