Re: [galaxy-user] Cuffdiff version not apparent
Hi Cory, A list of Galaxy dependancies can be found on the wiki at: http://wiki.galaxyproject.org/Admin/Tools/Tool%20Dependencies ...although many tools allow a range of tool versions. You can also identify the information about the specific tool versions by clicking on the View Details Œi¹ icon of a history item created by that tool and looking at the Tool Version field. If you¹re using the Galaxy public server (https://usegalaxy.org/) then clicking on the Œi¹ icon of a cuffdiff output file will show: Tool Version:cuffdiff v2.1.1 (4046M) Hope this helps. Cheers, Graham Dr. Graham Etherington Bioinformatics Support Officer, The Sainsbury Laboratory, Norwich Research Park, Norwich NR4 7UH. UK Tel: +44 (0)1603 450601 On 04/11/2013 20:57, Cory Dunn cd...@ku.edu.tr wrote: Dear Galaxy Staff: I was wondering which version of Cuffdiff is currently running on Galaxy. The wrapper version is 0.0.6, but I did not see the actual version of the underlying software under the Tool Version field (please see attached screen grab). Thanks for your help, Cory Dunn ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using reply all in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-user] galaxy-user Digest, Vol 89, Issue 4
Dear Graham, Thanks for the info. However, my problem is that the Tool Version field is completely empty in my history items (eg. Tophat2, Cuffdiff). I suppose I can check the dependancies list you described, but it would be important to know precisely which version was run on any given query. Best regards, Cory Message: 3 Date: Tue, 5 Nov 2013 09:45:19 + From: graham etherington (TSL) graham.ethering...@sainsbury-laboratory.ac.uk To: Cory Dunn cd...@ku.edu.tr, galaxy-u...@bx.psu.edu galaxy-u...@bx.psu.edu Subject: Re: [galaxy-user] Cuffdiff version not apparent Message-ID: ce9e6d0a.21768%graham.ethering...@sainsbury-laboratory.ac.uk Content-Type: text/plain; charset=Windows-1252 Hi Cory, A list of Galaxy dependancies can be found on the wiki at: http://wiki.galaxyproject.org/Admin/Tools/Tool%20Dependencies ...although many tools allow a range of tool versions. You can also identify the information about the specific tool versions by clicking on the View Details ?i? icon of a history item created by that tool and looking at the Tool Version field. If you?re using the Galaxy public server (https://usegalaxy.org/) then clicking on the ?i? icon of a cuffdiff output file will show: Tool Version:cuffdiff v2.1.1 (4046M) Hope this helps. Cheers, Graham ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using reply all in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-user] galaxy-user Digest, Vol 89, Issue 4
Thanks for the info. However, my problem is that the Tool Version field is completely empty in my history items (eg. Tophat2, Cuffdiff). I suppose I can check the dependancies list you described, but it would be important to know precisely which version was run on any given query. If you ran Cuffdiff in the last couple months, you used version 2.1.1 ; before that it was 1.3.x The version information was added in the last couple weeks, which is why you don't see it. Any runs going forward should include the version. J. Best regards, Cory Message: 3 Date: Tue, 5 Nov 2013 09:45:19 + From: graham etherington (TSL) graham.ethering...@sainsbury-laboratory.ac.uk To: Cory Dunn cd...@ku.edu.tr, galaxy-u...@bx.psu.edu galaxy-u...@bx.psu.edu Subject: Re: [galaxy-user] Cuffdiff version not apparent Message-ID: ce9e6d0a.21768%graham.ethering...@sainsbury-laboratory.ac.uk Content-Type: text/plain; charset=Windows-1252 Hi Cory, A list of Galaxy dependancies can be found on the wiki at: http://wiki.galaxyproject.org/Admin/Tools/Tool%20Dependencies ...although many tools allow a range of tool versions. You can also identify the information about the specific tool versions by clicking on the View Details ?i? icon of a history item created by that tool and looking at the Tool Version field. If you?re using the Galaxy public server (https://usegalaxy.org/) then clicking on the ?i? icon of a cuffdiff output file will show: Tool Version:cuffdiff v2.1.1 (4046M) Hope this helps. Cheers, Graham ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using reply all in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/ ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using reply all in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
