Hi Congmao,
So others reading this know what we are talking about, this is the wiki: http://wiki.g2.bx.psu.edu/Admin/Tools/Tool%20Dependencies
The tools listed without version numbers are those without any known issues with either the common used current versions or standard utilities packaged with an OS.
For example, the current version of liftOver that UCSC has available here would be appropriate to use with Galaxy: http://hgdownload.cse.ucsc.edu/admin/exe/
Another example is Perl, the latest version available is 5.14.2, and would be preferred, but perl 5 in general should be OK: http://www.perl.org/get.html
Standard unix utilities such as awk are normally installed when the OS is installed, so if the OS is up to date, the utilities should be fine as well.
If you do run into an issue that you think is related to a specific tool/utility version (that isn't a much older version or a beta version), we would definitely like to look into it. The best way to do this is to send in an example that we can use to reproduce the error. If this is a slightly older, but still common version, we'll note that in the Tool Dependencies wiki as a version to avoid. If this a brand new version, we'll make a note to alert users, then open a ticket to decide how to address the change.
Great question, I'll update the wiki to make this information clearer for everyone going forward,
Best,
Jen Galaxy team
On 3/21/12 2:17 AM, springwang@sjtu.edu.cn wrote:
Dear all, Whether it is ok to any version of some certain software if there is no version number listed in the brackets? For example, liftOver (UCSC) (), Perl (), awk () and etc. Many thanks!
Best wishes, Congmao ___________________________________________________________ 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: