Galaxy |

Changeset 11:19e45916daf9 (2021-04-21)

Previous changeset 10:b9b385097f13 (2021-04-10)

Commit message:
"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/ThermoRawFileParser commit 2d431b6ee383f3013d6de3cce64349d51642c33b"

modified:
test-data/really_small.indexed_mzML
test-data/really_small.mzml
test-data/really_small_ext.mzml
thermo_converter.xml

diff -r b9b385097f13 -r 19e45916daf9 test-data/really_small.indexed_mzML
--- a/test-data/really_small.indexed_mzML Sat Apr 10 15:56:48 2021 +0000
+++ b/test-data/really_small.indexed_mzML Wed Apr 21 12:23:27 2021 +0000

b'@@ -26,8 +26,8 @@\n </referenceableParamGroup>\n </referenceableParamGroupList>\n <softwareList count="1">\n- <software id="ThermoRawFileParser" version="1.3.3">\n- <cvParam cvRef="MS" accession="MS:1003145" name="ThermoRawFileParser" />\n+ <software id="ThermoRawFileParser" version="1.3.4">\n+ <cvParam cvRef="MS" accession="MS:1000799" value="ThermoRawFileParser" name="custom unreleased software tool" />\n </software>\n </softwareList>\n <instrumentConfigurationList count="1">\n@@ -2695,78 +2695,78 @@\n </mzML>\n <indexList count="2">\n <index name="spectrum">\n- <offset idRef="controllerType=0 controllerNumber=1 scan=1">3680</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=2">8638</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=3">13470</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=4">18165</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=5">23275</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=6">27236</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=7">31849</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=8">36725</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=9">41067</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=10">45377</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=11">50593</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=12">55747</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=13">60215</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=14">64618</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=15">68778</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=16">73504</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=17">78052</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=18">82854</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=19">87446</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=20">91807</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=21">96591</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=22">100668</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=23">104729</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=24">108885</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=25">113860</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=26">118991</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=27">123304</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=28">127342</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=29">132138</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=30">136192</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=31">140294</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=32">144559</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=33">149090</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=34">153463</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=35">158870</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=37">163704</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=39">168004</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=40">172608</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=41">177642</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=42">182768</offset>\n- <offset idRef="controllerType=0 controllerNumber=1 scan=43">187467</offset>\n- <offset'..b'lerType=0 controllerNumber=1 scan=25">113900</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=26">119031</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=27">123344</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=28">127382</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=29">132178</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=30">136232</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=31">140334</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=32">144599</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=33">149130</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=34">153503</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=35">158910</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=37">163744</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=39">168044</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=40">172648</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=41">177682</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=42">182808</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=43">187507</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=44">191476</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=45">195910</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=46">200712</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=47">206051</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=50">210687</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=51">216098</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=52">221316</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=53">226057</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=54">231607</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=55">237154</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=56">241541</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=57">247261</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=58">252758</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=59">257875</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=60">263574</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=61">272292</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=63">282037</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=64">293063</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=65">304865</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=66">312623</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=67">324941</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=79">338900</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=88">354386</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=99">365596</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=100">371916</offset>\n+ <offset idRef="controllerType=0 controllerNumber=1 scan=101">379247</offset>\n </index>\n <index name="chromatogram">\n- <offset idRef="BasePeak_0">385537</offset>\n+ <offset idRef="BasePeak_0">385577</offset>\n </index>\n </indexList>\n- <indexListOffset>388541</indexListOffset>\n- <fileChecksum>d17fa5e67c8f89705eec985e7029ba040ec4ff8c</fileChecksum>\n+ <indexListOffset>388581</indexListOffset>\n+ <fileChecksum>a22a375f0d68c090984a97ff9f12d0871ab4cb73</fileChecksum>\n </indexedmzML>\n\\ No newline at end of file\n'

diff -r b9b385097f13 -r 19e45916daf9 test-data/really_small.mzml
--- a/test-data/really_small.mzml Sat Apr 10 15:56:48 2021 +0000
+++ b/test-data/really_small.mzml Wed Apr 21 12:23:27 2021 +0000

@@ -25,8 +25,8 @@
     </referenceableParamGroup>
   </referenceableParamGroupList>
   <softwareList count="1">
-    <software id="ThermoRawFileParser" version="1.3.3">
-      <cvParam cvRef="MS" accession="MS:1003145" name="ThermoRawFileParser" />
+    <software id="ThermoRawFileParser" version="1.3.4">
+      <cvParam cvRef="MS" accession="MS:1000799" value="ThermoRawFileParser" name="custom unreleased software tool" />
     </software>
   </softwareList>
   <instrumentConfigurationList count="1">

diff -r b9b385097f13 -r 19e45916daf9 test-data/really_small_ext.mzml
--- a/test-data/really_small_ext.mzml Sat Apr 10 15:56:48 2021 +0000
+++ b/test-data/really_small_ext.mzml Wed Apr 21 12:23:27 2021 +0000

diff -r b9b385097f13 -r 19e45916daf9 thermo_converter.xml
--- a/thermo_converter.xml Sat Apr 10 15:56:48 2021 +0000
+++ b/thermo_converter.xml Wed Apr 21 12:23:27 2021 +0000

@@ -1,7 +1,7 @@
<tool id="thermo_raw_file_converter" name="Thermo" version="@TOOL_VERSION@+galaxy0" profile="20.05">
     <description>RAW file converter</description>
     <macros>
-        <token name="@TOOL_VERSION@">1.3.3</token>
+        <token name="@TOOL_VERSION@">1.3.4</token>
     </macros>
     <requirements>
         <requirement type="package" version="@TOOL_VERSION@">thermorawfileparser</requirement>