diff --git a/tools/influx_data_manager/influx_data_manager.xml b/tools/influx_data_manager/influx_data_manager.xml
index b87134435..48bc00bd8 100644
--- a/tools/influx_data_manager/influx_data_manager.xml
+++ b/tools/influx_data_manager/influx_data_manager.xml
@@ -1,6 +1,6 @@
-<tool id="influx_data_manager" name="Influx Data Connector: Handling influx_si data inputs in Galaxy workflows" version="@TOOL_VERSION@+galaxy0" profile="23.0">
+<tool id="influx_data_manager" name="Influx Data Connector: Handling influx_si data inputs in Galaxy workflows" version="@TOOL_VERSION@+galaxy1" profile="23.0">
     <macros>
-        <token name='@TOOL_VERSION@'>1.0.2</token>
+        <token name='@TOOL_VERSION@'>1.0.3</token>
     </macros>
     <requirements>
         <requirement type='package' version='@TOOL_VERSION@'>influx-si-data-manager</requirement>
@@ -9,6 +9,7 @@
     influx_data_manager
     --physiofit '$physiofit' 
     --isocor '$isocor'
+    --mapping '$mapping'
     --linp '$linp'
     --netw '$netw'
     --mmet '$mmet'
@@ -28,12 +29,13 @@
         <param type='data' format='tabular,txt' argument='--mmet' label='File containing specie concentrations for experiments (.mmet file)' optional='true'/>
         <param type='data' format='tabular,txt' argument='--cnstr' label='File containing constraints onf fluxes and specie concentrations for experiments (.constr file)' optional='true'/>
         <param type='data' format='tabular,txt' argument='--opt' label='File containing options for influx_si (.opt  file)' optional='true'/>
+        <param type='data' format='tabular,txt' argument='--mapping' label='Mapping of names and corresponding new names for input files' optional='true'/>
         <param name='verbose' type='boolean' truevalue='--verbose' falsevalue='' label='Debug mode' help='Select "Yes" to have debug logs be printed out'/>
     </inputs>
     <outputs>
         <data format='txt' name='stdout' label='Run log'/>
         <collection type='list' label='Influx_si input files' name='list_output'>
-            <discover_datasets pattern='__name_and_ext__' format='zip'/>
+            <discover_datasets pattern='(?P&lt;name&gt;.+\.[^.]+)$' format='zip'/>
         </collection>
         <data format='txt' name='stderr' label='Influx DM error log'/>
     </outputs>
@@ -85,4 +87,4 @@
         }
         </citation>
         </citations>
-</tool>
+</tool>
\ No newline at end of file
diff --git a/tools/physiofit/physiofit.xml b/tools/physiofit/physiofit.xml
index ece88474b..eefb68e7d 100644
--- a/tools/physiofit/physiofit.xml
+++ b/tools/physiofit/physiofit.xml
@@ -1,4 +1,4 @@
-<tool id='physiofit' name='PhysioFit: extracellular flux calculation' version='@TOOL_VERSION@+galaxy0' python_template_version='3.5' profile='21.05'>
+<tool id='physiofit' name='PhysioFit: extracellular flux calculation' version='@TOOL_VERSION@+galaxy1' python_template_version='3.5' profile='21.05'>
     <description>PhysioFit is a scientific tool designed to quantify cell growth parameters and uptake and production fluxes</description>
     <macros>
         <token name='@TOOL_VERSION@'>3.4.0</token>
@@ -15,12 +15,14 @@
     --data $datafile 
     -or '$recap' 
     -oz $zip 
+    $verbose
     2> $log 
     ]]>
     </command>
     <inputs>
         <param name='datafile' type='data' format='tabular, txt' multiple='true' label='Upload data file containing biomass and concentration values'/>
         <param name='configfile' type='data' format='yaml' multiple='true' label='Upload yaml configuration file containing run parameters'/>
+        <param name='verbose' type='boolean' truevalue='--debug_mode' falsevalue='' label='Debug mode' help='Select "Yes" to have debug logs be printed out'/>
     </inputs>
     <outputs>
         <data name='recap' label='Summary file' format='csv'/>
@@ -99,4 +101,4 @@
         }
         </citation>
     </citations>
-</tool>
+</tool>
\ No newline at end of file