Mercurial > repos > ebi-gxa > scpred_get_std_output
annotate scpred_get_std_output.xml @ 4:d276a8dd73c7 draft
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit f1471c41f9845cce8b58a51089dcf096c39fe8d6"
| author | ebi-gxa |
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| date | Mon, 01 Jun 2020 09:21:19 -0400 |
| parents | 43ce84bd1d9a |
| children | c88135c1efb1 |
| rev | line source |
|---|---|
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d276a8dd73c7
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit f1471c41f9845cce8b58a51089dcf096c39fe8d6"
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1 <tool id="scpred_get_std_output" name="Scpred - get output in standard format" version="@TOOL_VERSION@+galaxy2" profile="@PROFILE@"> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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2 <description>This method allows to export predicted labels in a standardised format, simplifying downstream analyses.</description> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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3 <macros> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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4 <import>scpred_macros.xml</import> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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5 </macros> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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6 <expand macro="requirements" /> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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7 <command detect_errors="exit_code"><![CDATA[ |
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a7bf1d2b310b
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 241c850301f8094f6aa0016e2335a8b550c29aed"
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8 scpred_get_std_output.R --predictions-file "${predictions_file}" --get-scores "${get_scores}" --classifier '${classifier}' --output-table "${output_table}" |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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9 ]]></command> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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10 <inputs> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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11 <param type="data" name="predictions_file" label="Predictions file" format="txt" help="Path to the predictions file in text format" /> |
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a7bf1d2b310b
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 241c850301f8094f6aa0016e2335a8b550c29aed"
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12 <param type="data" name="classifier" label="Classifier object" format="rdata" help="Path to the classifier object used to obtain predictions" /> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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13 <param type="boolean" checked="false" name="get_scores" label="Get scores" help="Boolean: should the prediction scores be included? default: FALSE" /> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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14 </inputs> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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15 <outputs> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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16 <data name="output_table" format="txt" /> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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17 </outputs> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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18 <tests> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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19 <test> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
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20 <param name="predictions_file" value="predictions_table.txt" /> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
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21 <param name="get_scores" value="TRUE" /> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
parents:
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22 <output name="output_table" file="scpred_output_tbl.txt" compare="sim_size"/> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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23 </test> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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24 </tests> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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25 <help><![CDATA[ |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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26 @HELP@ |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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27 |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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28 @VERSION_HISTORY@ |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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29 ]]></help> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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30 <expand macro="citations" /> |
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156b1e9cc269
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
ebi-gxa
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31 </tool> |