Mercurial > repos > iuc > package_segemehl_0_2_0
annotate tool_dependencies.xml @ 0:11cce9ae6cc6 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
author | iuc |
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date | Tue, 19 May 2015 15:02:44 -0400 |
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11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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1 <?xml version="1.0"?> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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2 <tool_dependency> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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3 <package name="segemehl" version="0.2.0"> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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4 <install version="1.0"> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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5 <actions> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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6 <action type="download_by_url" target_filename="segemehl_0_2_0.tar.gz">http://www.bioinf.uni-leipzig.de/Software/segemehl/segemehl_0_2_0.tar.gz</action> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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7 <action type="change_directory">segemehl</action> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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8 <action type="shell_command">make</action> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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9 <action type="move_file"> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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10 <source>segemehl.x</source> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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11 <destination>$INSTALL_DIR</destination> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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12 </action> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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13 <action type="set_environment"> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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14 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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15 </action> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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16 </actions> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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17 </install> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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18 <readme> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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19 Short read mapping with gaps. |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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20 To compile segemehl a C-compiler is needed, usually GCC. |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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21 http://www.bioinf.uni-leipzig.de/Software/segemehl/ |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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22 |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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23 Please note that segemehl loads the whole index and genome files into memory. |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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24 Segemehl's index is around 45GB in size, so the memory usage of that tool is huge. |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
parents:
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changeset
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25 </readme> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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26 </package> |
11cce9ae6cc6
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_segemehl_0_2_0 commit 0c094c3df9574cb057ccb65878f98f300d5b0a09
iuc
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27 </tool_dependency> |