comparison msconvert.xml @ 11:052798dd73dd draft default tip

"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/msconvert commit 7aa618964e95528ed59eea299701e65ccacae877"

10:06747cba5685

<tool id="msconvert" name="msconvert" version="@VERSION@.1">
  <description>Convert and/or filter mass spectrometry files</description>
  <macros>
      <import>msconvert_macros.xml</import>
  </macros>
  <requirements>
      <container type="docker">chambm/pwiz-skyline-i-agree-to-the-vendor-licenses:@FULL_VERSION@</container>
  </requirements>
  <expand macro="msconvertCommand" />
  <inputs>
      <param format="mzml,mzxml,mz5,mgf,ms2,thermo.raw,raw,wiff,wiff.tar,agilentbrukeryep.d.tar,agilentmasshunter.d.tar,brukerbaf.d.tar,brukertdf.d.tar,watersmasslynx.raw.tar" name="input" type="data" label="Input unrefined MS data" />
      <expand macro="msconvertInputParameters" />
  </inputs>

11:052798dd73dd

<tool id="msconvert" name="msconvert" version="@VERSION@.2">
  <description>Convert and/or filter mass spectrometry files</description>
  <macros>
      <import>msconvert_macros.xml</import>
  </macros>
  <requirements>
      <container type="docker">chambm/pwiz-skyline-i-agree-to-the-vendor-licenses:@FULL_VERSION@</container>
  </requirements>
  <stdio>
    <regex match="Error writing run" source="stderr" level="fatal" description="Could not convert. Check stderr." />
  </stdio>
  <expand macro="msconvertCommand" />
  <inputs>
      <param format="mzml,mzxml,mz5,mgf,ms2,thermo.raw,raw,wiff,wiff.tar,agilentbrukeryep.d.tar,agilentmasshunter.d.tar,brukerbaf.d.tar,brukertdf.d.tar,watersmasslynx.raw.tar" name="input" type="data" label="Input unrefined MS data" />
      <expand macro="msconvertInputParameters" />
  </inputs>