Re: [galaxy-dev] IPython and Rstudio are missing

Hi all, Thank you for the link. I did not know about the link. @Bjoern: Few month back I saw somewhere a website where it was possible to download a VM with Galaxy. By any chance, do you remember the link? Thank you in advance. Mic On Wed, Nov 11, 2015 at 10:29 PM, Björn Grüning

Re: [galaxy-dev] ProFTPD with SQLite

Hi Mic, Am 12.11.2015 um 01:22 schrieb Mic: > Hello, > I installed all tools from the toolshed which I needed for Galaxy (15.10) > and noticed that I can not upload bigger files than 2 GB to Galaxy without > a FTP server. > > I installed on Ubuntu 14.04 ProFTPD in the following way: > >

Re: [galaxy-dev] Tmhmm and signal P

Hi Olivier, you need to have signalp in version 3. You have installed it already and it is now on your $PATH? > Signal P: with v3.0: it can’t localize it (signal not found) (I can’t even > launch it in command line) What is the error if you run it on command line? Ciao, Bjoern > >

Re: [galaxy-dev] Tmhmm and signal P

Hi Björn! I do have signalP 3 , it's installed and on the path. The tests files are the ones from the archive (no changes nor I tried to open it manually) The exact lines in the prompt are: $SIGNALP Signalp -G -t euk test/test.seq Gawk: fatal: cannot open file 'test/test.seq' for reading (no

Re: [galaxy-dev] Tmhmm and signal P

Hi Olivier, On Thu, Nov 12, 2015 at 1:03 PM, Olivier CLAUDE wrote: > Hi Björn! > > I do have signalP 3 , it's installed and on the path. Good. It is a shame that CBS use a proprietary license which forbids redistribution and packaging - otherwise I could have tried to

Re: [galaxy-dev] Tmhmm and signal P

Hi Peter, I totally agree with you about the CBS, i had so much problems to get the files, there are so many restrictions with my university mails. > That's not right - the case is all inconsistent. The binary name signalp is > all lower case, so if gawk, but I infer you had something like

Re: [galaxy-dev] ProFTPD with SQLite

HI Bjoern, Thank you for your email. I have just started to build a new docker container based on bgruening/galaxy-stable:15.07 . It seems that 15.10 has not been yet included. The problem which I have with Docker container is that if a tool from the toolshed failed to install then I can not get

[galaxy-dev] Tool request: Integration von SecretomeP v1.0 in Galaxy

Dear Galaxy Developers, I would like to have this tool integrated into Galaxy. It is similar to SignalP, however, where SignalP predict conventional secretion / membrane integration, SecretomeP predicts unconventional secretion. More information is in the attached paper. A browser-version of

Re: [galaxy-dev] Tmhmm and signal P

On Thu, Nov 12, 2015 at 4:24 PM, Olivier CLAUDE wrote: > I followed the instuctions given by peter and signalp works with galaxy! > Thanks a lot! > Do I try the same for tmhmm2 and promoter2? > Thanks a lot again! > > Olivier Our notes from installing tmhmm2: TMHMM arrives