Re: [galaxy-dev] 3 questions

On Wed, Dec 2, 2015 at 5:07 PM, Olivier CLAUDE wrote: > Hello again, > > > > 1/ > > I managed to find WolfPsort on github. > You mean https://github.com/fmaguire/WoLFPSort ? I can see why Finlay Maguire did that although I'm not 100% sure that is within the licence. In

[galaxy-dev] 3 questions

Hello again, 1/ I managed to find WolfPsort on github. I followed the readme file and it work with the command line but when I tried to run it on galaxy with the one included in the package “tmhmm and signal” from peterjc, it gave me an error: “can’t locate fastafmt/GetOptWarnHandler.pm”

Re: [galaxy-dev] gcc error during pixman-0.32.4 installation on Mac OS X 10.11

Hans: I have had trouble with el capitan and gcc lately, updating the xcode commandlinetools sometimes helps. $ xcode-select --install M. On Wed, Dec 2, 2015 at 7:30 PM Hans Rudolph wrote: > Hi, > > I use Mac OS X 10.11.1 (El Capitan) - I append terminal output during

Re: [galaxy-dev] gcc error during pixman-0.32.4 installation on Mac OS X 10.11

Hi, I use Mac OS X 10.11.1 (El Capitan) - I append terminal output during the r-package installation and R INSTALLATION.LOG Cheers, Hans tool_shed.galaxy_install.tool_dependencies.recipe.step_handler DEBUG 2015-12-02 23:04:16,463 Successfully downloaded from url:

Re: [galaxy-dev] gcc error during pixman-0.32.4 installation on Mac OS X 10.11

Hi, I hope I am up-to-date: $ xcode-select —install yields: xcode-select: error: command line tools are already installed, use "Software Update" to install updates and software-update doesn’t show anything Cheers, Hans___ Please keep all

Re: [galaxy-dev] gcc error during pixman-0.32.4 installation on Mac OS X 10.11

Hi Hans, as non-Apple user I now a little bit lost here. Can you please read this one: http://stackoverflow.com/questions/10357804/configure-error-c-compiler-cannot-create-executables It seems to be a fruit problem :) The error message is not so meaningful than I had hoped. Cheers, Bjoern Am

Re: [galaxy-dev] gcc error during pixman-0.32.4 installation on Mac OS X 10.11

Hi, which operating system are you using? We ship precompiled binaries for x64-linux systems. So I wonder why your Galaxy is trying to compile R. Can you provide us with the INSTALLATION.log from the R package? Thanks, Bjoern Am 03.12.2015 um 00:49 schrieb Hans Rudolph: > Hi Björn, > > thanks

Re: [galaxy-dev] gcc error during pixman-0.32.4 installation on Mac OS X 10.11

Hi Björn, thanks very much for your efforts. Unfortunately, installation of the new deseq2-1-8-2 (uic, 2015-12-02) still fails for me - apparently due to the included package_r_3_2_1 which fails with "configure: error: C compiler cannot create executables” and the R error status stops deseq2

[galaxy-dev] Galaxy job scheduler slows down, when too many jobs are in the queue

Hi Over the last few days, I have encountered a very bizarre behavior of the internal Galaxy job scheduler. It all started with using the API to generate Data Libraries: Instead of generating individual Data Libraries when requested, I decided to make all HiSEQ and MiSEQ data which has been

Re: [galaxy-dev] gcc error during pixman-0.32.4 installation on Mac OS X 10.11

Hi, we just did not updated the packages. Sorry. I have now pushed everything to the TS's. Hopefully it is working now for you. Cheers, Bjoern > Thanks to Marius and Martin for fixing pixman-0.32.4! > > This new pixman-0.32.4 version (owned by devteam) is also used by the > new devteam