Mercurial > repos > sigven > metascreen_pre_experimental
comparison metascreen.xml @ 5:e9fcb14b0065 draft
Uploaded
| author | sigven |
|---|---|
| date | Mon, 14 Nov 2022 09:20:29 +0000 |
| parents | 22251a4b8f8f |
| children |
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| 4:22251a4b8f8f | 5:e9fcb14b0065 |
|---|---|
| 1 <tool id="metascreenPre" name="mscreen: pre-experimental" version="0.2.2"> | 1 <tool id="metascreenPre" name="metascreen: pre-experimental" version="0.2.4"> |
| 2 <description>Pre-experimental setup of drug combination screens</description> | 2 <description>Pre-experimental setup of drug combination screens</description> |
| 3 <requirements> | 3 <requirements> |
| 4 <container type="docker">sigven/metascreen:0.2.0</container> | 4 <container type="docker">sigven/metascreen:0.2.0</container> |
| 5 </requirements> | 5 </requirements> |
| 6 <command detect_errors="aggressive"><![CDATA[ | 6 <command detect_errors="aggressive"><![CDATA[ |
| 77 sourcePlate = dplyr::bind_rows( | 77 sourcePlate = dplyr::bind_rows( |
| 78 sourcePlate, | 78 sourcePlate, |
| 79 metascreen::importPlateMap( | 79 metascreen::importPlateMap( |
| 80 "$pmap.element_identifier", | 80 "$pmap.element_identifier", |
| 81 .fileFormat = "PlateMap", | 81 .fileFormat = "PlateMap", |
| 82 .sourcePlateConv = $input_data.convert_platemap_format | 82 .sourcePlateConv = TRUE |
| 83 ) | 83 ) |
| 84 ); | 84 ); |
| 85 #end for | 85 #end for |
| 86 | 86 |
| 87 combine_doses = c(1:min(unique(table(listofDoses[,"Drug"])))); | 87 combine_doses = c(1:min(unique(table(listofDoses[,"Drug"])))); |
| 150 <param name="list_of_drugs" type="data" format="txt" label="List of drugs (CSV)" multiple="false"/> | 150 <param name="list_of_drugs" type="data" format="txt" label="List of drugs (CSV)" multiple="false"/> |
| 151 <param name="list_of_volumes" type="data" format="txt" label="List of volumes (CSV)" multiple="false"/> | 151 <param name="list_of_volumes" type="data" format="txt" label="List of volumes (CSV)" multiple="false"/> |
| 152 <param name="list_of_ctrls" type="data" format="txt" label="List of controls (CSV)" multiple="false"/> | 152 <param name="list_of_ctrls" type="data" format="txt" label="List of controls (CSV)" multiple="false"/> |
| 153 <param name="list_of_stock_cons" type="data" format="txt" label="List of stock concentrations (CSV)" multiple="false"/> | 153 <param name="list_of_stock_cons" type="data" format="txt" label="List of stock concentrations (CSV)" multiple="false"/> |
| 154 <param name="platemaps" type="data" format="xml" label="PlateMap file (XML)" multiple="true"/> | 154 <param name="platemaps" type="data" format="xml" label="PlateMap file (XML)" multiple="true"/> |
| 155 <param name="convert_platemap_format" type="boolean" label="Convert platemap to a source plate format" truevalue="T" falsevalue="F" checked="false"/> | 155 <!--param name="convert_platemap_format" type="boolean" label="Convert platemap to a source plate format" truevalue="T" falsevalue="F" checked="false"/--> |
| 156 <param name="plateformat" type="select" label="Plate format" display="radio" multiple="false"> | 156 <param name="plateformat" type="select" label="Plate format" display="radio" multiple="false"> |
| 157 <option value="6">6</option> | 157 <option value="6">6</option> |
| 158 <option value="12">12</option> | 158 <option value="12">12</option> |
| 159 <option value="24">24</option> | 159 <option value="24">24</option> |
| 160 <option value="48">48</option> | 160 <option value="48">48</option> |