Re: [galaxy-dev] tool xml substitutes special characters in text parameter

2014-07-28 Thread Wolfgang Maier
On 28.07.2014 13:32, Peter Cock wrote: On Mon, Jul 28, 2014 at 12:23 PM, Wolfgang Maier wrote: On 28.07.2014 12:22, Peter Cock wrote: This is standard behaviour to prevent special characters being used to construct malicious command lines. It can be configured within your tool definition usin

Re: [galaxy-dev] tool xml substitutes special characters in text parameter

2014-07-28 Thread Peter Cock
On Mon, Jul 28, 2014 at 12:23 PM, Wolfgang Maier wrote: > On 28.07.2014 12:22, Peter Cock wrote: >> >> This is standard behaviour to prevent special characters being used >> to construct malicious command lines. It can be configured within >> your tool definition using the tag set: >> >> https://

Re: [galaxy-dev] tool xml substitutes special characters in text parameter

2014-07-28 Thread Wolfgang Maier
On 28.07.2014 12:22, Peter Cock wrote: This is standard behaviour to prevent special characters being used to construct malicious command lines. It can be configured within your tool definition using the tag set: https://wiki.galaxyproject.org/Admin/Tools/ToolConfigSyntax#A.3Csanitizer.3E_tag_

Re: [galaxy-dev] tool xml substitutes special characters in text parameter

2014-07-28 Thread Peter Cock
On Mon, Jul 28, 2014 at 11:03 AM, Wolfgang Maier wrote: > Dear all, > > I noticed that with params of type "text" Galaxy seems to replace certain > characters before passing them to the shell. As examples, it changes "@" to > "__at__", "}" to "__cc__" and "\" to "X". > Is this the standard behavio

[galaxy-dev] tool xml substitutes special characters in text parameter

2014-07-28 Thread Wolfgang Maier
Dear all, I noticed that with params of type "text" Galaxy seems to replace certain characters before passing them to the shell. As examples, it changes "@" to "__at__", "}" to "__cc__" and "\" to "X". Is this the standard behavior or am I doing something wrong ? And if it's standard, are ther