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genotoul-bioinfo
ng6
Commits
1c35a86e
Commit
1c35a86e
authored
Sep 11, 2019
by
Maxime Manno
🍜
Browse files
Add if to fit with the current production version of jflow command
parent
9e325de9
Changes
1
Hide whitespace changes
Inline
Side-by-side
workflows/ont_qc/__init__.py
View file @
1c35a86e
...
@@ -73,7 +73,7 @@ class OntQualityCheck (NG6Workflow):
...
@@ -73,7 +73,7 @@ class OntQualityCheck (NG6Workflow):
addrawfiles
=
self
.
add_component
(
"AddRawFiles"
,
[
self
.
runobj
,
self
.
get_all_reads
(),
self
.
compression
])
addrawfiles
=
self
.
add_component
(
"AddRawFiles"
,
[
self
.
runobj
,
self
.
get_all_reads
(),
self
.
compression
])
ontstat
=
self
.
add_component
(
"Run_stats"
,
[
self
.
summary_file
,
sample_names
[
0
]])
ontstat
=
self
.
add_component
(
"Run_stats"
,
[
self
.
summary_file
,
sample_names
[
0
]])
if
self
.
barcoded
!=
None
:
if
(
self
.
barcoded
!=
None
)
or
(
self
.
barcoded
!=
"no"
)
:
demultiplexont
=
self
.
add_component
(
"Demultiplex_ONT"
,
[
self
.
get_all_reads
()
,
self
.
barcoded
])
demultiplexont
=
self
.
add_component
(
"Demultiplex_ONT"
,
[
self
.
get_all_reads
()
,
self
.
barcoded
])
if
self
.
trimming
==
"yes"
:
if
self
.
trimming
==
"yes"
:
trim_porechop
=
self
.
add_component
(
"Trim_porechop"
,
[
self
.
get_all_reads
()
,
"discard_middle"
])
trim_porechop
=
self
.
add_component
(
"Trim_porechop"
,
[
self
.
get_all_reads
()
,
"discard_middle"
])
...
...
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