Skip to content
GitLab
Menu
Projects
Groups
Snippets
Help
Help
Support
Community forum
Keyboard shortcuts
?
Submit feedback
Contribute to GitLab
Sign in
Toggle navigation
Menu
Open sidebar
hub
ePeak
Commits
3d38e067
Commit
3d38e067
authored
Apr 27, 2022
by
Rachel LEGENDRE
Browse files
rename log of deduplicate
parent
be08160a
Changes
1
Hide whitespace changes
Inline
Side-by-side
Snakefile
View file @
3d38e067
...
...
@@ -461,7 +461,7 @@ if config['mark_duplicates']['do']:
mark_duplicates_output
=
os
.
path
.
join
(
analysis_dir
,
"03-Deduplication/{{SAMPLE}}_{{REF}}_sort{}.bam"
.
format
(
biasedRegions
))
mark_duplicates_metrics
=
os
.
path
.
join
(
analysis_dir
,
"03-Deduplication/{SAMPLE}_{REF}_sort_dedup.txt"
)
mark_duplicates_remove
=
dedup
mark_duplicates_log_std
=
os
.
path
.
join
(
analysis_dir
,
"03-Deduplication/logs/{SAMPLE}_{REF}
}
_sort_dedup.out"
)
mark_duplicates_log_std
=
os
.
path
.
join
(
analysis_dir
,
"03-Deduplication/logs/{SAMPLE}_{REF}_sort_dedup.out"
)
mark_duplicates_log_err
=
os
.
path
.
join
(
analysis_dir
,
"03-Deduplication/logs/{SAMPLE}_{REF}_sort_dedup.err"
)
mark_duplicates_tmpdir
=
config
[
'tmpdir'
]
#
final_output
.
extend
(
expand
(
mark_duplicates_output
,
SAMPLE
=
samples
,
REF
=
ref
))
...
...
Write
Preview
Supports
Markdown
0%
Try again
or
attach a new file
.
Attach a file
Cancel
You are about to add
0
people
to the discussion. Proceed with caution.
Finish editing this message first!
Cancel
Please
register
or
sign in
to comment