On Wed, Jan 20, 2016 at 9:19 AM, Floreline TOUCHARD <floreline.touch...@gmail.com> wrote: > Hi, > > I would like to add some tools of the EMBOSS suite (6.6.0) to my Galaxy > instance. It seems that the only wrapper available for Galaxy is for the > 5.0.0 version > (http://dev.list.galaxyproject.org/Galaxy-with-EMBOSS-5-or-EMBOSS-6-td4658043.html). > > I would like to know if someone has already tried (successfully or not) to > wrap this tools base on the old wrappers to estimate the workload that > awaits me (for prettyseq and water mostly).
There is work in progress here, see: https://github.com/galaxyproject/tools-iuc/issues/65 https://github.com/galaxyproject/tools-iuc/pull/131 Have you compared the API options to see if anything changed here in EMBOSS? I don't recall any major changes to water, but I don't use prettyseq at all. > Could there be an invalid datatype format for example ? Many datatypes were already defined for the EMBOSS 5.0.0 wrappers, so that is less likely to be a problem for EMBOSS 6.6.0 > I have another question regarding the NCBI BLAST+ suite : is there a way to > edit the XML file to enable the selection of multiple databases as proposed > by the command lines tool ? Possible by editing the wrappers, yes. However it will likely break if any of the paths have spaces in them due to the NCBI wanting a space separated list of database paths - a potential problem already in the makeblastdb wrapper. Are you wanting to use multiple databases from the *.loc files at once, multiple databases from the current history, or both? Please log this as an enhancement request here: https://github.com/peterjc/galaxy_blast/issues Thanks, Peter ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/