Mercurial > repos > morinlab > package_vardictjava_1_4_6

annotate tool_dependencies.xml @ 0:53f0323d032c draft default tip

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planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
author morinlab
date Tue, 11 Oct 2016 14:07:55 -0400
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53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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1 <?xml version="1.0"?>
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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2 <tool_dependency>
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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3 <package name="perl" version="5.18.1">
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
morinlab
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4 <repository changeset_revision="95dad0955d7e" name="package_perl_5_18" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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5 </package>
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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6 <package name="R" version="3.2.1">
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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7 <repository changeset_revision="77d439695328" name="package_r_3_2_1" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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8 </package>
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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9 <package name="vardictjava" version="1.4.6">
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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10 <install version="1.0">
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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11 <actions>
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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12 <action type="shell_command">git clone https://github.com/AstraZeneca-NGS/VarDictJava.git vardictjava</action>
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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13 <action type="shell_command">git checkout tags/v1.4.6; git submodule update --init --recursive</action>
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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14 <action type="shell_command">bash ./gradlew clean installApp</action>
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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15 <action type="shell_command">chmod -R 775 .</action>
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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16 <action type="move_directory_files">
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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17 <source_directory>.</source_directory>
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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18 <destination_directory>$INSTALL_DIR</destination_directory>
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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19 </action>
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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20 </actions>
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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21 </install>
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22 </package>
53f0323d032c planemo upload for repository https://github.com/morinlab/tools-morinlab/tree/master/packages/package_vardictjava_1_4_6 commit 4ef2d91b7c1686a2696b92fe538d4aec51d05e40-dirty
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23 </tool_dependency>