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Commit 715b4aa7 authored by Jerome Mariette's avatar Jerome Mariette
Browse files

make plugin1 uses smarty

parent 5dacf808
Expand all Hide whitespace changes
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ui/nG6/lib/class.tx_nG6_db.php
View file @ 715b4aa7
......@@ -112,7 +112,13 @@ class tx_nG6_db {
'LIMIT' => ''
);
$res = $GLOBALS['TYPO3_DB']->exec_SELECT_queryArray($queryParts);
return $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res);
$vals = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res);
return array('id' => $vals['uid'],
'name' => $vals['name'],
'hidden' => $vals['hidden'],
'public' => $vals['public'],
'group' => $vals['fe_group'],
'description' => $vals['description']);
}
/**
......@@ -476,6 +482,7 @@ class tx_nG6_db {
'tx_nG6_run.sequencer AS run_sequencer, '.
'tx_nG6_run.type AS run_type, '.
'tx_nG6_run.full_seq_size, '.
'tx_nG6_run.hidden AS run_hidden, '.
'tx_nG6_run.nb_sequences, '.
'tx_nG6_run.date AS run_date',
'FROM' => 'tx_nG6_project INNER JOIN ( tx_nG6_project_run INNER JOIN tx_nG6_run ON tx_nG6_project_run.run_id=tx_nG6_run.uid '.
......@@ -490,17 +497,19 @@ class tx_nG6_db {
$res = $GLOBALS['TYPO3_DB']->exec_SELECT_queryArray($queryParts);
while($row = $GLOBALS['TYPO3_DB']->sql_fetch_assoc($res)) {
$result = array(
'id' => $row['run_id'],
'project_id' => $row['project_id'],
'project_name' => $row['project_name'],
'directory' => $row['run_directory'],
'name' => $row['run_name'],
'type' => $row['run_type'],
'sequencer' => $row['run_sequencer'],
'data_nature' => $row['run_data_nature'],
'full_seq_size' => $row['full_seq_size'],
'hidden' => $row['run_hidden'],
'species' => $row['run_species'],
'nb_sequences' => $row['nb_sequences'],
'full_seq_size' => $row['full_seq_size'],
'date' => $row['run_date'],
'data_nature' => $row['run_data_nature'],
'sequencer' => $row['run_sequencer'],
'type' => $row['run_type'],
'description' => $row['run_description']
);
}
......@@ -1167,7 +1176,7 @@ class tx_nG6_db {
} else {
$is_super_user = in_array($user_group, preg_split("/,/", $effective_supergroups));
}
return $is_super_user;
}
}
......
ui/nG6/pi1/class.tx_nG6_pi1.php
View file @ 715b4aa7
This diff is collapsed.
ui/nG6/pi1/locallang.xml
View file @ 715b4aa7
......@@ -7,6 +7,8 @@
<data type="array">
<languageKey index="default" type="array">
<label index="project">Project</label>
<label index="run">Run</label>
<label index="user_login">Login : </label>
<label index="user_pwd">Password : </label>
<label index="user_directory">Directory : </label>
......@@ -15,7 +17,7 @@
<label index="no_raw">Sorry no results to display</label>
<label index="no_template_found">No template file found for the analyse class ###ANALYSE_CLASS###.</label>
<label index="runs_done">Runs done :</label>
<label index="analyzes_done">Analyzes done :</label>
<label index="analyzes_done">Analysis done :</label>
<label index="uid">ID</label>
<label index="date">Date</label>
<label index="downloads">Downloads</label>
......@@ -281,6 +283,8 @@
</languageKey>
<languageKey index="fr" type="array">
<label index="run">Run</label>
<label index="project">Projet</label>
<label index="user_login">Identifiant : </label>
<label index="user_pwd">Mot de passe : </label>
<label index="user_directory">Répertoire : </label>
......
ui/nG6/pi1/project_view.tpl 0 → 100644
View file @ 715b4aa7
{*
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/>.
*}
<div id="user_information_dialog" title=""></div>
<div id="error_dialog" title=""></div>
<input type="hidden" id="cancel_btn_label" value="{$llang.cancel_btn_label}" />
<input type="hidden" id="ok_btn_label" value="{$llang.ok_btn_label}" />
<input type="hidden" id="yes_btn_label" value="{$llang.yes_btn_label}" />
<input type="hidden" id="no_btn_label" value="{$llang.no_btn_label}" />
<input type="hidden" id="confirmation_dialog_title" value="{$llang.confirmation_dialog_title}" />
<input type="hidden" id="information_error_title" value="{$llang.information_error_title}" />
<input type="hidden" id="hide_dialog_title" value="{$llang.hide_dialog_title}" />
<input type="hidden" id="hide_confirmation_msg" value="{$llang.hide_confirmation_msg}" />
<input type="hidden" id="unhide_dialog_title" value="{$llang.unhide_dialog_title}" />
<input type="hidden" id="unhide_confirmation_msg" value="{$llang.unhide_confirmation_msg}" />
<input type="hidden" id="information_error_msg" value="{$llang.information_error_msg}" />
<input type="hidden" id="information_dialog_zero_check" value="{$llang.information_dialog_zero_check}" />
<input type="hidden" id="delete_confirmation_msg" value="{$llang.delete_confirmation_msg}" />
<input type="hidden" id="deleting_dialog_msg" value="{$llang.deleting_dialog_msg}" />
<input type="hidden" id="delete_authentication_dialog_msg" value="{$llang.delete_authentication_dialog_msg|replace:'###SPAN_SERVER###':$server_name}" />
<input type="hidden" id="user_login" value="{$llang.user_login}" />
<input type="hidden" id="user_pwd" value="{$llang.user_pwd}" />
<input type="hidden" id="user_group" value="{$user_group}" />
<input type="hidden" id="deleting_dialog_title" value="{$llang.deleting_dialog_title}" />
<input type="hidden" id="delete_success_msg" value="{$llang.delete_success_msg}" />
<input type="hidden" id="delete_dialog_rigth_error" value="{$llang.delete_dialog_rigth_error}" />
<input type="hidden" id="delete_dialog_authentification_error" value="{$llang.delete_dialog_authentification_error}" />
<input type="hidden" id="delete_dialog_connection_error" value="{$llang.delete_dialog_connection_error}" />
<input type="hidden" id="publish_dialog_title" value="{$llang.publish_dialog_title}" />
<input type="hidden" id="publish_confirmation_msg" value="{$llang.publish_confirmation_msg}" />
<input type="hidden" id="unpublish_dialog_title" value="{$llang.unpublish_dialog_title}" />
<input type="hidden" id="unpublish_confirmation_msg" value="{$llang.unpublish_confirmation_msg}" />
<input type="hidden" id="data_folder" value="{$data_folder}" />
{* If no project can be displayed *}
{if $projects|@count == 0 }
{$llang.no_raw}
{* If a single project has to be displayed *}
{elseif $projects|@count == 1}
<div class="tx-nG6-pi1-singleView">
<h2>{$llang.project} {$projects[key($projects)].name} :</h2>
<p><strong>{$projects[key($projects)].description}</strong></p>
</div>
<br />
{* If there is some runs to display *}
{if $project_runs|@count > 0}
<h3> {$llang.runs_done} </h3>
<br />
{* Find out if the current user is super user of a run *}
{foreach from=$project_runs key=run_id item=run_values}
{if $run_values.superuser}
{assign var="superuser" value=true}
{else}
{assign var="superuser" value=false}
{/if}
{/foreach}
<table class="tx-nG6-pi1-listrow">
<tr>
{if $superuser && $login_user}
<th><center><input type="checkbox" id="chk_all_run"></center></th>
{/if}
<th>{$llang.run_name}</th>
<th>{$llang.project_name}</th>
<th>{$llang.date}</th>
<th>{$llang.species}</th>
<th>{$llang.data_nature}</th>
<th>{$llang.type}</th>
<th>{$llang.nb_sequences}</th>
<th>{$llang.full_seq_size}</th>
<th>{$llang.description}</th>
<th>{$llang.sequencer}</th>
</tr>
{foreach from=$project_runs key=run_id item=run_values}
<tr>
{if $run_values.superuser}
<td><center><input type="checkbox" id="chk_run_{$run_values.id}" value="run_{$run_values.id}"></center></td>
{/if}
{assign var="hidden_class" value="class='tx-nG6-pi1-hidden'"}
{if $run_values.hidden == 0}
{assign var="hidden_class" value=""}
{/if}
<td {$hidden_class}>{$run_values.href}</td>
<td {$hidden_class}>{$run_values.project_name}</td>
<td {$hidden_class}>{$run_values.date|date_format:"%d-%m-%y"}</td>
<td {$hidden_class}>{$run_values.species}</td>
<td {$hidden_class}>{$run_values.data_nature}</td>
<td {$hidden_class}>{$run_values.type}</td>
<td {$hidden_class}>{$run_values.nb_sequences|number_format:0:' ':' '}</td>
<td {$hidden_class}>{$run_values.full_seq_size|number_format:0:' ':' '}</td>
<td {$hidden_class}>{$run_values.description}</td>
<td {$hidden_class}>{$run_values.sequencer}</td>
</tr>
{/foreach}
</table>
{if $superuser && $login_user}
<div class="tx-nG6-pi1-div-option-menu">{$llang.toolbar_title}
<button id="hide_run" type="button" class="btn pill-l"><span><span>{$llang.hide_btn}</span></span></button><button id="unhide_run" type="button" class="btn pill-r"><span><span>{$llang.unhide_btn}</span></span></button>
&nbsp;<button id="delete_run" type="button" class="btn"><span><span>{$llang.delete_btn}</span></span></button>
</div>
{/if}
{/if}
{* If there is some analysis to display *}
{if $project_analysis|@count > 0}
<h3> {$llang.analyzes_done} </h3>
<br />
{* Find out if the current user is super user of an analysis *}
{foreach from=$project_analysis key=analysis_id item=analysis_values}
{if $analysis_values.superuser}
{assign var="superuser" value=true}
{else}
{assign var="superuser" value=false}
{/if}
{/foreach}
<table class="tx-nG6-pi1-listrow">
<tr>
{if $superuser && $login_user}
<th><center><input type="checkbox" id="chk_all_analysis"></center></th>
{/if}
<th>{$llang.name}</th>
<th>{$llang.description}</th>
<th>{$llang.software}</th>
<th>{$llang.version}</th>
</tr>
{foreach from=$project_analysis key=analysis_id item=analysis_values}
<tr>
{if $analysis_values.superuser}
<td><center><input type="checkbox" id="chk_analysis_{$analysis_values.id}" value="analysis_{$analysis_values.id}"></center></td>
{/if}
{assign var="hidden_class" value="class='tx-nG6-pi1-hidden'"}
{if $analysis_values.hidden == 0}
{assign var="hidden_class" value=""}
{/if}
<td {$hidden_class}>{$analysis_values.href}</td>
<td {$hidden_class}>{$analysis_values.description}</td>
<td {$hidden_class}>{$analysis_values.software}</td>
<td {$hidden_class}>{$analysis_values.version}</td>
</tr>
{/foreach}
</table>
{if $superuser && $login_user}
<div class="tx-nG6-pi1-div-option-menu">{$llang.toolbar_title}
<button id="hide_analysis" type="button" class="btn pill-l"><span><span>{$llang.hide_btn}</span></span></button><button id="unhide_analysis" type="button" class="btn pill-r"><span><span>{$llang.unhide_btn}</span></span></button>
&nbsp;<button id="delete_analysis" type="button" class="btn"><span><span>{$llang.delete_btn}</span></span></button>
</div>
{/if}
{/if}
{* If multiple projects have to be displayed *}
{else}
{* Find out if the current user is super user of a project *}
{foreach from=$projects key=project_id item=project_values}
{if $project_values.superuser}
{assign var="superuser" value=true}
{else}
{assign var="superuser" value=false}
{/if}
{/foreach}
{* Then display the table *}
<table class="tx-nG6-pi1-listrow">
<tr>
{if $superuser && $login_user}
<th><center><input type="checkbox" id="chk_all_project"></center></th>
{/if}
<th>{$llang.project_name}</th>
<th>{$llang.description}</th>
</tr>
{foreach from=$projects key=project_id item=project_values}
{assign var="public_class" value=""}
{if $login_user && $project_values.public == 0 && $project_values.superuser}
{assign var="public_class" value="class='tx-nG6-pi1-public'"}
{/if}
<tr {$public_class}>
{if $project_values.superuser}
<td><center><input type="checkbox" id="chk_project_{$project_values.id}" value="project_{$project_values.id}"></center></td>
{/if}
{assign var="hidden_class" value="class='tx-nG6-pi1-hidden'"}
{if $project_values.hidden == 0}
{assign var="hidden_class" value=""}
{/if}
<td {$hidden_class}>{$project_values.href}</td>
<td {$hidden_class}>{$project_values.description}</td>
</tr>
{/foreach}
</table>
{if $superuser && $login_user}
<div class="tx-nG6-pi1-div-option-menu">{$llang.toolbar_title}
<button id="hide_project" type="button" class="btn pill-l"><span><span>{$llang.hide_btn}</span></span></button><button id="unhide_project" type="button" class="btn pill-r"><span><span>{$llang.unhide_btn}</span></span></button>
&nbsp;<button id="delete_project" type="button" class="btn"><span><span>{$llang.delete_btn}</span></span></button>&nbsp;
<button id="publish_project" type="button" class="btn pill-l"><span><span>{$llang.publish_btn}</span></span></button><button id="unpublish_project" type="button" class="btn pill-r"><span><span>{$llang.unpublish_btn}</span></span></button>
</div>
{/if}
{/if}
ui/nG6/pi1/run_view.tpl 0 → 100644
View file @ 715b4aa7
{*
Copyright (C) 2009 INRA
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU General Public License for more details.
You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.
*}
<div id="user_information_dialog" title=""></div>
<div id="error_dialog" title=""></div>
<input type="hidden" id="cancel_btn_label" value="{$llang.cancel_btn_label}" />
<input type="hidden" id="ok_btn_label" value="{$llang.ok_btn_label}" />
<input type="hidden" id="yes_btn_label" value="{$llang.yes_btn_label}" />
<input type="hidden" id="no_btn_label" value="{$llang.no_btn_label}" />
<input type="hidden" id="confirmation_dialog_title" value="{$llang.confirmation_dialog_title}" />
<input type="hidden" id="information_error_title" value="{$llang.information_error_title}" />
<input type="hidden" id="hide_dialog_title" value="{$llang.hide_dialog_title}" />
<input type="hidden" id="hide_confirmation_msg" value="{$llang.hide_confirmation_msg}" />
<input type="hidden" id="unhide_dialog_title" value="{$llang.unhide_dialog_title}" />
<input type="hidden" id="unhide_confirmation_msg" value="{$llang.unhide_confirmation_msg}" />
<input type="hidden" id="information_error_msg" value="{$llang.information_error_msg}" />
<input type="hidden" id="information_dialog_zero_check" value="{$llang.information_dialog_zero_check}" />
<input type="hidden" id="delete_confirmation_msg" value="{$llang.delete_confirmation_msg}" />
<input type="hidden" id="deleting_dialog_msg" value="{$llang.deleting_dialog_msg}" />
<input type="hidden" id="delete_authentication_dialog_msg" value="{$llang.delete_authentication_dialog_msg|replace:'###SPAN_SERVER###':$server_name}" />
<input type="hidden" id="user_login" value="{$llang.user_login}" />
<input type="hidden" id="user_pwd" value="{$llang.user_pwd}" />
<input type="hidden" id="user_group" value="{$user_group}" />
<input type="hidden" id="deleting_dialog_title" value="{$llang.deleting_dialog_title}" />
<input type="hidden" id="delete_success_msg" value="{$llang.delete_success_msg}" />
<input type="hidden" id="delete_dialog_rigth_error" value="{$llang.delete_dialog_rigth_error}" />
<input type="hidden" id="delete_dialog_authentification_error" value="{$llang.delete_dialog_authentification_error}" />
<input type="hidden" id="delete_dialog_connection_error" value="{$llang.delete_dialog_connection_error}" />
<input type="hidden" id="data_folder" value="{$data_folder}" />
{* If no runs can be displayed *}
{if $runs|@count == 0 }
{$llang.no_raw}
{* If a single run has to be displayed *}
{elseif $runs|@count == 1}
<div class="tx-nG6-pi1-singleView">
<h2>{$llang.run} {$runs[$first_id].name} :</h2>
<p><strong>{$runs[$first_id].description}</strong></p>
</div>
<table class="tx-nG6-pi1-listrow">
<tr>
<th align="left">{$llang.project_name} :</th>
<td align="left">{$runs[$first_id].project_name}</td>
</tr>
<tr>
<th align="left">{$llang.date} :</th>
<td align="left">{$runs[$first_id].date|date_format:"%d-%m-%y"}</td>
</tr>
<tr>
<th align="left">{$llang.species} :</th>
<td align="left">{$runs[$first_id].species}</td>
</tr>
<tr>
<th align="left">{$llang.type} :</th>
<td align="left">{$runs[$first_id].type}</td>
</tr>
<tr>
<th align="left">{$llang.data_nature} :</th>
<td align="left">{$runs[$first_id].data_nature}</td>
</tr>
<tr>
<th align="left">{$llang.nb_sequences} :</th>
<td align="left">{$runs[$first_id].nb_sequences|number_format:0:' ':' '}</td>
</tr>
<tr>
<th align="left">{$llang.full_seq_size} :</th>
<td align="left">{$runs[$first_id].full_seq_size|number_format:0:' ':' '}</td>
</tr>
<tr>
<th align="left">{$llang.sequencer} :</th>
<td align="left">{$runs[$first_id].sequencer}</td>
</tr>
<tr>
<th align="left">{$llang.downloads} :</th>
<td align="left">
{$dir=$data_folder|cat:$runs[$first_id].directory}
{assign var="nb_files" value=0}
{foreach $dir|scandir as $file}
{if $file != "." and $file != ".." and ($file|substr:-strlen(".png")) != ".png"}
{$link=(('fileadmin'|cat:$runs[$first_id].directory)|cat:'/')|cat:$file}
<a href="{$link}">{$file}</a> <br />
{$nb_files = $nb_files + 1}
{/if}
{/foreach}
{if $nb_files == 0}
{$llang.not_synchro}
{/if}
</td>
</tr>
</table>
<br />
{* If there is some analysis to display *}
{if $run_analysis|@count > 0}
<h3> {$llang.analyzes_done} </h3>
<br />
{* Find out if the current user is super user of an analysis *}
{foreach from=$run_analysis key=analysis_id item=analysis_values}
{if $analysis_values.superuser}
{assign var="superuser" value=true}
{else}
{assign var="superuser" value=false}
{/if}
{/foreach}
<table class="tx-nG6-pi1-listrow">
<tr>
{if $superuser && $login_user}
<th><center><input type="checkbox" id="chk_all_analysis"></center></th>
{/if}
<th>{$llang.name}</th>
<th>{$llang.description}</th>
<th>{$llang.software}</th>
<th>{$llang.version}</th>
</tr>
{foreach from=$run_analysis key=analysis_id item=analysis_values}
<tr>
{if $analysis_values.superuser}
<td><center><input type="checkbox" id="chk_analysis_{$analysis_values.id}" value="analysis_{$analysis_values.id}"></center></td>
{/if}
{assign var="hidden_class" value="class='tx-nG6-pi1-hidden'"}
{if $analysis_values.hidden == 0}
{assign var="hidden_class" value=""}
{/if}
<td {$hidden_class}>{$analysis_values.href}</td>
<td {$hidden_class}>{$analysis_values.description}</td>
<td {$hidden_class}>{$analysis_values.software}</td>
<td {$hidden_class}>{$analysis_values.version}</td>
</tr>
{/foreach}
</table>
{if $superuser && $login_user}
<div class="tx-nG6-pi1-div-option-menu">{$llang.toolbar_title}
<button id="hide_analysis" type="button" class="btn pill-l"><span><span>{$llang.hide_btn}</span></span></button><button id="unhide_analysis" type="button" class="btn pill-r"><span><span>{$llang.unhide_btn}</span></span></button>
&nbsp;<button id="delete_analysis" type="button" class="btn"><span><span>{$llang.delete_btn}</span></span></button>
</div>
{/if}
{/if}
{* If multiple runs have to be displayed *}
{else}
{* Find out if the current user is super user of a run *}
{foreach from=$runs key=run_id item=run_values}
{if $run_values.superuser}
{assign var="superuser" value=true}
{else}
{assign var="superuser" value=false}
{/if}
{/foreach}
{* Then display the table *}
<table class="tx-nG6-pi1-listrow">
<tr>
{if $superuser && $login_user}
<th><center><input type="checkbox" id="chk_all_run"></center></th>
{/if}
<th>{$llang.run_name}</th>
<th>{$llang.project_name}</th>
<th>{$llang.date}</th>
<th>{$llang.species}</th>
<th>{$llang.data_nature}</th>
<th>{$llang.type}</th>
<th>{$llang.nb_sequences}</th>
<th>{$llang.full_seq_size}</th>
<th>{$llang.description}</th>
<th>{$llang.sequencer}</th>
</tr>
{foreach from=$runs key=run_id item=run_values}
<tr>
{if $run_values.superuser}
<td><center><input type="checkbox" id="chk_run_{$run_values.id}" value="run_{$run_values.id}"></center></td>
{/if}
{assign var="hidden_class" value="class='tx-nG6-pi1-hidden'"}
{if $run_values.hidden == 0}
{assign var="hidden_class" value=""}
{/if}
<td {$hidden_class}>{$run_values.href}</td>
<td {$hidden_class}>{$run_values.project_name}</td>
<td {$hidden_class}>{$run_values.date|date_format:"%d-%m-%y"}</td>
<td {$hidden_class}>{$run_values.species}</td>
<td {$hidden_class}>{$run_values.data_nature}</td>
<td {$hidden_class}>{$run_values.type}</td>
<td {$hidden_class}>{$run_values.nb_sequences|number_format:0:' ':' '}</td>
<td {$hidden_class}>{$run_values.full_seq_size|number_format:0:' ':' '}</td>
<td {$hidden_class}>{$run_values.description}</td>
<td {$hidden_class}>{$run_values.sequencer}</td>
</tr>
{/foreach}
</table>
{if $superuser && $login_user}
<div class="tx-nG6-pi1-div-option-menu">{$llang.toolbar_title}
<button id="hide_run" type="button" class="btn pill-l"><span><span>{$llang.hide_btn}</span></span></button><button id="unhide_run" type="button" class="btn pill-r"><span><span>{$llang.unhide_btn}</span></span></button>
&nbsp;<button id="delete_run" type="button" class="btn"><span><span>{$llang.delete_btn}</span></span></button>&nbsp;
</div>
{/if}
{/if}
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