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ORG.Asm
ORG.Asm
Commits
e1d2d52e
Commit
e1d2d52e
authored
Apr 15, 2016
by
Eric Coissac
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Patch a bug in buildgraph, limit logging to stderr in the tango function
when stderr is not a tty and switch to version 0.2.03
parent
ce8a9a7a
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4
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3 deletions
+4
-3
VERSION
VERSION
+1
-1
python/orgasm/assembler/_tango.pyx
python/orgasm/assembler/_tango.pyx
+1
-1
python/orgasm/commands/buildgraph.py
python/orgasm/commands/buildgraph.py
+1
-0
python/orgasm/version.py
python/orgasm/version.py
+1
-1
No files found.
VERSION
View file @
e1d2d52e
0.2.0
2
0.2.0
3
python/orgasm/assembler/_tango.pyx
View file @
e1d2d52e
...
...
@@ -179,7 +179,7 @@ cpdef AsmbGraph tango(Assembler self,
delta
+=
1
lastseeds
=
[
1
]
*
1000
if
progress
and
(
icycle
%
50
)
==
0
:
if
progress
and
(
icycle
%
50
)
==
0
and
sys
.
stderr
.
isatty
()
:
print
(
"%s : %d bp [%4.1f%% fake reads; Stack size: %8d / %6.2f %d Gene: %s "
%
(
wheel
[(
icycle
//
10
)
%
4
],
len
(
graph
)
/
2
,
float
(
fake
)
/
(
len
(
graph
)
+
1
)
*
200.
,
...
...
python/orgasm/commands/buildgraph.py
View file @
e1d2d52e
...
...
@@ -242,6 +242,7 @@ def run(config):
if
coverageset
:
logger
.
info
(
'Coverage forced by user at : %d'
%
coverage
)
minread
,
minoverlap
=
estimateMinRead
(
r
,
config
[
'buildgraph'
][
'minoverlap'
],
coverage
)
else
:
##########################
...
...
python/orgasm/version.py
View file @
e1d2d52e
major
=
0
minor
=
'2'
serial
=
'0
2
'
serial
=
'0
3
'
version
=
"%d.%s.%s"
%
(
major
,
minor
,
serial
)
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