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Maintenance - Mise à jour mensuelle Lundi 6 Février entre 7h00 et 9h00
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genotoul-bioinfo
ng6
Commits
357e1453
Commit
357e1453
authored
Jun 20, 2011
by
Jerome Mariette
Browse files
add help to blast_contamination_search
parent
e6643fb7
Changes
8
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454/templates/454_cnrgv/blast_contamination_search.read.config
View file @
357e1453
...
...
@@ -25,7 +25,7 @@ $;INPUT_FILE$;=
$;
INPUT_DIRECTORY
$;=
;;
the
following
is
only
used
when
iterating
over
an
INPUT_DIRECTORY
$;
INPUT_EXTENSION
$;=
fna
;
the
list
of
path
to
the
formated
database
separated
by
a
coma
;
the
list
of
path
to
the
formated
database
separated
by
a
coma
(
database
shouldnt
have
a
"."
in
there
name
)
$;
DATABASES
$; =
ecoli536
,
ecoliDH1
,
ecoliK12_DH10B
,
genbank_phage
,
Saccharomyces_cerevisiae
;
The
run
config
file
the
analyse
belongs
to
$;
NG6CFG_FILE
$; = $;
REPOSITORY_ROOT
$;/
output_repository
/
config_run
/$;
PIPELINEID
$;
_
raw_input
/
run
.
cfg
...
...
454/templates/454_default/blast_contamination_search.raw_input.config
View file @
357e1453
...
...
@@ -25,7 +25,7 @@ $;INPUT_FILE$;=
$;
INPUT_DIRECTORY
$;=
;;
the
following
is
only
used
when
iterating
over
an
INPUT_DIRECTORY
$;
INPUT_EXTENSION
$;=
fna
;
the
list
of
path
to
the
formated
database
separated
by
a
coma
;
the
list
of
path
to
the
formated
database
separated
by
a
coma
(
database
shouldnt
have
a
"."
in
there
name
)
$;
DATABASES
$; =
ecoli536
,
genbank_phage
,
Saccharomyces_cerevisiae
;
The
run
config
file
the
analyse
belongs
to
$;
NG6CFG_FILE
$; = $;
REPOSITORY_ROOT
$;/
output_repository
/
config_run
/$;
PIPELINEID
$;
_
raw_input
/
run
.
cfg
...
...
454/templates/454_fastq/blast_contamination_search.raw_input.config
View file @
357e1453
...
...
@@ -25,7 +25,7 @@ $;INPUT_FILE$;=
$;
INPUT_DIRECTORY
$;=
;;
the
following
is
only
used
when
iterating
over
an
INPUT_DIRECTORY
$;
INPUT_EXTENSION
$;=
fna
;
the
list
of
path
to
the
formated
database
separated
by
a
coma
;
the
list
of
path
to
the
formated
database
separated
by
a
coma
(
database
shouldnt
have
a
"."
in
there
name
)
$;
DATABASES
$; =
ecoli536
,
genbank_phage
,
Saccharomyces_cerevisiae
;
The
run
config
file
the
analyse
belongs
to
$;
NG6CFG_FILE
$; = $;
REPOSITORY_ROOT
$;/
output_repository
/
config_run
/$;
PIPELINEID
$;
_
raw_input
/
run
.
cfg
...
...
454/templates/454_from_run/blast_contamination_search.raw_input.config
View file @
357e1453
...
...
@@ -25,7 +25,7 @@ $;INPUT_FILE$;=
$;
INPUT_DIRECTORY
$;=
;;
the
following
is
only
used
when
iterating
over
an
INPUT_DIRECTORY
$;
INPUT_EXTENSION
$;=
fna
;
the
list
of
path
to
the
formated
database
separated
by
a
coma
;
the
list
of
path
to
the
formated
database
separated
by
a
coma
(
database
shouldnt
have
a
"."
in
there
name
)
$;
DATABASES
$; =
ecoli536
,
genbank_phage
,
Saccharomyces_cerevisiae
;
The
run
config
file
the
analyse
belongs
to
$;
NG6CFG_FILE
$; = $;
REPOSITORY_ROOT
$;/
output_repository
/
ng6run2ergatis
/$;
PIPELINEID
$;
_
raw_input
/
run
.
cfg
...
...
454/templates/454_mids_default/blast_contamination_search.all_mids.config
View file @
357e1453
...
...
@@ -25,7 +25,7 @@ $;INPUT_FILE$;=
$;
INPUT_DIRECTORY
$;=
;;
the
following
is
only
used
when
iterating
over
an
INPUT_DIRECTORY
$;
INPUT_EXTENSION
$;=
fna
;
the
list
of
path
to
the
formated
database
separated
by
a
coma
;
the
list
of
path
to
the
formated
database
separated
by
a
coma
(
database
shouldnt
have
a
"."
in
there
name
)
$;
DATABASES
$; =
ecoli536
,
genbank_phage
,
Saccharomyces_cerevisiae
;
The
run
config
file
the
analyse
belongs
to
$;
NG6CFG_FILE
$; = $;
REPOSITORY_ROOT
$;/
output_repository
/
config_run
/$;
PIPELINEID
$;
_
raw_input
/
run
.
cfg
...
...
454/templates/454_mids_from_run/blast_contamination_search.all_mids.config
View file @
357e1453
...
...
@@ -25,7 +25,7 @@ $;INPUT_FILE$;=
$;
INPUT_DIRECTORY
$;=
;;
the
following
is
only
used
when
iterating
over
an
INPUT_DIRECTORY
$;
INPUT_EXTENSION
$;=
fna
;
the
list
of
path
to
the
formated
database
separated
by
a
coma
;
the
list
of
path
to
the
formated
database
separated
by
a
coma
(
database
shouldnt
have
a
"."
in
there
name
)
$;
DATABASES
$; =
ecoli536
,
genbank_phage
,
Saccharomyces_cerevisiae
;
The
run
config
file
the
analyse
belongs
to
$;
NG6CFG_FILE
$; = $;
REPOSITORY_ROOT
$;/
output_repository
/
ng6run2ergatis
/$;
PIPELINEID
$;
_
raw_input
/
run
.
cfg
...
...
454/templates/454_mise/blast_contamination_search.read.config
View file @
357e1453
...
...
@@ -25,7 +25,7 @@ $;INPUT_FILE$;=
$;
INPUT_DIRECTORY
$;=
;;
the
following
is
only
used
when
iterating
over
an
INPUT_DIRECTORY
$;
INPUT_EXTENSION
$;=
fna
;
the
list
of
path
to
the
formated
database
separated
by
a
coma
;
the
list
of
path
to
the
formated
database
separated
by
a
coma
(
database
shouldnt
have
a
"."
in
there
name
)
$;
DATABASES
$; =
ecoli536
,
ecoliDH1
,
ecoliK12_DH10B
,
genbank_phage
,
Saccharomyces_cerevisiae
;
The
run
config
file
the
analyse
belongs
to
$;
NG6CFG_FILE
$; = $;
REPOSITORY_ROOT
$;/
output_repository
/
config_run
/$;
PIPELINEID
$;
_
raw_input
/
run
.
cfg
...
...
454/wfcomponent/blast_contamination_search.config
View file @
357e1453
...
...
@@ -25,7 +25,7 @@ $;INPUT_FILE$; =
$;
INPUT_DIRECTORY
$; =
;
the
following
is
only
used
when
iterating
over
an
INPUT_DIRECTORY
$;
INPUT_EXTENSION
$; =
fna
;
the
list
of
path
to
the
formated
database
separated
by
a
coma
;
the
list
of
path
to
the
formated
database
separated
by
a
coma
(
database
shouldnt
have
a
"."
in
there
name
)
$;
DATABASES
$; =
;
The
run
config
file
the
analyse
belongs
to
$;
NG6CFG_FILE
$; =
...
...
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