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genotoul-bioinfo
ng6
Commits
d77e2432
Commit
d77e2432
authored
Jun 11, 2013
by
Jerome Mariette
Browse files
diference between analysis template and BasicAnalysis
parent
338086c6
Changes
32
Hide whitespace changes
Inline
Side-by-side
ui/nG6/pi1/analyzes/Adaptorcleaner.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
params_title
}
Cleaning options
{/
block
}
{
block
name
=
params_content
}
...
...
ui/nG6/pi1/analyzes/AlignmentStats.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
params
}
{
assign
var
=
"params"
value
=
" "
|
explode
:
$analyse.params
}
...
...
ui/nG6/pi1/analyzes/AnalysisTemplate.tpl
0 → 100644
View file @
d77e2432
{*
Copyright (C) 2009 INRA
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU General Public License for more details.
You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
<input
type=
"hidden"
id=
"analyse_name"
value=
"
{
$analyse.name
}
"
/>
{
block
name
=
description
}
<div
class=
"sub-content sc-top"
>
<div
class=
"ng6-content-header-left analysis"
>
<h2>
Analysis
<small>
{
$analyse.name
}
</small></h2>
</div>
<div
class=
"ng6-content-header-right"
>
{
$analyse.description
}
<br
/>
All data related to this analysis use
<strong>
{
$analyse_size
}
</strong>
on the hard drive.
</div>
<div
style=
"clear:both"
></div>
</div>
{/
block
}
<div
class=
"sub-content sc-bottom"
>
{
block
name
=
content
}
<ul
id=
"myTab"
class=
"nav nav-tabs"
>
<li
class=
"active"
><a
href=
"#results"
data-toggle=
"tab"
>
{
block
name
=
results_title
}
Results
{/
block
}
</a></li>
{
if
$analyse.params
!=
""
}
<li><a
href=
"#parameters"
data-toggle=
"tab"
>
{
block
name
=
params_title
}
Parameters
{/
block
}
</a></li>
{/
if
}
<li><a
href=
"#downloads"
data-toggle=
"tab"
>
{
block
name
=
downloads_title
}
Downloads
{/
block
}
</a></li>
</ul>
<div
id=
"myTabContent"
class=
"tab-content"
>
<div
class=
"tab-pane fade in active"
id=
"results"
>
{
block
name
=
results
}{/
block
}
</div>
{
if
$analyse.params
!=
""
}
<div
class=
"tab-pane fade"
id=
"parameters"
>
{
block
name
=
params
}
{
block
name
=
params_content
}
<ul>
<li
class=
"parameter"
>
{
$analyse.params
}
</li>
</ul>
{/
block
}
{/
block
}
</div>
{/
if
}
<div
class=
"tab-pane fade"
id=
"downloads"
>
{
block
name
=
download
}
{
assign
var
=
"nb_files"
value
=
0
}
{
$dir
=
$data_folder
|
cat
:
$analyse.directory
}
{
foreach
$dir
|
scandir
as
$file
}
{
if
$file
!=
"."
and
$file
!=
""
and
$file
!=
".."
and
(
$file
|
substr
:-
strlen
(
".png"
))
!=
".png"
}
{
$nb_files
=
$nb_files
+
1
}
{/
if
}
{/
foreach
}
{
if
$nb_files
==
0
}
<div
class=
"alert alert-info"
>
Results folder not synchronized yet...
</div>
{
else
}
<ul>
{
foreach
$dir
|
scandir
as
$file
}
{
if
$file
!=
"."
and
$file
!=
""
and
$file
!=
".."
and
(
$file
|
substr
:-
strlen
(
".png"
))
!=
".png"
}
{
$link
=((
'fileadmin'
|
cat
:
$analyse.directory
)|
cat
:
'/'
)|
cat
:
$file
}
<li
class=
"filelist"
><a
href=
"
{
$link
}
"
>
{
$file
}
</a>
</li>
{/
if
}
{/
foreach
}
</ul>
{/
if
}
{/
block
}
</div>
</div>
{/
block
}
</div>
{* Modal initialization *}
{* Global tmpl *}
<div
id=
"ng6modal"
class=
"modal hide fade"
tabindex=
"-1"
role=
"dialog"
aria-labelledby=
"modal-label-tmpl"
aria-hidden=
"true"
>
<div
class=
"modal-header"
>
<button
type=
"button"
class=
"close"
data-dismiss=
"modal"
aria-hidden=
"true"
>
×
</button>
<h3
id=
"modal-label-tmpl"
>
Modal header
</h3>
</div>
<div
id=
"modal-body-tmpl"
class=
"modal-body"
></div>
<div
id=
"modal-foot-tmpl"
class=
"modal-footer"
></div>
</div>
{* Error only 1 raw modal *}
<div
id=
"ng6modal-1raw"
class=
"modal hide fade"
tabindex=
"-1"
role=
"dialog"
aria-labelledby=
"modalLabel-1raw"
aria-hidden=
"true"
>
<div
class=
"modal-header"
>
<button
type=
"button"
class=
"close"
data-dismiss=
"modal"
aria-hidden=
"true"
>
×
</button>
<h3>
Error
</h3>
</div>
<div
class=
"modal-body"
>
<div
class=
'tx-nG6-pi1-error'
>
Only one row should be selected to access this fonctionality.
</div>
</div>
<div
class=
"modal-footer"
>
<button
class=
"btn"
data-dismiss=
"modal"
aria-hidden=
"true"
><i
class=
"icon-remove"
></i>
Close
</button>
</div>
</div>
\ No newline at end of file
ui/nG6/pi1/analyzes/BWA.tpl
View file @
d77e2432
...
...
@@ -15,4 +15,4 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'BasicAnalyse.tpl'
}
\ No newline at end of file
{
extends
file
=
'AnalysisTemplate.tpl'
}
\ No newline at end of file
ui/nG6/pi1/analyzes/BasicAnalyse.tpl
View file @
d77e2432
...
...
@@ -15,97 +15,46 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
<input
type=
"hidden"
id=
"analyse_name"
value=
"
{
$analyse.name
}
"
/>
{
block
name
=
description
}
<div
class=
"sub-content sc-top"
>
<div
class=
"ng6-content-header-left analysis"
>
<h2>
Analysis
<small>
{
$analyse.name
}
</small></h2>
</div>
<div
class=
"ng6-content-header-right"
>
{
$analyse.description
}
<br
/>
All data related to this analysis use
<strong>
{
$analyse_size
}
</strong>
on the hard drive.
</div>
<div
style=
"clear:both"
></div>
</div>
{/
block
}
{
extends
file
=
'AnalysisTemplate.tpl'
}
<div
class=
"sub-content sc-bottom"
>
{
block
name
=
content
}
<ul
id=
"myTab"
class=
"nav nav-tabs"
>
<li
class=
"active"
><a
href=
"#
result
s"
data-toggle=
"tab"
>
{
block
name
=
results_title
}
Results
{/
block
}
</a></li>
<li
class=
"active"
><a
href=
"#
download
s"
data-toggle=
"tab"
>
Downloads
</a></li>
{
if
$analyse.params
!=
""
}
<li><a
href=
"#parameters"
data-toggle=
"tab"
>
{
block
name
=
params_title
}
Parameters
{/
block
}
</a></li>
<li><a
href=
"#parameters"
data-toggle=
"tab"
>
Parameters
</a></li>
{/
if
}
<li><a
href=
"#downloads"
data-toggle=
"tab"
>
{
block
name
=
downloads_title
}
Downloads
{/
block
}
</a></li>
</ul>
<div
id=
"myTabContent"
class=
"tab-content"
>
<div
class=
"tab-pane fade in active"
id=
"results"
>
{
block
name
=
results
}{/
block
}
<div
class=
"tab-pane fade in active"
id=
"downloads"
>
{
assign
var
=
"nb_files"
value
=
0
}
{
$dir
=
$data_folder
|
cat
:
$analyse.directory
}
{
foreach
$dir
|
scandir
as
$file
}
{
if
$file
!=
"."
and
$file
!=
""
and
$file
!=
".."
and
(
$file
|
substr
:-
strlen
(
".png"
))
!=
".png"
}
{
$nb_files
=
$nb_files
+
1
}
{/
if
}
{/
foreach
}
{
if
$nb_files
==
0
}
<div
class=
"alert alert-info"
>
Results folder not synchronized yet...
</div>
{
else
}
<ul>
{
foreach
$dir
|
scandir
as
$file
}
{
if
$file
!=
"."
and
$file
!=
""
and
$file
!=
".."
and
(
$file
|
substr
:-
strlen
(
".png"
))
!=
".png"
}
{
$link
=((
'fileadmin'
|
cat
:
$analyse.directory
)|
cat
:
'/'
)|
cat
:
$file
}
<li
class=
"filelist"
><a
href=
"
{
$link
}
"
>
{
$file
}
</a>
</li>
{/
if
}
{/
foreach
}
</ul>
{/
if
}
</div>
{
if
$analyse.params
!=
""
}
<div
class=
"tab-pane fade"
id=
"parameters"
>
{
block
name
=
params
}
{
block
name
=
params_content
}
<ul>
<li
class=
"parameter"
>
{
$analyse.params
}
</li>
</ul>
{/
block
}
{/
block
}
<ul>
<li
class=
"parameter"
>
{
$analyse.params
}
</li>
</ul>
</div>
{/
if
}
<div
class=
"tab-pane fade"
id=
"downloads"
>
{
block
name
=
download
}
{
assign
var
=
"nb_files"
value
=
0
}
{
$dir
=
$data_folder
|
cat
:
$analyse.directory
}
{
foreach
$dir
|
scandir
as
$file
}
{
if
$file
!=
"."
and
$file
!=
""
and
$file
!=
".."
and
(
$file
|
substr
:-
strlen
(
".png"
))
!=
".png"
}
{
$nb_files
=
$nb_files
+
1
}
{/
if
}
{/
foreach
}
{
if
$nb_files
==
0
}
<div
class=
"alert alert-info"
>
Results folder not synchronized yet...
</div>
{
else
}
<ul>
{
foreach
$dir
|
scandir
as
$file
}
{
if
$file
!=
"."
and
$file
!=
""
and
$file
!=
".."
and
(
$file
|
substr
:-
strlen
(
".png"
))
!=
".png"
}
{
$link
=((
'fileadmin'
|
cat
:
$analyse.directory
)|
cat
:
'/'
)|
cat
:
$file
}
<li
class=
"filelist"
><a
href=
"
{
$link
}
"
>
{
$file
}
</a>
</li>
{/
if
}
{/
foreach
}
</ul>
{/
if
}
{/
block
}
</div>
</div>
{/
block
}
</div>
{* Modal initialization *}
{* Global tmpl *}
<div
id=
"ng6modal"
class=
"modal hide fade"
tabindex=
"-1"
role=
"dialog"
aria-labelledby=
"modal-label-tmpl"
aria-hidden=
"true"
>
<div
class=
"modal-header"
>
<button
type=
"button"
class=
"close"
data-dismiss=
"modal"
aria-hidden=
"true"
>
×
</button>
<h3
id=
"modal-label-tmpl"
>
Modal header
</h3>
</div>
<div
id=
"modal-body-tmpl"
class=
"modal-body"
></div>
<div
id=
"modal-foot-tmpl"
class=
"modal-footer"
></div>
</div>
{* Error only 1 raw modal *}
<div
id=
"ng6modal-1raw"
class=
"modal hide fade"
tabindex=
"-1"
role=
"dialog"
aria-labelledby=
"modalLabel-1raw"
aria-hidden=
"true"
>
<div
class=
"modal-header"
>
<button
type=
"button"
class=
"close"
data-dismiss=
"modal"
aria-hidden=
"true"
>
×
</button>
<h3>
Error
</h3>
</div>
<div
class=
"modal-body"
>
<div
class=
'tx-nG6-pi1-error'
>
Only one row should be selected to access this fonctionality.
</div>
</div>
<div
class=
"modal-footer"
>
<button
class=
"btn"
data-dismiss=
"modal"
aria-hidden=
"true"
><i
class=
"icon-remove"
></i>
Close
</button>
</div>
</div>
\ No newline at end of file
ui/nG6/pi1/analyzes/ContaminationSearch.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
results_title
}
Contamination Results
{/
block
}
...
...
ui/nG6/pi1/analyzes/CutAdapt.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
params_title
}
Cleaning options
{/
block
}
{
block
name
=
params_content
}
...
...
ui/nG6/pi1/analyzes/FastQC.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
params
}
{
assign
var
=
"params"
value
=
" "
|
explode
:
$analyse.params
}
...
...
ui/nG6/pi1/analyzes/FastqIlluminaFilter.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
params_title
}
Filtering options
{/
block
}
{
block
name
=
params_content
}
...
...
ui/nG6/pi1/analyzes/Flash.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
params
}
{
assign
var
=
"params"
value
=
" "
|
explode
:
$analyse.params
}
...
...
ui/nG6/pi1/analyzes/GAAS.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
results_title
}
Classifying results
{/
block
}
...
...
ui/nG6/pi1/analyzes/GeneBodyCoverage.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
results_title
}
Gene Coverage statistics
{/
block
}
{
block
name
=
results
}
...
...
ui/nG6/pi1/analyzes/InferExperiment.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
params
}
{
block
name
=
params_content
}
...
...
ui/nG6/pi1/analyzes/InnerDistance.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
params
}
{
block
name
=
params_content
}
...
...
ui/nG6/pi1/analyzes/InsertsSizes.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
params_title
}
Parameters used
{/
block
}
{
block
name
=
params_content
}
...
...
ui/nG6/pi1/analyzes/JunctionAnnotation.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
params
}
{
block
name
=
params_content
}
...
...
ui/nG6/pi1/analyzes/JunctionSaturation.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
params
}
{
block
name
=
params_content
}
...
...
ui/nG6/pi1/analyzes/MidsContaminationSearch.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
params
}{/
block
}
...
...
ui/nG6/pi1/analyzes/MothurAlign.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
params_title
}
Alignment options
{/
block
}
{
block
name
=
params_content
}
...
...
ui/nG6/pi1/analyzes/MothurClassify.tpl
View file @
d77e2432
...
...
@@ -15,7 +15,7 @@ You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
{
extends
file
=
'
Basic
Analyse.tpl'
}
{
extends
file
=
'Analys
isTemplat
e.tpl'
}
{
block
name
=
params_title
}
Mothur commands and parameters used
{/
block
}
{
block
name
=
params_content
}
...
...
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