Mercurial > repos > yating-l > jbrowse_hub
changeset 25:55c62db02917 draft
planemo upload for repository https://github.com/Yating-L/jbrowse_hub commit e81fecac281f299db00cfc88a068e056b031ae9d-dirty
| author | yating-l |
|---|---|
| date | Tue, 14 Mar 2017 17:41:29 -0400 |
| parents | a051609fc8b4 |
| children | a4a54b925c73 |
| files | TrackHub.py jbrowse_hub.xml |
| diffstat | 2 files changed, 2 insertions(+), 4 deletions(-) [+] |
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--- a/TrackHub.py Tue Mar 14 17:03:13 2017 -0400 +++ b/TrackHub.py Tue Mar 14 17:41:29 2017 -0400 @@ -60,7 +60,7 @@ bam_track['storeClass'] = 'JBrowse/Store/SeqFeature/BAM' bam_track['label'] = track['fileName'] bam_track['urlTemplate'] = os.path.join('../raw', track['fileName']) - bam_track['baiUrlTemplate'] = os.path.join('../raw', track['fileName']) + #bam_track['baiUrlTemplate'] = os.path.join('../raw', track['fileName']) utils.add_tracks_to_json(json_file, bam_track, 'add_tracks') print "add bam track\n" elif track['dataType'] == 'bigwig':
--- a/jbrowse_hub.xml Tue Mar 14 17:03:13 2017 -0400 +++ b/jbrowse_hub.xml Tue Mar 14 17:41:29 2017 -0400 @@ -26,9 +26,7 @@ #end if #if $f.formatChoice.format_select == 'bam' --bam $f.formatChoice.BAM - #end if - #if $f.formatChoice.format_select == 'bai' - --bai $f.formatChoice.BAI + --bai $f.formatChoice.BAM.metadata.bam_index #end if #if $f.formatChoice.format_select == 'gff3_transcript' --gff3_transcript $f.formatChoice.GFF3_transcript