Good catch; fixed in -central changeset 8d7d70348e52 Thanks, J. On Jan 3, 2013, at 7:50 PM, Anthonius deBoer wrote:
To follow up... My data file had a build key assigned to it:
Tool: BAM to BigWig Name: BAM to BigWig on data 31 Created: Jan 04, 2013 Filesize: 39.9 MB Dbkey: hg19-decoy Format: bigwig Tool Version: Tool Standard Output: stdout Tool Standard Error: stderr Tool Exit Code: 0 Full Path: /mnt/ngs/analysis/svcgalaxy/DATA/files/002/dataset_2166.dat
and my build.txt file has that build listed:
#Harvested from http://genome-test.cse.ucsc.edu/cgi-bin/das/dsn ? unspecified (?) hg19-decoy Human hg19 + Decoy (BROAD; [0-9XYMT]*) (hg19-decoy) hg19-broad Human hg19 (BROAD; [0-9XYMT]*) (hg19-broad) hg19 Human hg19 (UCSC; chr[0-9XYM]*) (hg19)
On Jan 03, 2013, at 04:48 PM, Anthonius deBoer <thondeboer@me.com> wrote:
Got this when trying CIRCSTER on latest galaxy-dist.
Does this mean my system does not know about certain genomes?a Trackster works fine...
Thon
Error Traceback: View as: Interactive | Text | XML (full) ⇝ TypeError: argument of type 'NoneType' is not iterable URL: http://srv151/visualization/circster?dataset_id=241d84796a24640a&hda_ldda=hda Module weberror.evalexception.middleware:364 in respond view
app_iter = self.application(environ, detect_start_response) Module paste.debug.prints:98 in __call__ view environ, self.app) Module paste.wsgilib:539 in intercept_output view app_iter = application(environ, replacement_start_response) Module paste.recursive:80 in __call__ view return self.application(environ, start_response) Module galaxy.web.framework.middleware.remoteuser:91 in __call__ view return self.app( environ, start_response ) Module paste.httpexceptions:632 in __call__ view return self.application(environ, start_response) Module galaxy.web.framework.base:160 in __call__ view body = method( trans, **kwargs ) Module galaxy.webapps.galaxy.controllers.visualization:748 in circster view chroms_info = self.app.genomes.chroms( trans, dbkey=dbkey ) Module galaxy.visualization.genomes:210 in chroms view dbkey_owner, dbkey = decode_dbkey( dbkey ) Module galaxy.visualization.genomes:24 in decode_dbkey view if ':' in dbkey: TypeError: argument of type 'NoneType' is not iterable
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