Mercurial > repos > iuc > decontaminator
annotate tool-data/decontaminator.loc.sample @ 0:b856d3d95413 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
author | iuc |
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date | Mon, 09 Jan 2023 13:27:09 +0000 |
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b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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1 #This is a sample file distributed with Galaxy that enables tools |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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2 #to use a directory of decontaminator hdf5 model files. You will need |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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3 #to create these data files and then create a decontaminator.loc file |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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4 #similar to this one (store it in this directory) that points to |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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5 #the directories in which those files are stored. The decontaminator.loc |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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6 #file has this format (white space characters are TAB characters): |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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7 # |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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8 # <value> <name> <path> |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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9 # |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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10 #So, for example, if you had fungi hdf5 model files stored in |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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11 # |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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12 # /tool-data/weights/fungi/, |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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13 # |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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14 #then the decontaminator.loc entry would look like this: |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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15 # |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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16 #fungi fungi ${__HERE__}/weights/fungi |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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17 # |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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18 #and your /tool-data/weights/fungi/ directory |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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19 #would contain model_500.h5 and model_1000.h5 files. |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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20 # |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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21 #Your decontaminator.loc file should include an entry per line for |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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22 #each index set you have stored. The file in the path does actually |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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23 #exist, but it should never be directly used. Instead, the name serves |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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24 #as a prefix for the index file. For example: |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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25 # |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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26 #fungi fungi ${__HERE__}/weights/fungi |
b856d3d95413
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/decontaminator commit 3f8e87001f3dfe7d005d0765aeaa930225c93b72
iuc
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27 #phage phage ${__HERE__}/weights/phage |