1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/855b03513ca9/ Changeset: 855b03513ca9 User: dan Date: 2014-04-14 22:56:48 Summary: Merged in hillrunner2008/galaxy-central (pull request #367) added support for the visualization of gtf file format in IGB Affected #: 2 files diff -r c2a2ce95501c9e1a3da2550ce963376a49449481 -r 855b03513ca92f33be6d4da54afffadad294a9cc datatypes_conf.xml.sample --- a/datatypes_conf.xml.sample +++ b/datatypes_conf.xml.sample @@ -99,6 +99,7 @@ <datatype extension="gtf" type="galaxy.datatypes.interval:Gtf" display_in_upload="true"><converter file="gff_to_interval_index_converter.xml" target_datatype="interval_index"/><converter file="bed_gff_or_vcf_to_bigwig_converter.xml" target_datatype="bigwig"/> + <display file="igb/gtf.xml" /></datatype><datatype extension="toolshed.gz" type="galaxy.datatypes.binary:Binary" mimetype="multipart/x-gzip" subclass="True" /><datatype extension="h5" type="galaxy.datatypes.binary:Binary" mimetype="application/octet-stream" subclass="True" /> diff -r c2a2ce95501c9e1a3da2550ce963376a49449481 -r 855b03513ca92f33be6d4da54afffadad294a9cc display_applications/igb/gtf.xml --- /dev/null +++ b/display_applications/igb/gtf.xml @@ -0,0 +1,17 @@ +<display id="igb_gtf" version="1.0.0" name="display in IGB"> + + <link id="View" name="View"> + <url>$bioviz</url> + <param type="data" name="gtf_file_for_name" viewable="False"/> + <param type="template" name="niceName" viewable="False" strip="True"> + #import re + #set nm=$gtf_file_for_name.name + ${re.sub('\W',"_",nm)} + </param> + <param type="data" name="gtf_file" url="${niceName}.gtf" strip_https="True" /> + + <param type="template" name="bioviz" strip="True" > + http://bioviz.org/igb/galaxy.html?version=${gtf_file.dbkey}&loadresidues=false&feature_url_0=${gtf_file.url}&sym_name_0=${niceName}&sym_method_0=${gtf_file.url}&query_url=${gtf_file.url}&server_url=galaxy + </param> + </link> +</display> \ No newline at end of file Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.