# HG changeset patch
# User jcb-mpl
# Date 1619452266 0
# Node ID 7d9779274f8837b8477f304abb725b7aeba0554a
# Parent  68f763d9dd0a3311e3ada75b0b836a65be616512
Deleted selected files

diff -r 68f763d9dd0a -r 7d9779274f88 2018_07_mz_hdf5_to_dat.xml
--- a/2018_07_mz_hdf5_to_dat.xml	Mon Apr 26 15:00:07 2021 +0000
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,114 +0,0 @@
-<tool id="2021_05_hdf5_to_dat" name="MS .h5 -> MS .dat " version="0.0.1">
-
-<description> from an Orbitrap MS  </description>
- 
-
-<requirements>
-    <requirement type="package" >scilab</requirement>
-  </requirements>
-
-
-<stdio>
-    <exit_code range="1:" level="fatal" />
-</stdio>
-
-
-<command> <![CDATA[
-   if [ -d $__root_dir__/packages/scilab-6.1.0 ]; then $__root_dir__/packages/scilab-6.1.0/bin/scilab-cli -nb -quit -f $* < ${script_file}; else scilab-cli -nb -quit -f $* < ${script_file}; fi
-]]>
-</command>
-
-
-  <configfiles>
-    <configfile name="script_file">
-        <![CDATA[ exec("$__tool_directory__/src/mz_hdf5tosci.sci",-1); ...
-        if ~isdef('pls') then ...
-           atomsSystemUpdate(); ...
-           atomsInstall('FACT'); ...
-           atomsLoad('FACT'); ...
-        end; ...
-        lasterror(); ...
-        res=mz_hdf5tosci("${filein}"); ...
-        save("${res}",'res'); ...
-        if ~isempty(lasterror(%f)) then ...
-        write(0,lasterror()); ...
-        end ]]>
-    </configfile>
-  </configfiles>
-
-
-  <inputs>
-     <param name="filein"       format="h5"                type="data"      label="Mass spectrum, .h5 format"    />
-  </inputs>
-  
-
-  <outputs>
-      
-      <data name="res"      format="mat"             label="${filein.name}.dat"  />
-    
-  </outputs>
- 
- 
-  <tests>
-    <test>
-       <param name="filein" value="VI2016_AC_4Areduit_1.h5"/>
-       <output name="res"   file="VI2016_AC_4Areduit_1.dat" compare="sim_size" delta="500" />
-    </test>
-  </tests>
-
- <help>
-
-
-**Author**  Jean-Claude Boulet (INRAE).
-
-
----------------------------------------------------
-
-=================
-MS .h5 -> MS .dat
-=================
-
------------
-Description
------------
-
-This function converts an Orbitrap HDF5 mass spectrum into a Scilab mass spectrum
-
------
-Input
------
-
-**an .h5 hrms**
-
-Previously, Orbitrap devices yielded .raw files.
-
-MSconvert selected MS1 and performed the conversion .raw -> .md5 
-
-Then HDF5View performed the conversion .md5 -> .h5 
-which is the format of the input file.
-
-
--------
-Outputs
--------
-
-**a .dat mass spectrum**
-
-This is an HDF5 file whose structure is specific to Scilab.
-
-It contains two fields:
-
-- time: the retention times, a vector;
-
-- mzdata: a list containing a MS1 spectrum (m/z + signals) for each retention time.
-
-
-</help>
-
-<citations> 
-
-</citations>
-
-
-
-</tool>