My histories seem to be stopping their processing around the Tophat-cuffmerge steps since the change over of Galaxy online. Sometimes a red box appears over my history name but disappears in a minute or less.
I am wondering, given the way the Toolshed now looks different for RNAseq work, if some changes have been made that are disallowing the procedures I used previously. For example: I run larger Fastq files (100 million to 200 million 50bp single-ended reads per sample). I have been grooming my illumina fastq's, using Tophat (not Tophat2) for alignment, then Cuffmerge, then Cuffdiff. This worked in the past but my history are just getting thru Tophat or Cuffmerge and stalling. Should I be doing this in a different manner? This has been my second time around with these datasets after it was suggested that I delete and start all over again. Elwood Linney
___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
