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ensembl-gh-mirror
ensembl
Commits
89b4f49d
Commit
89b4f49d
authored
Apr 19, 2004
by
Abel Ureta-Vidal
Browse files
sets hslice now
parent
fae83098
Changes
1
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modules/Bio/EnsEMBL/BaseAlignFeature.pm
modules/Bio/EnsEMBL/BaseAlignFeature.pm
+3
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modules/Bio/EnsEMBL/BaseAlignFeature.pm
View file @
89b4f49d
...
...
@@ -410,6 +410,7 @@ sub _parse_cigar {
-
START
=>
$qstart
,
-
END
=>
$qend
,
-
STRAND
=>
$strand1
,
-
HSLICE
=>
$self
->
{'
hslice
'},
-
HSEQNAME
=>
$self
->
{'
hseqname
'},
-
HSTART
=>
$hstart
,
-
HEND
=>
$hend
,
...
...
@@ -493,6 +494,7 @@ sub _parse_features {
my
$hstrand
=
$f
[
0
]
->
hstrand
;
my
$slice
=
$f
[
0
]
->
slice
();
my
$hslice
=
$f
[
0
]
->
hslice
();
my
$name
=
$slice
->
name
()
if
(
$slice
);
my
$hname
=
$f
[
0
]
->
hseqname
;
my
$score
=
$f
[
0
]
->
score
;
...
...
@@ -737,6 +739,7 @@ sub _parse_features {
$self
->
{'
percent_id
'}
=
$percent
;
$self
->
{'
analysis
'}
=
$analysis
;
$self
->
{'
slice
'}
=
$slice
;
$self
->
{'
hslice
'}
=
$hslice
;
$self
->
{'
hstart
'}
=
$f2start
;
$self
->
{'
hend
'}
=
$f2end
;
$self
->
{'
hstrand
'}
=
$hstrand
;
...
...
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