Mercurial > repos > devteam > cuffdiff
annotate cuff_macros.xml @ 7:456797205473 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 0e1d7660ab8ccb677b4f79207f5bc78097640f04"
author | iuc |
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date | Sat, 27 Nov 2021 09:56:54 +0000 |
parents | 986b6cbd0f59 |
children | a10919766c11 |
rev | line source |
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0 | 1 <macros> |
6
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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2 <token name="@VERSION@">2.2.1</token> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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3 |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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4 <xml name="requirements"> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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5 <requirements> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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6 <requirement type="package" version="2.2.1">cufflinks</requirement> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
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changeset
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7 <yield /> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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8 </requirements> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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9 </xml> |
3
9ec1cc10742c
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/cufflinks/cuffdiff commit eb18f691975ef9539b5ebd4f118343c8ad967a1f
devteam
parents:
1
diff
changeset
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10 |
6
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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11 <xml name="conditions_repeat" token_format=""> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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12 <repeat name="conditions" title="Condition" min="2"> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
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changeset
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13 <param name="name" label="Condition name" type="text"> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
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changeset
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14 <validator type="empty_field" message="You must provide a condition name" /> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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15 <validator type="expression" message="Commas are not allowed in condition names">value and "," not in value</validator> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
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changeset
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16 </param> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
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changeset
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17 <param name="samples" label="Replicates" type="data" format="@FORMAT@" multiple="true"/> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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18 </repeat> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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19 </xml> |
3
9ec1cc10742c
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/cufflinks/cuffdiff commit eb18f691975ef9539b5ebd4f118343c8ad967a1f
devteam
parents:
1
diff
changeset
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20 |
6
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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21 <xml name="condition_inputs"> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
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changeset
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22 <!-- DEFAULT : use BAM/SAM files --> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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23 <conditional name="in_type"> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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24 <param name="set_in_type" type="select" label="Input data type" |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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25 help="CuffNorm supports either CXB (from cuffquant) or SAM/BAM input files. Mixing is not supported. Default: SAM/BAM"> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
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changeset
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26 <option value="BAM">SAM/BAM</option> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
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changeset
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27 <option value="CXB">Cuffquant (CXB)</option> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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28 <option value="CONDITION_LIST">List of single replicate conditions</option> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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29 <option value="CONDITION_REPLICATE_LIST">List of multiple replicate conditions</option> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
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changeset
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30 </param> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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31 <when value="BAM"> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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32 <expand macro="conditions_repeat" format="sam,bam" /> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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33 </when> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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34 <when value="CXB"> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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35 <expand macro="conditions_repeat" format="cxb" /> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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36 </when> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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37 <when value="CONDITION_LIST"> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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38 <param name="conditions" label="List of Conditions" type="data_collection" collection_type="list" /> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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39 </when> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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40 <when value="CONDITION_REPLICATE_LIST"> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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41 <param name="conditions" label="List of Conditions" type="data_collection" collection_type="list:list" /> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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42 </when> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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43 </conditional> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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44 </xml> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
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changeset
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45 <token name="@CONDITION_SAMPLES@"><![CDATA[ |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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46 #if $in_type.set_in_type in ['BAM', 'CXB'] |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
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changeset
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47 #for $condition in $in_type.conditions: |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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48 #set samples = ','.join([str($sample) for $sample in $condition.samples]) |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
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changeset
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49 '$samples' |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
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changeset
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50 #end for |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
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changeset
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51 #elif $in_type.set_in_type == 'CONDITION_LIST' |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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52 #for $sample in $in_type.conditions: |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
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changeset
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53 '$sample' |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
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changeset
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54 #end for |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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55 #elif $in_type.set_in_type == 'CONDITION_REPLICATE_LIST' |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
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changeset
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56 #for $condition_list in $in_type.conditions: |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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57 #set samples = ','.join([str($sample) for $sample in $condition_list]) |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
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changeset
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58 '$samples' |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
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changeset
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59 #end for |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
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changeset
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60 #end if |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
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61 ]]></token> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
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changeset
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62 <token name="@CONDITION_LABELS@"><![CDATA[ |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
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63 #import re |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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64 #if $in_type.set_in_type in ['BAM', 'CXB'] |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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65 #set labels = "','".join([str($condition.name) for $condition in $in_type.conditions]) |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
diff
changeset
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66 #elif $in_type.set_in_type in ['CONDITION_LIST', 'CONDITION_REPLICATE_LIST'] |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
5
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67 #set labels = "','".join([str($condition).replace(',', '_') for $condition in $in_type.conditions.keys()]) |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
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68 #end if |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
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changeset
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69 --labels '$labels' |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
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changeset
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70 ]]></token> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
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changeset
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71 <xml name="cufflinks_gtf_inputs"> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
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changeset
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72 <param format="gtf" name="inputs" type="data" label="GTF file(s) produced by Cufflinks" help="" multiple="true" /> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
parents:
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73 </xml> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
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74 <token name="@CUFFLINKS_LINK_GTF_INPUTS@"><![CDATA[ |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
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75 ## Inputs. |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
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76 #for $i, $input_file in enumerate($inputs): |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
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77 ln -s '${input_file}' input_$i && |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
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78 #end for |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
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79 ]]></token> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
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80 <token name="@CUFFLINKS_GTF_INPUTS@"><![CDATA[ |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
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81 ## Inputs. |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
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82 #for $i, $input_file in enumerate($inputs): |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
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83 'input_$i' |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
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84 #end for |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
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85 ]]></token> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
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86 <token name="@HAS_MULTIPLE_INPUTS@">getattr(inputs, "__len__", [].__len__)() >= 2</token> |
5
3d8071386667
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit a0b0845a9d1b3e7ecdeacd1e606133617e3918bd"
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87 |
6
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
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88 <xml name="citations"> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
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89 <citations> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
iuc
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90 <citation type="doi">10.1038/nbt.1621</citation> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
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91 <yield/> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
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92 </citations> |
986b6cbd0f59
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit 6b66cbbde16c35593fe95066ea2b91623bf35140"
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93 </xml> |
5
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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/cufflinks/cuffdiff commit a0b0845a9d1b3e7ecdeacd1e606133617e3918bd"
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94 |
1
9ba750f285e3
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/cufflinks/cuffdiff commit 33927a87ba2eee9bf0ecdd376a66241b17b3d734
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95 </macros> |