changeset 10:d84735cff8ed draft

Deleted selected files

--- a/importer.py	Thu Sep 22 08:32:12 2016 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,7 +0,0 @@
-# BEGIN_COPYRIGHT
-# END_COPYRIGHT
-
-import sys
-from bl.vl.app.importer.main import main
-
-main(sys.argv[1:])

--- a/study.xml	Thu Sep 22 08:32:12 2016 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,83 +0,0 @@
-<tool id="vl_import_study" name="VLI.study">
-  <description>import study definitions within omero/vl</description>
-  <command interpreter="python">
-    #if $__app__.config.vl_import_enabled_users.split(',').count($__user_email__)==1 #importer.py
-    #else #unauthorized_access.py
-    #end if
-    #if $advanced_configuration.configuration_level == 'advanced'
-      --host=$advanced_configuration.vl_host
-      --user=$advanced_configuration.vl_user
-      --passwd=$advanced_configuration.vl_passwd
-    #end if
-    --operator=galaxy
-    --ifile=$input
-    --ofile=$output
-    --report_file=$report
-    --loglevel=$__app__.config.vl_loglevel
-    --logfile=${logfile}
-    #if $blocking_validation
-      --blocking-validator
-    #end if
-    study
-  </command>  
-
-  <inputs>
-    <param format="tabular" name="input" type="data"
-	   label="A tabular dataset with the following columns ..."/>
-
-    <!-- ************************************************** -->
-    <param name="blocking_validation" type="boolean" checked="false"
-	   label="Blocking validation"
-	   help="When this check is enabled, if at least one record doesn't pass importer's validation, the entire import procedure will be blocked"/>
-
-    <conditional name="wait_for_trigger">
-      <param name="enable_trigger" type="boolean" checked="false"
-	     label="Wait for another tool to end before running this tool"/>
-      <when value="true">
-	<param format="txt" name="trigger_file" type="data"
-	       label="Select the LOG file that will be used as trigger"/>
-      </when>
-    </conditional>   
-
-    <conditional name="advanced_configuration">
-      <param name="configuration_level" type="select" 
-	     label="Configuration level">
-	<option value="default" selected="true">Default configuration</option>	
-	<option value="advanced">Advanced configuration</option>
-      </param>
-      <when value="advanced">
-	<param name="vl_host" size="40" type="text" 
-	       value="localhost" 
-	       label="Omero/VL host"/>
-	<param name="vl_user" size="20" type="text" 
-	       value="root" 
-	       label="Omero/VL user"/>
-	<param name="vl_passwd" size="20" type="text" 
-	       value="What_Me_worry?" 
-	       label="Omero/VL passwd"/>
-      </when>
-      <when/>
-    </conditional>
-  </inputs>
-
-  <outputs>
-    <data format="tabular" name="output" label="${tool.name}.mapping"/>
-    <data format="tabular" name="report" label="${tool.name}.report"/>
-    <data format="txt" name="logfile" label="${tool.name}.logfile"/>
-  </outputs>
-
-  <help>
-Will import a stream of new study definitions defined by the following
-tab-separated columns. A typical file will look like the following::
-
-  label	 description
-  BSTUDY A basically empty description of BSTUDY
-  CSTUDY A basically empty description of CSTUDY
-  ....
-  </help>
-
-  <stdio>
-    <exit_code range="1:" level="fatal" />
-  </stdio>
-
-</tool>