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ORG.Asm
ORG.Asm
Commits
25820077
Commit
25820077
authored
Sep 14, 2015
by
Eric Coissac
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Last fixes for new version 0.1.1b1
parent
b9f21456
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5 changed files
with
7 additions
and
6 deletions
+7
-6
VERSION
VERSION
+2
-2
compact.py
python/orgasm/command/compact.py
+1
-1
seeds.py
python/orgasm/command/seeds.py
+1
-1
tango.py
python/orgasm/tango.py
+2
-1
version.py
python/orgasm/version.py
+1
-1
No files found.
VERSION
View file @
25820077
0.1.0b3
\ No newline at end of file
0.1.1b1
\ No newline at end of file
python/orgasm/command/compact.py
View file @
25820077
...
...
@@ -8,7 +8,7 @@ import orgasm.samples
from
orgasm
import
getIndex
,
getSeeds
from
orgasm.tango
import
cutLowCoverage
,
cutSNPs
,
\
estimateDeadBrancheLength
,
coverageEstimate
,
estimateFragmentLength
,
\
estimateDeadBrancheLength
,
estimateFragmentLength
,
\
genesincontig
,
scaffold
,
fillGaps
,
dumpGraph
,
restoreGraph
import
sys
...
...
python/orgasm/command/seeds.py
View file @
25820077
...
...
@@ -8,7 +8,7 @@ import orgasm.samples
from
orgasm
import
getIndex
,
getSeeds
,
getAdapters
from
orgasm.tango
import
matchtoseed
,
cutLowCoverage
,
cutSNPs
,
\
estimateDeadBrancheLength
,
coverageEstimate
,
estimateFragmentLength
,
\
estimateDeadBrancheLength
,
estimateFragmentLength
,
\
genesincontig
,
scaffold
,
fillGaps
,
dumpGraph
,
restoreGraph
from
orgasm.assembler
import
Assembler
,
tango
...
...
python/orgasm/tango.py
View file @
25820077
...
...
@@ -400,7 +400,8 @@ def genesincontig(cg,index,matches):
eg
=
[
vread
(
i
)
for
i
in
path
]
g
=
sum
(
i
for
i
in
eg
if
i
>
0
)
if
g
>
0
:
color
=
"#00FF00"
g
=
max
(
min
(
math
.
ceil
(
math
.
log10
(
g
)),
4
)
*
64
-
1
,
0
)
color
=
"#00
%02
X
%02
X"
%
(
g
,
255
-
g
)
else
:
color
=
"#0000FF"
graphics
=
ea
.
get
(
'graphics'
,{})
...
...
python/orgasm/version.py
View file @
25820077
major
=
0
minor
=
'1'
serial
=
'
0b3
'
serial
=
'
1b1
'
version
=
"
%2
d.
%
s.
%
s"
%
(
major
,
minor
,
serial
)
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