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comparison iqtree.xml @ 18:09961138fcaf draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/iqtree/ commit ed98c907217fd95aa455f4f74de74e9b3893c1d3
author iuc
date Mon, 05 May 2025 16:50:48 +0000
parents 4e7fd03b0a13
children
comparison
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17:4e7fd03b0a13 18:09961138fcaf
713 <filter>time_tree['date_source']['select_source'] != 'none'</filter> 713 <filter>time_tree['date_source']['select_source'] != 'none'</filter>
714 </data> 714 </data>
715 <data name="lsd_report" format="txt" from_work_dir="PREF.timetree.lsd" label="${tool.name} on ${on_string}: LSD Report"> 715 <data name="lsd_report" format="txt" from_work_dir="PREF.timetree.lsd" label="${tool.name} on ${on_string}: LSD Report">
716 <filter>time_tree['date_source']['select_source'] != 'none'</filter> 716 <filter>time_tree['date_source']['select_source'] != 'none'</filter>
717 </data> 717 </data>
718 <data name="ufboot_out" format="nhx" from_work_dir="*.ufboot" label="${tool.name} on ${on_string}: UFBoot Bootstrap trees">
719 <filter>bootstrap_parameters['ultrafast_bootstrap']['boot_trees'] </filter>
720 </data>
721
718 </outputs> 722 </outputs>
719 <tests> 723 <tests>
720 <test expect_num_outputs="5"> 724 <test expect_num_outputs="6">
721 <param name="seed" value="1257" /> 725 <param name="seed" value="1257" />
722 <param name="seqtype" value="DNA" /> 726 <param name="seqtype" value="DNA" />
723 <param name="s" value="example.phy" /> 727 <param name="s" value="example.phy" />
724 <param name="m" value="TEST" /> 728 <param name="m" value="TEST" />
725 <param name="msub" value="nuclear" /> 729 <param name="msub" value="nuclear" />
726 <param name="madd" value="LG4M,LG4X" /> 730 <param name="madd" value="LG4M,LG4X" />
727 <param name="merit" value="AICc" /> 731 <param name="merit" value="AICc" />
728 <param name="ufboot" value="1000" /> 732 <param name="ufboot" value="1000" />
733 <param name="boot_trees" value="--boot-trees"/>
729 <output name="bionj"> 734 <output name="bionj">
730 <assert_contents> 735 <assert_contents>
731 <has_text_matching expression=".*Whale.*" /> 736 <has_text_matching expression=".*Whale.*" />
732 <has_text_matching expression=".*Human.*" /> 737 <has_text_matching expression=".*Human.*" />
733 </assert_contents> 738 </assert_contents>
757 </output> 762 </output>
758 <output name="splits"> 763 <output name="splits">
759 <assert_contents> 764 <assert_contents>
760 <has_line line="BEGIN Splits;" /> 765 <has_line line="BEGIN Splits;" />
761 <has_line line="END; [Splits]" /> 766 <has_line line="END; [Splits]" />
767 </assert_contents>
768 </output>
769 <output name="ufboot_out" >
770 <assert_contents>
771 <has_text text="(LngfishAu" />
772 <has_text text="(Platypus,Opossum)" />
762 </assert_contents> 773 </assert_contents>
763 </output> 774 </output>
764 </test> 775 </test>
765 <test expect_num_outputs="5"> 776 <test expect_num_outputs="5">
766 <!-- bootstrap sans model --> 777 <!-- bootstrap sans model -->