1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/changeset/8aa0ac9eef9e/ changeset: 8aa0ac9eef9e user: jgoecks date: 2012-05-15 16:17:44 summary: Do not use tabix for GFF/GTF because tabix is woefully naive about these data formats. affected #: 2 files
diff -r 60d7ff733697d1be532b042acb9410ed4405c978 -r 8aa0ac9eef9ec8d89051dacbd750ab407b037687 datatypes_conf.xml.sample --- a/datatypes_conf.xml.sample +++ b/datatypes_conf.xml.sample @@ -86,8 +86,7 @@ <datatype extension="gif" type="galaxy.datatypes.images:Gif" mimetype="image/gif"/><datatype extension="gmaj.zip" type="galaxy.datatypes.images:Gmaj" mimetype="application/zip"/><datatype extension="gtf" type="galaxy.datatypes.interval:Gtf" display_in_upload="true"> - <converter file="gff_to_bgzip_converter.xml" target_datatype="bgzip"/> - <converter file="gff_to_tabix_converter.xml" target_datatype="tabix" depends_on="bgzip"/> + <converter file="gff_to_interval_index_converter.xml" target_datatype="interval_index"/><converter file="gff_to_summary_tree_converter.xml" target_datatype="summary_tree"/></datatype><datatype extension="h5" type="galaxy.datatypes.binary:Binary" mimetype="application/octet-stream" subclass="True" />
diff -r 60d7ff733697d1be532b042acb9410ed4405c978 -r 8aa0ac9eef9ec8d89051dacbd750ab407b037687 lib/galaxy/datatypes/interval.py --- a/lib/galaxy/datatypes/interval.py +++ b/lib/galaxy/datatypes/interval.py @@ -955,7 +955,7 @@ Gff.set_meta( self, dataset, overwrite = overwrite, skip = i )
def get_track_type( self ): - return "FeatureTrack", {"data": "tabix", "index": "summary_tree"} + return "FeatureTrack", {"data": "interval_index", "index": "summary_tree"}
class Wiggle( Tabular, _RemoteCallMixin ):
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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