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annotate build.xml @ 0:d0bcc990abcf draft default tip

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planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
author ethevenot
date Tue, 24 Oct 2017 09:03:31 -0400
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d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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1 <project name="w4m.biosigner" default="all">
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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3 <property name="tool.xml" value="biosigner_config.xml"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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4 <property name="conda.dir" value="${user.home}/w4m-conda"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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6 <!--~~~
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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7 ~ ALL ~
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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8 ~~~~~-->
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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10 <target name="all"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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12 <!--~~~~
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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13 ~ TEST ~
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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14 ~~~~~-->
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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16 <target name="test" depends="plain.test,galaxy.test"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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17 <target name="galaxy.test" depends="planemo.lint,planemo.test"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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19 <!--~~~~~~~~~~
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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20 ~ PLAIN TEST ~
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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21 ~~~~~~~~~~~-->
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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23 <target name="plain.test">
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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24 <exec executable="test/test-biosigner" failonerror="true"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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25 </target>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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27 <!--~~~~~~~~~~~~
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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28 ~ PLANEMO LINT ~
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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29 ~~~~~~~~~~~~~-->
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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31 <target name="planemo.lint">
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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32 <exec executable="planemo" failonerror="true">
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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33 <arg value="lint"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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34 <arg value="${tool.xml}"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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35 </exec>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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36 </target>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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38 <!--~~~~~~~~~~~~
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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39 ~ PLANEMO TEST ~
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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40 ~~~~~~~~~~~~~-->
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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42 <target name="planemo.test" depends="planemo.conda.install">
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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43 <exec executable="planemo" failonerror="true">
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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44 <arg value="test"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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45 <arg value="--conda_prefix"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
parents:
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46 <arg value="${conda.dir}"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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47 <arg value="--galaxy_branch"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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48 <arg value="release_16.01"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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49 <arg value="--conda_dependency_resolution"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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50 <arg value="${tool.xml}"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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51 </exec>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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52 </target>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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54 <!--~~~~~~~~~~~~~~~~~~~~~
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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55 ~ PLANEMO CONDA INSTALL ~
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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56 ~~~~~~~~~~~~~~~~~~~~~~-->
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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58 <target name="planemo.conda.install" depends="planemo.conda.init">
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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59 <exec executable="planemo" failonerror="true">
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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60 <arg value="conda_install"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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61 <arg value="--conda_prefix"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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62 <arg value="${conda.dir}"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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63 <arg value="${tool.xml}"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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64 </exec>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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65 </target>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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66
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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67 <!--~~~~~~~~~~~~~~~~~~
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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68 ~ PLANEMO CONDA INIT ~
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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69 ~~~~~~~~~~~~~~~~~~~-->
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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71 <available file="${conda.dir}" property="conda.is.installed"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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72 <target name="planemo.conda.init" unless="conda.is.installed">
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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73 <exec executable="planemo" failonerror="true">
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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74 <arg value="conda_init"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
parents:
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75 <arg value="--conda_prefix"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
parents:
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76 <arg value="${conda.dir}"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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77 </exec>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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78 </target>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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79
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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80 <!--~~~~~
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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81 ~ CLEAN ~
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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82 ~~~~~~-->
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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83
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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84 <target name="clean">
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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85 <delete dir="${conda.dir}"/>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
ethevenot
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86 </target>
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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87
d0bcc990abcf planemo upload for repository https://github.com/workflow4metabolomics/biosigner.git commit 23d58cfd97411ad5d272971896914ce99e30b0ab
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88 </project>