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Amandine PERRIN
panacota
Commits
17312d7f
Commit
17312d7f
authored
Jul 25, 2019
by
Amandine PERRIN
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Clean utils script
parent
179a6277
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PanACoTA/utils.py
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PanACoTA/utils.py
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17312d7f
...
@@ -369,8 +369,8 @@ def write_warning_skipped(skipped, do_format=False, prodigal_only=False, logfile
...
@@ -369,8 +369,8 @@ def write_warning_skipped(skipped, do_format=False, prodigal_only=False, logfile
soft
=
"
prodigal
"
soft
=
"
prodigal
"
logger
=
logging
.
getLogger
(
"
utils
"
)
logger
=
logging
.
getLogger
(
"
utils
"
)
list_to_write
=
"
\n
"
.
join
([
"
\t
-
"
+
genome
for
genome
in
skipped
])
list_to_write
=
"
\n
"
.
join
([
"
\t
-
"
+
genome
for
genome
in
skipped
])
# print(list_to_write)
if
not
do_format
:
if
not
do_format
:
logger
.
info
(
"
WARNING: Some genomes could not be annotated. See {0}
"
.
format
(
logfile
))
logger
.
warning
(
"
{0} had problems while annotating some genomes, or
"
logger
.
warning
(
"
{0} had problems while annotating some genomes, or
"
"
did not find any gene. Hence, they are not formatted, and absent
"
"
did not find any gene. Hence, they are not formatted, and absent
"
"
from your output database. Please look at the
"
"
from your output database. Please look at the
"
...
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