Re: [galaxy-user] tool.xml console redirection within command-tag

2011-10-24 Thread Peter Cock
On Mon, Oct 24, 2011 at 9:01 AM, Appelt, Uwe uwe.app...@nct-heidelberg.de wrote: Dear all, that has probably been asked 10e6 times, however, I don't find any comments on how to properly escape special characters in a toolxy.xml. What I want to achieve is the following: command

Re: [galaxy-user] tool.xml console redirection within command-tag

2011-10-24 Thread Appelt, Uwe
to $logFile: amp; amp;gt; #38;#62; Any other suggestions? Cheers, Uwe -Ursprüngliche Nachricht- Von: Peter Cock [mailto:p.j.a.c...@googlemail.com] Gesendet: Montag, 24. Oktober 2011 10:06 An: Appelt, Uwe Cc: galaxy-user@lists.bx.psu.edu Betreff: Re: [galaxy-user] tool.xml console

Re: [galaxy-user] tool.xml console redirection within command-tag

2011-10-24 Thread Peter Cock
On Mon, Oct 24, 2011 at 9:42 AM, Appelt, Uwe uwe.app...@nct-heidelberg.de wrote: Hi Peter, thanks a lot for your quick reply. However amp;gt; doesn't seem to work as well. Also, I do have to admit that two different doesn't work exist. Notations that are not accepted during parsing of

Re: [galaxy-user] tool.xml console redirection within command-tag

2011-10-24 Thread Appelt, Uwe
solved! Thanks Peter!!! Cheers, Uwe -Ursprüngliche Nachricht- Von: Peter Cock [mailto:p.j.a.c...@googlemail.com] Gesendet: Montag, 24. Oktober 2011 11:07 An: Appelt, Uwe Cc: galaxy-user@lists.bx.psu.edu Betreff: Re: [galaxy-user] tool.xml console redirection within command-tag On Mon, Oct

Re: [galaxy-user] tool.xml console redirection within command-tag

2011-10-24 Thread Peter Cock
Hi Uwe, On Mon, Oct 24, 2011 at 10:47 AM, Appelt, Uwe uwe.app...@nct-heidelberg.de wrote: Hi again, yes, you're right. The problem source is something else. As soon as I specify one of the following command interpreter=bash$hisapWrapperScript amp;gt; $logFile/command command

Re: [galaxy-user] tool.xml console redirection within command-tag

2011-10-24 Thread Appelt, Uwe
-Ursprüngliche Nachricht- Von: Peter Cock [mailto:p.j.a.c...@googlemail.com] Gesendet: Montag, 24. Oktober 2011 12:06 An: Appelt, Uwe Cc: galaxy-user@lists.bx.psu.edu; galaxy-...@lists.bx.psu.edu Betreff: Re: [galaxy-user] tool.xml console redirection within command-tag Hi Uwe, On Mon