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Véronique LEGRAND
ROCK
Commits
59f1d08c
Commit
59f1d08c
authored
3 years ago
by
Veronique Legrand
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fixed compilation issue
parent
68a5e8ef
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1 changed file
src/ROCKparams.cpp
+2
-2
2 additions, 2 deletions
src/ROCKparams.cpp
with
2 additions
and
2 deletions
src/ROCKparams.cpp
+
2
−
2
View file @
59f1d08c
...
...
@@ -258,6 +258,7 @@ void ROCKparams::initFromMainOptsArgs(int argc,char ** argv) {
std
::
vector
<
string
>
v_input_lines
;
std
::
vector
<
string
>
v_output_lines
;
static
int
PE_separately
=
1
;
float
proba
=
k_max_collision_proba
;
while
((
i
=
getopt
(
argc
,
argv
,
"i:o:l:k:c:C:n:vq:m:f:"
))
!=
-
1
)
{
switch
(
i
)
{
...
...
@@ -268,7 +269,7 @@ void ROCKparams::initFromMainOptsArgs(int argc,char ** argv) {
case
'c'
:
parms
.
kappa_prime
=
atoi
(
optarg
);
break
;
case
'f'
:
float
proba
=
atof
(
optarg
);
proba
=
atof
(
optarg
);
if
((
proba
<=
0.0
)
or
(
proba
>=
1.0
))
{
cout
<<
"maximum for collision probability in the CMS must be > 0.0 and <1.0."
<<
endl
;
usage
(
EXIT_FAILURE
);
...
...
@@ -319,7 +320,6 @@ void ROCKparams::initFromMainOptsArgs(int argc,char ** argv) {
cout
<<
"minimum number of valid k-mer for keeping a read must be an integer >=1"
<<
endl
;
usage
(
EXIT_FAILURE
);
}
qual_thres
.
min_correct_k_mers_in_read
=
atoi
(
optarg
);
break
;
default
:
...
...
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