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Add GEDA for iCn3D

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Daniel Blankenberg
2019-07-17 09:54:43 -04:00
parent 600f8db5a5
commit dfb5a988e4
4 changed files with 18 additions and 1 deletions
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display_applications/icn3d/icn3d_simple.xml
+7
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@@ -0,0 +1,7 @@
<?xml version="1.0"?>
<display id="icn3d_simple" version="1.0.0" name="view iniCn3D at">
<dynamic_links from_data_table="icn3d_simple_display" skip_startswith="#" id="value" name="name">
<url>${ url % { 'icn3d_file_type': $icn3d_file.ext, 'icn3d_file_url_qp': $icn3d_file.qp } }</url>
<param type="data" name="icn3d_file" url="galaxy_${DATASET_HASH}.${dataset.ext}" />
</dynamic_links>
</display>
lib/galaxy/config/sample/datatypes_conf.xml.sample
+3 -1
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@@ -624,7 +624,9 @@
<datatype extension="obfs" type="galaxy.datatypes.molecules:OBFS" mimetype="text/html" display_in_upload="true"/>
<datatype extension="drf" type="galaxy.datatypes.molecules:DRF" display_in_upload="true"/>
<datatype extension="phar" type="galaxy.datatypes.molecules:PHAR" display_in_upload="false"/>
<datatype extension="pdb" type="galaxy.datatypes.molecules:PDB" display_in_upload="true"/>
<datatype extension="pdb" type="galaxy.datatypes.molecules:PDB" display_in_upload="true">
<display file="icn3d/icn3d_simple.xml"/>
</datatype>
<datatype extension="pdbqt" type="galaxy.datatypes.molecules:PDBQT" display_in_upload="true"/>
<datatype extension="pqr" type="galaxy.datatypes.molecules:PQR" display_in_upload="true" />
<datatype extension="trr" type="galaxy.datatypes.binary:Trr" display_in_upload="true"/>
lib/galaxy/config/sample/tool_data_table_conf.xml.sample
+5
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@@ -105,4 +105,9 @@
<columns>value, name, url</columns>
<file path="tool-data/intermine_simple_display.loc" />
</table>
<!-- simple iCn3D Structure Viewer servers -->
<table name="icn3d_simple_display" comment_char="#" allow_duplicate_entries="False">
<columns>value, name, url</columns>
<file path="tool-data/icn3d_simple_display.loc" />
</table>
</tables>
tool-data/icn3d_simple_display.loc.sample
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# Table used for listing simple iCn3D Structure Viewer servers
#<unique_id> <display_name> <url>
ncbi_icn3d NCBI https://www.ncbi.nlm.nih.gov/Structure/icn3d/full.html?type=%(icn3d_file_type)s&url=%(icn3d_file_url_qp)s