Mercurial > repos > iuc > package_python_2_7_deeptools_1_5_10

annotate tool_dependencies.xml @ 21:868baa52a164 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_deeptools_1_5_10 commit 48fbe322d0f3ec023186989104ae4f4188b03a1d
author iuc
date Mon, 01 Jun 2015 22:47:42 -0400
parents 5eeb01defac2
children ecdd79c4835b
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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <package name="samtools" version="0.1.19">
41de4f005517 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_deeptools_1_5_10 commit 543b8d28d5f84f5b8ac31b3aa05f68a7b4094d66
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4 <repository changeset_revision="786e3000ca58" name="package_samtools_0_1_19" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
41de4f005517 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_deeptools_1_5_10 commit 543b8d28d5f84f5b8ac31b3aa05f68a7b4094d66
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5 </package>
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6 <package name="numpy" version="1.9">
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7 <repository changeset_revision="ccb720c9e1ec" name="package_python_2_7_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
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8 </package>
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9 <package name="matplotlib" version="1.4">
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10 <repository changeset_revision="47f5c8a0954f" name="package_python_2_7_matplotlib_1_4" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
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41de4f005517 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_deeptools_1_5_10 commit 543b8d28d5f84f5b8ac31b3aa05f68a7b4094d66
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11 </package>
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12 <package name="scipy" version="0.14">
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13 <repository changeset_revision="859942a3af31" name="package_python_2_7_scipy_0_14" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
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14 </package>
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15 <package name="pysam" version="0.8.3">
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16 <repository changeset_revision="687ef6979f85" name="package_python_2_7_pysam_0_8_3" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
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17 </package>
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18 <package name="bx-python" version="0.7.2">
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19 <repository changeset_revision="750a27f9f3e3" name="package_python_2_7_bx_python_0_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
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20 </package>
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21 <package name="ucsc_tools" version="0.1">
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22 <repository changeset_revision="7b7e399cb7e1" name="package_ucsc_tools_0_1" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
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23 </package>
41de4f005517 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_deeptools_1_5_10 commit 543b8d28d5f84f5b8ac31b3aa05f68a7b4094d66
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24 <package name="python" version="2.7">
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25 <repository changeset_revision="22e17a8b5b82" name="package_python_2_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
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26 </package>
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27 <package name="deepTools" version="1.5.10">
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28 <install version="1.0">
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29 <actions>
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30 <action type="setup_python_environment">
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31 <repository changeset_revision="22e17a8b5b82" name="package_python_2_7" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
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32 <package name="python" version="2.7" />
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33 </repository>
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34 <repository changeset_revision="687ef6979f85" name="package_python_2_7_pysam_0_8_3" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
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35 <package name="pysam" version="0.8.3" />
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36 </repository>
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37 <repository changeset_revision="750a27f9f3e3" name="package_python_2_7_bx_python_0_7" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
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38 <package name="bx-python" version="0.7.2" />
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39 </repository>
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40 <repository changeset_revision="ccb720c9e1ec" name="package_python_2_7_numpy_1_9" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
12
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41 <package name="numpy" version="1.9" />
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42 </repository>
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43 <repository changeset_revision="47f5c8a0954f" name="package_python_2_7_matplotlib_1_4" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
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44 <package name="matplotlib" version="1.4" />
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45 </repository>
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46 <repository changeset_revision="859942a3af31" name="package_python_2_7_scipy_0_14" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
12
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47 <package name="scipy" version="0.14" />
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48 </repository>
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49 <repository changeset_revision="786e3000ca58" name="package_samtools_0_1_19" owner="devteam" toolshed="https://testtoolshed.g2.bx.psu.edu">
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50 <package name="samtools" version="0.1.19" />
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51 </repository>
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52 <repository changeset_revision="7b7e399cb7e1" name="package_ucsc_tools_0_1" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
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53 <package name="ucsc_tools" version="0.1" />
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54 </repository>
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55 <package>https://github.com/fidelram/deepTools/archive/1.5.10.tar.gz</package>
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56 </action>
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58 <action type="set_environment">
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59 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
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60 <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR</environment_variable>
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61 <environment_variable action="set_to" name="DEEPTOOLS_ROOT_PATH">$INSTALL_DIR</environment_variable>
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62 <environment_variable action="set_to" name="DEEPTOOLS_PYTHONPATH">$INSTALL_DIR</environment_variable>
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63 <environment_variable action="set_to" name="DEEPTOOLS_PATH">$INSTALL_DIR/bin</environment_variable>
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64 <!-- include samtools into PATH -->
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65 <environment_variable action="prepend_to" name="PATH">$ENV[BAM_ROOT]/bin</environment_variable>
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66 <!-- include numpy -->
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67 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
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68 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
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69 <!-- include matplotlib -->
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70 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_MATPLOTLIB]</environment_variable>
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71 <!-- include scipy -->
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72 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_SCIPY]</environment_variable>
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73 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_SCIPY]</environment_variable>
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74 <!-- include bx-python -->
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75 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_BX_PYTHON]</environment_variable>
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76 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_BX_PYTHON]</environment_variable>
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77 <!-- include pysam -->
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78 <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_PYSAM]</environment_variable>
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79 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_PYSAM]</environment_variable>
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80 <!-- include ucsc tools -->
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81 <environment_variable action="prepend_to" name="PATH">$ENV[UCSC_TOOLS_ROOT_PATH]</environment_variable>
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82 <!-- disable the config file of deepTools -->
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83 <environment_variable action="set_to" name="DEEP_TOOLS_NO_CONFIG">TRUE</environment_variable>
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84 </action>
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85 </actions>
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86 </install>
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87 <readme>
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88 Installation of deepTools from Fidel Ramirez.
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89 https://github.com/fidelram/deepTools
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90 </readme>
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91 </package>
0
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92 </tool_dependency>