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Re: Remaining issue with gbrowse - any help (Was: Urgent call to BioPerl users (Was: Bug#848236: src:gbrowse: ...)

I made a few changes in a branch off that security-bug-fixes branch that quieted several warning messages, though I still need to sort out at least one problem (the memory adaptor doesn't seem to be reading fasta files, but also doesn't emit a warning about a problem).  Lincoln, if you want to look at this pull request, you could pull those changes into the security bug fix branch:



On Thu, Jan 12, 2017 at 1:57 PM, Lincoln Stein <lincoln.stein@gmail.com> wrote:
Hi Andreas,

I was able to remove the vast majority of the warnings and other incompatibility issues, but need to do more testing to identify areas of the code that were not covered. How much time do I have? If you want to go with a fully functional version that may issue warnings when the user takes certain rare actions, it is the "security-bug-fixes" branch at https://github.com/GMOD/GBrowse


On Thu, Jan 12, 2017 at 1:39 PM, Andreas Tille <andreas@an3as.eu> wrote:
Hi Lincoln,

On Wed, Dec 21, 2016 at 06:25:46PM -0500, Lincoln Stein wrote:
> I am devoting several days over the Christmas holidays to fixing the
> various outstanding bugs in gbrowse. Stay tuned!

Did you managed to managed to work on this?  If not we probably can not
include gbrowse in the next Debian stable release which would be a

Kind regards



Lincoln Stein

Scientific Director (Interim), Ontario Institute for Cancer Research
Director, Informatics and Bio-computing Program, OICR
Senior Principal Investigator, OICR
Professor, Department of Molecular Genetics, University of Toronto

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